RAD18 is a RING-type E3 ubiquitin ligase (EC 2.3.2.27) that functions as a central regulator of DNA damage tolerance (DDT). In complex with its E2 partner RAD6 (UBE2A/UBE2B), RAD18 catalyzes monoubiquitination of PCNA at Lys164, which is the key initiating event for translesion DNA synthesis (TLS). This modification recruits Y-family TLS polymerases (e.g., POL eta) to stalled replication forks, enabling bypass of DNA lesions. RAD18 contains functional domains including a RING finger (E3 ligase catalytic activity), UBZ domain (ubiquitin binding/damage site targeting), SAP domain (DNA/chromatin binding for recognition of forked/ssDNA), and a PIP-like motif for PCNA interaction. RAD18 also participates in error-free template switching via K63-linked PCNA polyubiquitination and exhibits crosstalk with the Fanconi anemia pathway and homologous recombination.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
|
GO:0005634
nucleus
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: RAD18 is localized to the nucleus where it carries out its DNA damage tolerance functions. Multiple studies confirm nuclear localization: PMID:10884424 identified hRAD18 as nuclear, PMID:15632077 showed RAD18 colocalizes with BRCTx in the nucleus, PMID:22036607 demonstrated nuclear localization and nuclear inclusion body formation, and PMID:25023518 showed nuclear foci formation after DNA damage.
Reason: Nuclear localization is well-supported by multiple experimental studies. The IBA annotation is phylogenetically consistent with experimental evidence from human and model organisms.
Supporting Evidence:
PMID:10884424
hRad18 protein binds to hHR6 protein through a conserved ring-finger motif
PMID:15632077
BRCTx binds to the C terminus of hRAD18 in yeast two-hybrid and immunoprecipitation assays and colocalizes with this protein in the nucleus
PMID:22036607
RAD18-BRCTx interaction is required for efficient repair of UV-induced DNA damage
file:human/RAD18/RAD18-deep-research-falcon.md
model: Edison Scientific Literature
|
|
GO:0006301
DNA damage tolerance
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: DNA damage tolerance is the core biological process of RAD18. RAD18-mediated PCNA monoubiquitination is the key initiating event for translesion synthesis and template switching, both major branches of DDT. Loss of RAD18 results in defective postreplication repair and hypersensitivity to UV, MMS, and mitomycin C (PMID:10884424). Recent studies (Chen et al. 2024, Ma et al. 2024) confirm RAD18's central role in DDT through PCNA ubiquitination.
Reason: This is the primary biological process annotation for RAD18 and is strongly supported by extensive literature. The IBA annotation correctly captures the core function.
Supporting Evidence:
PMID:10884424
Stable transformants with hRad18 mutated in this motif become sensitive to UV, methyl methanesulfonate, and mitomycin C, and are defective in the replication of UV-damaged DNA
PMID:10908344
Through interaction and complex formation with HHR6A and HHR6B, RAD18 protein may play an important role in lesion bypass mechanisms in humans
|
|
GO:0006513
protein monoubiquitination
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: RAD18, together with E2 RAD6, catalyzes monoubiquitination of PCNA at Lys164. This is the primary enzymatic output of RAD18 activity. Multiple studies confirm this including PMID:18363965 which shows the SAP domain is required for efficient mono-ubiquitination of PCNA, and PMID:25023518 which demonstrates that Rad18 is required for PCNA monoubiquitination.
Reason: Protein monoubiquitination accurately describes RAD18's enzymatic activity on its primary substrate PCNA. This is a core function annotation.
Supporting Evidence:
PMID:18363965
The SAP domain is also required for the efficient mono-ubiquitination of PCNA
PMID:25023518
Rad18 is a central E3 ubiquitin ligase in DDT, which exists in a monoubiquitinated (Rad18β’Ub) and nonubiquitinated form in human cells
|
|
GO:0097505
Rad6-Rad18 complex
|
IBA
GO_REF:0000033 |
ACCEPT |
Summary: RAD18 forms a stable complex with RAD6 (UBE2A/UBE2B in humans) that is essential for its E3 ubiquitin ligase function. PMID:10908344 demonstrated that human RAD18 interacts with HHR6A and HHR6B, with stable protein complexes identified and purified. PMID:10884424 showed hRad18 binds to hHR6 through the conserved ring-finger motif. PMID:18363965 confirmed that RAD18 complexed with RAD6B is recruited to stalled replication forks.
Reason: Complex formation with RAD6 is essential for RAD18 function and is well-supported by multiple experimental studies in human cells.
Supporting Evidence:
PMID:10908344
Human RAD18 protein (hRAD18) was found to interact with HHR6A and HHR6B. When co-expressed in yeast cells, stable hRAD18-HHR6A and hRAD18-HHR6B protein complexes were identified and purified to near homogeneity
PMID:10884424
In vivo, hRad18 protein binds to hHR6 protein through a conserved ring-finger motif
|
|
GO:0003677
DNA binding
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: RAD18 binds DNA through its SAP domain, with preference for forked and single-stranded DNA structures. PMID:18363965 provides direct experimental evidence that RAD18 complexed with RAD6B preferentially binds to forked and ssDNA structures, with the SAP domain (residues 248-282) being crucial for DNA binding.
Reason: DNA binding is experimentally validated. The IEA annotation is correct and supported by direct evidence in PMID:18363965.
Supporting Evidence:
PMID:18363965
Human RAD18 complexed with RAD6B protein preferentially binds to forked and single-stranded DNA (ssDNA) structures
|
|
GO:0003697
single-stranded DNA binding
|
IEA
GO_REF:0000002 |
ACCEPT |
Summary: PMID:18363965 directly demonstrated that RAD18-RAD6B complex binds to ssDNA structures localized at stalled replication forks. This binding is mediated by the SAP domain.
Reason: The IEA annotation is validated by experimental evidence. ssDNA binding is a more specific annotation than general DNA binding and accurately reflects RAD18's substrate preference.
Supporting Evidence:
PMID:18363965
Human RAD18 complexed with RAD6B protein preferentially binds to forked and single-stranded DNA (ssDNA) structures, which are known to be localized at stalled replication forks
|
|
GO:0005634
nucleus
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: Duplicate annotation of nucleus localization, also supported by IBA evidence. Well-validated experimentally (see IBA annotation review above).
Reason: Correct annotation, duplicative with IBA but acceptable.
Supporting Evidence:
PMID:15632077
colocalizes with this protein in the nucleus
|
|
GO:0005694
chromosome
|
IEA
GO_REF:0000117 |
ACCEPT |
Summary: RAD18 functions at replication forks and DNA damage sites on chromosomes. Its localization to chromatin during DNA damage response is well-documented, including localization to stalled replication forks and sites of double-strand breaks.
Reason: RAD18's association with chromosomes during replication stress and DNA damage is consistent with its function.
Supporting Evidence:
PMID:18363965
RAD18 complexed with RAD6B is recruited to stalled replication forks
|
|
GO:0005813
centrosome
|
IEA
GO_REF:0000044 |
ACCEPT |
Summary: PMID:15632077 provides experimental evidence that BRCTx (a RAD18-interacting protein) localizes to the centrosome, and the study showed RAD18 interaction with BRCTx. RAD18 centrosome localization is experimentally supported.
Reason: Centrosome localization is supported by IDA evidence from PMID:15632077, validating the IEA annotation.
Supporting Evidence:
PMID:15632077
the BRCT domain of BRCTx is responsible for mediating its localization to the nucleus and centrosome in interphase cells
|
|
GO:0006281
DNA repair
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: RAD18 participates in DNA repair through its role in postreplication repair. While DNA damage tolerance (GO:0006301) is more precise for RAD18's primary function, DNA repair as a parent term is not incorrect. PMID:10884424 describes RAD18's role in postreplication repair.
Reason: DNA repair is a broader term that encompasses RAD18's function. While DNA damage tolerance is more specific, this annotation is not incorrect.
Supporting Evidence:
PMID:10884424
Dysfunction of human Rad18 results in defective postreplication repair and hypersensitivity to multiple mutagens
|
|
GO:0006301
DNA damage tolerance
|
IEA
GO_REF:0000002 |
ACCEPT |
Summary: Duplicate of IBA annotation. DNA damage tolerance is the core biological process for RAD18.
Reason: Correct annotation, duplicative with IBA evidence but acceptable.
Supporting Evidence:
PMID:10884424
Dysfunction of human Rad18 results in defective postreplication repair
|
|
GO:0006513
protein monoubiquitination
|
IEA
GO_REF:0000002 |
ACCEPT |
Summary: Duplicate of IBA annotation. RAD18 catalyzes PCNA monoubiquitination.
Reason: Correct annotation, duplicative with IBA evidence.
Supporting Evidence:
PMID:18363965
The SAP domain is also required for the efficient mono-ubiquitination of PCNA
|
|
GO:0006974
DNA damage response
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: RAD18 is involved in the cellular response to DNA damage, particularly at stalled replication forks. Multiple IDA annotations support this (PMID:22036607, PMID:25023518, PMID:25931565).
Reason: DNA damage response is well-supported by multiple experimental studies.
Supporting Evidence:
PMID:22036607
RAD18-BRCTx interaction is required for efficient repair of UV-induced DNA damage
|
|
GO:0008270
zinc ion binding
|
IEA
GO_REF:0000043 |
ACCEPT |
Summary: RAD18 contains a RING finger domain and a UBZ (ubiquitin-binding zinc finger) domain, both of which coordinate zinc ions. The RING domain is essential for E3 ligase activity.
Reason: Zinc ion binding is structurally required for both the RING and UBZ domains. This is a valid molecular function annotation.
Supporting Evidence:
PMID:10884424
hRad18 protein binds to hHR6 protein through a conserved ring-finger motif
|
|
GO:0016740
transferase activity
|
IEA
GO_REF:0000043 |
MODIFY |
Summary: RAD18 has E3 ubiquitin ligase activity (EC 2.3.2.27), which is a type of transferase. However, this is a very general term.
Reason: While technically correct, GO:0061630 (ubiquitin protein ligase activity) or GO:0004842 (ubiquitin-protein transferase activity) are more specific and informative.
Proposed replacements:
ubiquitin protein ligase activity
|
|
GO:0046872
metal ion binding
|
IEA
GO_REF:0000043 |
ACCEPT |
Summary: RAD18 binds zinc ions through its RING finger and UBZ domains. Metal ion binding is a parent term of zinc ion binding.
Reason: Correct but redundant with zinc ion binding annotation. Both are valid.
|
|
GO:0061630
ubiquitin protein ligase activity
|
IEA
GO_REF:0000120 |
ACCEPT |
Summary: RAD18 is a RING-type E3 ubiquitin ligase (EC 2.3.2.27). It catalyzes ubiquitin transfer from E2 RAD6 to substrate PCNA. This is the core molecular function of RAD18.
Reason: This is the primary molecular function annotation for RAD18 and accurately describes its enzymatic activity.
Supporting Evidence:
PMID:10884424
hRad18 protein binds to hHR6 protein through a conserved ring-finger motif
PMID:10908344
stable hRAD18-HHR6A and hRAD18-HHR6B protein complexes were identified and purified
|
|
GO:0005515
protein binding
|
IPI
PMID:18316726 Human HLTF functions as a ubiquitin ligase for proliferating... |
REMOVE |
Summary: This annotation reflects RAD18 interaction with HLTF (Q14527). The study examined HLTF's role in PCNA polyubiquitination and showed RAD18-HLTF interaction.
Reason: Per curation guidelines, GO:0005515 (protein binding) is uninformative and should be replaced with more specific terms. The RAD18-HLTF interaction is functionally relevant to DNA damage tolerance pathway.
Supporting Evidence:
PMID:18316726
Human HLTF functions as a ubiquitin ligase for proliferating cell nuclear antigen polyubiquitination.
|
|
GO:0005515
protein binding
|
IPI
PMID:18719106 Polyubiquitination of proliferating cell nuclear antigen by ... |
REMOVE |
Summary: Another HLTF interaction annotation. HLTF and SHPRH are E3 ligases that interact with RAD18 for PCNA polyubiquitination.
Reason: GO:0005515 is uninformative. The interaction with HLTF is relevant to RAD18's role in DNA damage tolerance but protein binding term lacks specificity.
Supporting Evidence:
PMID:18719106
Polyubiquitination of proliferating cell nuclear antigen by HLTF and SHPRH prevents genomic instability from stalled replication forks.
|
|
GO:0005515
protein binding
|
IPI
PMID:19549727 Analysis of the human E2 ubiquitin conjugating enzyme protei... |
REMOVE |
Summary: High-throughput E2 interaction network study. Shows RAD18 interaction with UBE2A (P49459) and UBE2B (P63146), its E2 partners.
Reason: The RAD6 interaction is important but captured by Rad6-Rad18 complex annotation. Protein binding is too general.
Supporting Evidence:
PMID:19549727
Analysis of the human E2 ubiquitin conjugating enzyme protein interaction network.
|
|
GO:0005515
protein binding
|
IPI
PMID:21422291 E3 ligase Rad18 promotes monoubiquitination rather than ubiq... |
REMOVE |
Summary: Study on RAD18 promoting monoubiquitination rather than chain formation. Shows RAD18-UBE2B interaction.
Reason: GO:0005515 is uninformative. The E2 interaction is captured by complex annotation.
Supporting Evidence:
PMID:21422291
E3 ligase Rad18 promotes monoubiquitination rather than ubiquitin chain formation by E2 enzyme Rad6.
|
|
GO:0005515
protein binding
|
IPI
PMID:24981860 Human-chromatin-related protein interactions identify a deme... |
REMOVE |
Summary: Chromatin-related protein interaction study. Shows RAD18-UBE2A interaction.
Reason: GO:0005515 is uninformative. High-throughput interactome data.
Supporting Evidence:
PMID:24981860
2014 Jun 26. Human-chromatin-related protein interactions identify a demethylase complex required for chromosome segregation.
|
|
GO:0005515
protein binding
|
IPI
PMID:25416956 A proteome-scale map of the human interactome network. |
REMOVE |
Summary: Large-scale human interactome mapping. Shows RAD18 interaction with TAX1BP1 (Q86VP1).
Reason: GO:0005515 is uninformative. High-throughput interactome data.
Supporting Evidence:
PMID:25416956
A proteome-scale map of the human interactome network.
|
|
GO:0005515
protein binding
|
IPI
PMID:26496610 A human interactome in three quantitative dimensions organiz... |
REMOVE |
Summary: Quantitative interactome study. Shows RAD18-UBE2A interaction.
Reason: GO:0005515 is uninformative. Redundant with other E2 interaction annotations.
Supporting Evidence:
PMID:26496610
Oct 22. A human interactome in three quantitative dimensions organized by stoichiometries and abundances.
|
|
GO:0005515
protein binding
|
IPI
PMID:28514442 Architecture of the human interactome defines protein commun... |
REMOVE |
Summary: Architecture of human interactome. Shows interactions with MAGEA3 (P43358) and UBE2B (P63146).
Reason: GO:0005515 is uninformative. High-throughput interactome data.
Supporting Evidence:
PMID:28514442
Architecture of the human interactome defines protein communities and disease networks.
|
|
GO:0005515
protein binding
|
IPI
PMID:32296183 A reference map of the human binary protein interactome. |
REMOVE |
Summary: Reference map of human binary interactome. Shows multiple interactions including SA1 (O14737), MAGEA3, GOLGA2, ORC2, DAZAP1, TAX1BP1, NAPB.
Reason: GO:0005515 is uninformative. High-throughput interactome data.
Supporting Evidence:
PMID:32296183
Apr 8. A reference map of the human binary protein interactome.
|
|
GO:0005515
protein binding
|
IPI
PMID:32814053 Interactome Mapping Provides a Network of Neurodegenerative ... |
REMOVE |
Summary: Neurodegenerative disease interactome study. Shows interactions with ATXN1 (P54253) and TARDBP (Q13148).
Reason: GO:0005515 is uninformative. These interactions may not be functionally relevant to RAD18's core DNA damage tolerance function.
Supporting Evidence:
PMID:32814053
Interactome Mapping Provides a Network of Neurodegenerative Disease Proteins and Uncovers Widespread Protein Aggregation in Affected Brains.
|
|
GO:0005515
protein binding
|
IPI
PMID:33961781 Dual proteome-scale networks reveal cell-specific remodeling... |
REMOVE |
Summary: Cell-specific interactome remodeling. Shows MAGEA3 and UBE2B interactions.
Reason: GO:0005515 is uninformative. The UBE2B interaction is captured by complex annotation.
Supporting Evidence:
PMID:33961781
2021 May 6. Dual proteome-scale networks reveal cell-specific remodeling of the human interactome.
|
|
GO:0005515
protein binding
|
IPI
PMID:40205054 Multimodal cell maps as a foundation for structural and func... |
REMOVE |
Summary: Multimodal cell maps study. Shows MAGEA3 interaction.
Reason: GO:0005515 is uninformative.
Supporting Evidence:
PMID:40205054
Apr 9. Multimodal cell maps as a foundation for structural and functional genomics.
|
|
GO:0005654
nucleoplasm
|
IDA
GO_REF:0000052 |
ACCEPT |
Summary: HPA immunofluorescence data showing RAD18 localization in nucleoplasm. Consistent with RAD18's nuclear function in DNA damage tolerance.
Reason: Nucleoplasm localization is consistent with RAD18's function at replication forks and DNA damage sites.
|
|
GO:0016604
nuclear body
|
IDA
GO_REF:0000052 |
ACCEPT |
Summary: HPA data showing RAD18 in nuclear bodies. RAD18 forms foci at DNA damage sites, consistent with this annotation.
Reason: Nuclear body localization is consistent with RAD18's DNA damage-induced foci formation.
Supporting Evidence:
PMID:22036607
this interaction, mediated via highly conserved serine residues on the RAD18 C terminus, is required for BRCTx accumulation at DNA damage sites
|
|
GO:0016607
nuclear speck
|
IDA
GO_REF:0000052 |
ACCEPT |
Summary: HPA data showing RAD18 in nuclear specks. This may reflect RAD18 foci or storage/regulatory localization.
Reason: Consistent with nuclear localization data from HPA.
|
|
GO:0016567
protein ubiquitination
|
IEA
GO_REF:0000041 |
ACCEPT |
Summary: RAD18 catalyzes ubiquitination of PCNA. This is a parent term of protein monoubiquitination.
Reason: Correct but less specific than protein monoubiquitination. Both annotations are valid.
|
|
GO:0005515
protein binding
|
IPI
PMID:35849344 LncRNA CTBP1-DT-encoded microprotein DDUP sustains DNA damag... |
REMOVE |
Summary: LncRNA CTBP1-DT microprotein DDUP interaction study.
Reason: GO:0005515 is uninformative.
Supporting Evidence:
PMID:35849344
LncRNA CTBP1-DT-encoded microprotein DDUP sustains DNA damage response signalling to trigger dual DNA repair mechanisms.
|
|
GO:0005634
nucleus
|
IDA
PMID:25023518 DNA damage-specific deubiquitination regulates Rad18 functio... |
ACCEPT |
Summary: Zeman et al. 2014 showed RAD18 nuclear localization and formation of nuclear foci after DNA damage. The study demonstrates wild-type RAD18 forms detergent-resistant nuclear foci after MMS, UV, or ionizing radiation treatment.
Reason: Strong experimental evidence for nuclear localization. Core localization annotation.
Supporting Evidence:
PMID:25023518
Although wild-type Rad18 foci were observed after MMS treatment
|
|
GO:0006974
DNA damage response
|
IDA
PMID:25023518 DNA damage-specific deubiquitination regulates Rad18 functio... |
ACCEPT |
Summary: Zeman et al. 2014 comprehensively demonstrated RAD18's role in DNA damage response. RAD18 is deubiquitinated after MMS/H2O2 treatment, enabling interaction with SHPRH for error-free bypass.
Reason: Strong experimental support for RAD18's involvement in DNA damage response.
Supporting Evidence:
PMID:25023518
Upon exposure to MMS or H2O2, Rad18 is deubiquitinated, promoting a switch from Rad18β’UbβRad18 complexes to Rad18βSHPRH complexes and error-free bypass of DNA lesions
|
|
GO:0042802
identical protein binding
|
IDA
PMID:25023518 DNA damage-specific deubiquitination regulates Rad18 functio... |
ACCEPT |
Summary: Zeman et al. 2014 demonstrated RAD18 homodimerization/self-interaction. The ubiquitinated form of RAD18 (Rad18-Ub) preferentially binds to non-ubiquitinated RAD18, and this interaction modulates RAD18 activity.
Reason: Self-interaction is experimentally demonstrated and functionally significant. This is more informative than generic protein binding.
Supporting Evidence:
PMID:25023518
Interestingly, Rad18β’Ub also has a strong preference for binding to nonubiquitinated Rad18, suggesting that the ubiquitinated form may inhibit other Rad18 molecules in trans
|
|
GO:0051865
protein autoubiquitination
|
IDA
PMID:25023518 DNA damage-specific deubiquitination regulates Rad18 functio... |
ACCEPT |
Summary: RAD18 undergoes autoubiquitination with its E2 partner RAD6. Zeman et al. 2014 showed that ~25% of RAD18 exists in monoubiquitinated form, and this is enhanced by RAD6 co-expression.
Reason: Autoubiquitination is experimentally demonstrated and is an important regulatory mechanism for RAD18 activity.
Supporting Evidence:
PMID:25023518
Rad18 is monoubiquitinated in several different mammalian cell lines
|
|
GO:0005515
protein binding
|
IPI
PMID:22036607 RAD18-BRCTx interaction is required for efficient repair of ... |
REMOVE |
Summary: RAD18-BRCTx (Q8R3P9) interaction. BRCTx is a RAD18-interacting protein.
Reason: GO:0005515 is uninformative. The RAD18-BRCTx interaction is functionally relevant but should be captured by more specific terms.
Supporting Evidence:
PMID:22036607
Epub 2011 Oct 28. RAD18-BRCTx interaction is required for efficient repair of UV-induced DNA damage.
|
|
GO:0005634
nucleus
|
IDA
PMID:15632077 BRCTx is a novel, highly conserved RAD18-interacting protein... |
ACCEPT |
Summary: Adams et al. 2005 showed BRCTx colocalizes with RAD18 in the nucleus.
Reason: Confirms nuclear localization.
Supporting Evidence:
PMID:15632077
BRCTx binds to the C terminus of hRAD18 in yeast two-hybrid and immunoprecipitation assays and colocalizes with this protein in the nucleus
|
|
GO:0005634
nucleus
|
IDA
PMID:22036607 RAD18-BRCTx interaction is required for efficient repair of ... |
ACCEPT |
Summary: Liu et al. 2012 confirmed RAD18 nuclear localization during UV damage response.
Reason: Confirms nuclear localization.
Supporting Evidence:
PMID:22036607
Epub 2011 Oct 28. RAD18-BRCTx interaction is required for efficient repair of UV-induced DNA damage.
|
|
GO:0005813
centrosome
|
IDA
PMID:15632077 BRCTx is a novel, highly conserved RAD18-interacting protein... |
ACCEPT |
Summary: Adams et al. 2005 showed BRCTx localizes to centrosome and interacts with RAD18. This suggests RAD18 may also localize to centrosome through BRCTx interaction.
Reason: Centrosome localization is supported by experimental evidence.
Supporting Evidence:
PMID:15632077
the BRCT domain of BRCTx is responsible for mediating its localization to the nucleus and centrosome in interphase cells
|
|
GO:0006974
DNA damage response
|
IDA
PMID:22036607 RAD18-BRCTx interaction is required for efficient repair of ... |
ACCEPT |
Summary: Liu et al. 2012 demonstrated RAD18-BRCTx module is critical for UV-induced DNA damage repair.
Reason: Strong experimental support for DNA damage response involvement.
Supporting Evidence:
PMID:22036607
RAD18-BRCTx interaction is required for efficient repair of UV-induced DNA damage
|
|
GO:0042405
nuclear inclusion body
|
IDA
PMID:22036607 RAD18-BRCTx interaction is required for efficient repair of ... |
ACCEPT |
Summary: Liu et al. 2012 showed RAD18 forms nuclear inclusion bodies during DNA damage.
Reason: Specific localization during DNA damage response.
Supporting Evidence:
PMID:22036607
this interaction, mediated via highly conserved serine residues on the RAD18 C terminus, is required for BRCTx accumulation at DNA damage sites
|
|
GO:0044877
protein-containing complex binding
|
IPI
PMID:25931565 DNA repair. Proteomics reveals dynamic assembly of repair co... |
ACCEPT |
Summary: Raschle et al. 2015 identified SLF1 (Q8IY18) and SLF2 (Q96SB8) as forming a complex with RAD18 that recruits SMC5/6 to DNA lesions.
Reason: More informative than generic protein binding. RAD18 forms a complex with SLF1/SLF2 for SMC5/6 recruitment.
Supporting Evidence:
PMID:25931565
SLF1 and SLF2, which form a complex with RAD18 and together define a pathway that suppresses genome instability by recruiting the SMC5/6 cohesion complex to DNA lesions
|
|
GO:0005515
protein binding
|
IPI
PMID:25931565 DNA repair. Proteomics reveals dynamic assembly of repair co... |
REMOVE |
Summary: Same study as above, shows interactions with ANKRD17 (Q8IX21) and ELF1 (Q9BQI6).
Reason: GO:0005515 is uninformative. The more specific protein-containing complex binding annotation captures the SLF1/SLF2 interaction.
Supporting Evidence:
PMID:25931565
Apr 30. DNA repair. Proteomics reveals dynamic assembly of repair complexes during bypass of DNA cross-links.
|
|
GO:0006974
DNA damage response
|
IDA
PMID:25931565 DNA repair. Proteomics reveals dynamic assembly of repair co... |
ACCEPT |
Summary: Raschle et al. 2015 proteomics study of DNA repair during ICL bypass revealed RAD18's role in the DNA damage response.
Reason: Strong experimental support from systematic proteomics study.
Supporting Evidence:
PMID:25931565
define a pathway that suppresses genome instability by recruiting the SMC5/6 cohesion complex to DNA lesions
|
|
GO:0035861
site of double-strand break
|
IDA
PMID:25931565 DNA repair. Proteomics reveals dynamic assembly of repair co... |
ACCEPT |
Summary: Raschle et al. 2015 showed RAD18 is recruited to DNA double-strand breaks as part of the repair complex assembly.
Reason: Specific localization to DSB sites during repair.
Supporting Evidence:
PMID:25931565
Among numerous prospective DNA repair factors, we identified SLF1 and SLF2, which form a complex with RAD18 and together define a pathway that suppresses genome instability by recruiting the SMC5/6 cohesion complex to DNA lesions
|
|
GO:0051984
positive regulation of chromosome segregation
|
IMP
PMID:25931565 DNA repair. Proteomics reveals dynamic assembly of repair co... |
KEEP AS NON CORE |
Summary: Raschle et al. 2015 showed RAD18-SLF1-SLF2 complex promotes genome stability, which includes proper chromosome segregation.
Reason: This is a downstream consequence of RAD18's DNA damage tolerance function rather than a core function. Keep as non-core.
Supporting Evidence:
PMID:25931565
define a pathway that suppresses genome instability
|
|
GO:0005654
nucleoplasm
|
TAS
Reactome:R-HSA-5652005 |
ACCEPT |
Summary: Reactome annotation for RAD18:UBE2B complex binding to PCNA associated with damaged DNA.
Reason: Consistent with nucleoplasm localization.
|
|
GO:0005654
nucleoplasm
|
TAS
Reactome:R-HSA-5652009 |
ACCEPT |
Summary: Reactome annotation for RAD18:UBE2B monoubiquitinating PCNA.
Reason: Consistent with nucleoplasm localization for PCNA ubiquitination.
|
|
GO:0005654
nucleoplasm
|
TAS
Reactome:R-HSA-8943003 |
ACCEPT |
Summary: Reactome annotation for SHPRH polyubiquitinating monoubiquitinated PCNA (RAD18 participates).
Reason: Consistent with nucleoplasm localization.
|
|
GO:0005654
nucleoplasm
|
TAS
Reactome:R-HSA-8943007 |
ACCEPT |
Summary: Reactome annotation for SHPRH binding monoUb-PCNA with RAD6:RAD18.
Reason: Consistent with nucleoplasm localization.
|
|
GO:0005654
nucleoplasm
|
TAS
Reactome:R-HSA-8943040 |
ACCEPT |
Summary: Reactome annotation for HLTF polyubiquitinating monoubiquitinated PCNA.
Reason: Consistent with nucleoplasm localization.
|
|
GO:0005654
nucleoplasm
|
TAS
Reactome:R-HSA-8943041 |
ACCEPT |
Summary: Reactome annotation for HLTF binding monoUb-PCNA with RAD6:RAD18.
Reason: Consistent with nucleoplasm localization.
|
|
GO:0031593
polyubiquitin modification-dependent protein binding
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IDA
PMID:22742833 Tandem protein interaction modules organize the ubiquitin-de... |
ACCEPT |
Summary: Panier et al. 2012 showed RAD18 accumulates at DSB sites through ubiquitin-binding domains (UBZ). RAD18's UBZ domain recognizes ubiquitinated chromatin for recruitment to damage sites.
Reason: This is a specific molecular function that describes how RAD18 is recruited to damage sites via ubiquitin recognition. More informative than generic protein binding.
Supporting Evidence:
PMID:22742833
RNF168, its paralog RNF169, RAD18, and the BRCA1-interacting RAP80 protein accumulate at DSB sites through the use of bipartite modules composed of UBDs juxtaposed to peptide motifs that provide specificity
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GO:0005515
protein binding
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IPI
PMID:22681887 Spartan/C1orf124, a reader of PCNA ubiquitylation and a regu... |
REMOVE |
Summary: Spartan/C1orf124 (Q9H040) interaction - a reader of PCNA ubiquitylation.
Reason: GO:0005515 is uninformative.
Supporting Evidence:
PMID:22681887
Spartan/C1orf124, a reader of PCNA ubiquitylation and a regulator of UV-induced DNA damage response.
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GO:0005515
protein binding
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IPI
PMID:21659603 A DNA damage response screen identifies RHINO, a 9-1-1 and T... |
REMOVE |
Summary: RHINO (Q9BSD3) interaction study.
Reason: GO:0005515 is uninformative.
Supporting Evidence:
PMID:21659603
A DNA damage response screen identifies RHINO, a 9-1-1 and TopBP1 interacting protein required for ATR signaling.
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GO:0000403
Y-form DNA binding
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IDA
PMID:18363965 Recognition of forked and single-stranded DNA structures by ... |
ACCEPT |
Summary: Tsuji et al. 2008 directly demonstrated that RAD18-RAD6B complex preferentially binds to forked (Y-form) DNA structures at stalled replication forks.
Reason: This is a highly specific and experimentally validated molecular function. Y-form DNA binding is central to RAD18's recruitment to stalled forks.
Supporting Evidence:
PMID:18363965
Human RAD18 complexed with RAD6B protein preferentially binds to forked and single-stranded DNA (ssDNA) structures, which are known to be localized at stalled replication forks
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GO:0005657
replication fork
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IDA
PMID:18363965 Recognition of forked and single-stranded DNA structures by ... |
ACCEPT |
Summary: Tsuji et al. 2008 demonstrated RAD18-RAD6B recruitment to stalled replication forks via recognition of forked and ssDNA structures.
Reason: Replication fork localization is central to RAD18's function in DNA damage tolerance.
Supporting Evidence:
PMID:18363965
RAD18 complexed with RAD6B is recruited to stalled replication forks via interactions with forked DNA or long ssDNA structures
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GO:0031625
ubiquitin protein ligase binding
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IPI
PMID:18363965 Recognition of forked and single-stranded DNA structures by ... |
ACCEPT |
Summary: RAD18 binds to its E2 partner UBE2B (P63146/RAD6B). This is the E2 that provides ubiquitin for PCNA monoubiquitination.
Reason: Binding to E2 ubiquitin-conjugating enzyme is essential for E3 ligase function. This is more specific than generic protein binding.
Supporting Evidence:
PMID:18363965
RAD18 complexed with RAD6B protein
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GO:0031625
ubiquitin protein ligase binding
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IPI
PMID:10908344 The human RAD18 gene product interacts with HHR6A and HHR6B. |
ACCEPT |
Summary: Xin et al. 2000 demonstrated human RAD18 interacts with both HHR6A (UBE2A/P49459) and HHR6B (UBE2B/P63146), forming stable complexes.
Reason: E2 binding is essential for RAD18's E3 ligase function.
Supporting Evidence:
PMID:10908344
Human RAD18 protein (hRAD18) was found to interact with HHR6A and HHR6B
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GO:0003684
damaged DNA binding
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NAS
PMID:10884424 Dysfunction of human Rad18 results in defective postreplicat... |
MODIFY |
Summary: Tateishi et al. 2000 characterized human RAD18 as involved in postreplication repair of damaged DNA. While not directly demonstrating damaged DNA binding, the function implies recognition of damage-associated structures.
Reason: NAS evidence is weak. The more specific GO:0000403 (Y-form DNA binding) is supported by IDA evidence from PMID:18363965. RAD18 binds fork/ssDNA structures rather than damaged bases directly.
Proposed replacements:
Y-form DNA binding
Supporting Evidence:
PMID:10884424
Dysfunction of human Rad18 results in defective postreplication repair and hypersensitivity to multiple mutagens.
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GO:0005634
nucleus
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NAS
PMID:10884424 Dysfunction of human Rad18 results in defective postreplicat... |
ACCEPT |
Summary: Early characterization paper. Nuclear localization is well-supported by later IDA evidence.
Reason: Consistent with IDA evidence from multiple studies.
Supporting Evidence:
PMID:10884424
Dysfunction of human Rad18 results in defective postreplication repair and hypersensitivity to multiple mutagens.
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GO:0006281
DNA repair
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NAS
PMID:10884424 Dysfunction of human Rad18 results in defective postreplicat... |
ACCEPT |
Summary: Tateishi et al. 2000 showed dysfunction of RAD18 results in defective postreplication repair. DNA repair is accurate but DNA damage tolerance (GO:0006301) is more specific.
Reason: DNA repair as a parent term is not incorrect, even though DNA damage tolerance is more specific.
Supporting Evidence:
PMID:10884424
Dysfunction of human Rad18 results in defective postreplication repair
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RAD18 (also known as RNF73, RING finger protein 73) is an E3 ubiquitin-protein ligase that plays a central role in the cellular response to DNA damage, particularly in the DNA damage tolerance (DDT) pathway that allows cells to complete replication despite the presence of DNA lesions [hedglin-2015-regulation-abstract]. The human RAD18 gene was first identified as a homolog of the yeast RAD18, mapping to chromosome 3p24-25, a region frequently deleted in various cancers including lung, breast, ovary, and testis malignancies [tateishi-2000-dysfunction-abstract]. RAD18 functions primarily by catalyzing the monoubiquitination of proliferating cell nuclear antigen (PCNA) at lysine 164, a modification that serves as a molecular switch to recruit specialized translesion synthesis (TLS) polymerases capable of bypassing DNA lesions that would otherwise stall replicative polymerases [watanabe-2004-poleta-abstract].
The protein operates as part of an E2-E3 complex with the ubiquitin-conjugating enzyme RAD6 (also called UBE2A/UBE2B or hHR6), and this partnership is essential for its function in postreplication repair [tateishi-2000-dysfunction-abstract]. Beyond its canonical role in TLS, RAD18 has been implicated in additional DNA repair processes including homologous recombination, double-strand break repair, and the Fanconi anemia pathway, establishing it as a multifunctional coordinator of genome maintenance [huang-2009-hrrrepair-abstract; geng-2010-fanconianemia-abstract]. The enzymatic activity of RAD18 (EC 2.3.2.27) classifies it as a RING-type E3 ubiquitin transferase, and the protein belongs to the RAD18 family of ubiquitin ligases that is conserved across eukaryotes.
RAD18 functions as an E3 ubiquitin-protein ligase that catalyzes the transfer of ubiquitin from an E2 ubiquitin-conjugating enzyme to specific substrate proteins. The primary and best-characterized substrate of RAD18 is PCNA, specifically at lysine 164 [watanabe-2004-poleta-abstract]. This monoubiquitination event is critical for initiating translesion DNA synthesis in response to replication fork stalling at DNA lesions.
A key mechanistic insight into RAD18 function was provided by structural and biochemical studies demonstrating that the RAD6/RAD18 complex specifically promotes monoubiquitination rather than polyubiquitin chain formation [hibbert-2011-monoubiquitination-abstract]. The E2 enzyme RAD6, when functioning alone, possesses an intrinsic capability for ubiquitin chain synthesis through a noncovalent interaction between ubiquitin and a "backside" binding site on RAD6. However, when RAD6 associates with RAD18, the C-terminal RAD6-binding domain (R6BD) of RAD18 competitively occupies this backside binding site, thereby preventing ubiquitin from binding there and blocking chain formation [hibbert-2011-monoubiquitination-abstract]. This elegant mechanism ensures that PCNA receives only a single ubiquitin moiety, which is the specific signal for TLS polymerase recruitment.
The substrate specificity of RAD18 extends beyond PCNA. Studies have identified 53BP1 as an additional direct substrate of RAD18-mediated ubiquitination [watanabe-2009-53bp1-abstract]. RAD18 monoubiquitinates the kinetochore-binding domain of 53BP1 at lysine 1268, and this modification enhances the chromatin retention of 53BP1 at sites of DNA double-strand breaks during G1 phase. RFC2, a subunit of the replication factor C complex, has also been reported as a RAD18 substrate [hedglin-2015-regulation-abstract]. The identification of multiple substrates indicates that RAD18 coordinates several aspects of the DNA damage response through its ubiquitination activity.
The complex stoichiometry of functional RAD18 has been elucidated through detailed structural analysis. The active complex consists of one RAD6 molecule bound to a RAD18 homodimer, forming a RAD6A-(RAD18)β ternary complex [masuda-2012-asymmetric-abstract]. Interestingly, only one of the two RAD6-binding domains in the RAD18 dimer is necessary for complex formation and ligase activity, revealing an asymmetric functional architecture. Similarly, while inactivating mutations in the RING or SAP domains of both RAD18 subunits strongly reduces activity, inactivation in only one subunit has no effect, further supporting the asymmetric model.
Translesion synthesis represents one of the two major DNA damage tolerance pathways that allow cells to complete DNA replication despite the presence of template lesions. When replicative polymerases encounter DNA damage, they stall, leading to uncoupling between the replicative helicase and polymerase activities. This uncoupling generates extended stretches of single-stranded DNA (ssDNA) that become coated with replication protein A (RPA) [hedglin-2015-regulation-abstract]. The RPA-ssDNA complex serves as the primary signal for RAD18 recruitment to stalled replication forks.
Upon recruitment, RAD18 together with RAD6 catalyzes the monoubiquitination of PCNA at K164. This modified form of PCNA (monoUb-PCNA) has substantially increased affinity for Y-family TLS polymerases, particularly DNA polymerase eta (PolΞ·), compared to unmodified PCNA [watanabe-2004-poleta-abstract]. The enhanced affinity facilitates polymerase exchange at the stalled fork, allowing TLS polymerases to incorporate nucleotides opposite damaged template bases. Although TLS polymerases can replicate past lesions, they lack the proofreading activity of replicative polymerases and are often error-prone, which explains why TLS is associated with damage-induced mutagenesis.
RAD18 participates in TLS polymerase recruitment through two complementary mechanisms [watanabe-2004-poleta-abstract]. First, monoubiquitinated PCNA provides a binding platform for PolΞ· through the polymerase's ubiquitin-binding zinc finger (UBZ) domain. Second, RAD18 directly interacts with PolΞ· through physical protein-protein contact, providing an additional layer of polymerase recruitment that is independent of PCNA modification. Cells lacking RAD18 fail to form PolΞ· nuclear foci following UV irradiation, demonstrating the essential nature of this E3 ligase for TLS initiation.
The regulation of RAD18-dependent TLS is tightly integrated with cell cycle progression through phosphorylation-dependent mechanisms [day-2010-phosphorylation-abstract]. The kinase Cdc7/DDK (Dbf4/Drf1-dependent Cdc7 kinase) phosphorylates RAD18 at a serine-rich "S box" region within its C-terminal domain, with S434 identified as a primary target. This phosphorylation is essential for efficient RAD18-PolΞ· association and the subsequent formation of PolΞ· foci at sites of replication fork stalling. The Cdc7-RAD18 regulatory axis provides a mechanism for coordinating DNA replication progression with postreplication repair.
Beyond TLS, DNA damage tolerance also operates through template switching (TS), an error-free pathway that uses the undamaged sister chromatid as a template for bypass synthesis. While RAD18-dependent PCNA monoubiquitination initiates TLS, this modification can be extended to K63-linked polyubiquitin chains by the Ubc13-Mms2/RAD5 (HLTF and SHPRH in humans) complex, which routes DDT toward the template switching pathway [hedglin-2015-regulation-abstract]. Thus, RAD18 functions at a critical decision point in choosing between error-prone and error-free damage tolerance mechanisms.
It is important to note that while PolΞ· is the most extensively studied TLS polymerase in the context of RAD18, monoubiquitinated PCNA also recruits other Y-family polymerases including PolΞΊ, PolΞΉ, and Rev1. Each TLS polymerase exhibits preference for bypass of specific types of DNA damage; for example, PolΞ· is specialized for bypass of UV-induced cyclobutane pyrimidine dimers (CPDs), while PolΞΊ preferentially bypasses benzo[a]pyrene adducts. These polymerases contain ubiquitin-binding domainsβUBZ domains in PolΞ· and PolΞΊ, and UBM domains in PolΞΉ and Rev1βthat mediate their interaction with monoubiquitinated PCNA [yang-2018-tumorigenesis-abstract].
Intriguingly, PolΞ· plays a unique non-catalytic role in promoting PCNA monoubiquitination itself [durando-2013-noncatalytic-abstract]. PolΞ· physically bridges RAD18 and PCNA through its C-terminal domain, facilitating their interaction independently of polymerase catalytic activity. Catalytically inactive PolΞ· mutants can still stimulate PCNA monoubiquitination to levels comparable to wild-type protein. This scaffolding function is specific to PolΞ· among Y-family polymerases, as PolΞΊ and PolΞΉ lack this capability. This non-catalytic role has important implications for understanding why xeroderma pigmentosum variant (XPV) patients, who carry mutations in PolΞ·, experience increased mutagenesisβcatalytically inactive PolΞ· can still promote recruitment of alternative, more error-prone TLS polymerases.
RAD18 is a 495 amino acid protein (in humans) containing several functionally distinct domains that coordinate its various activities in DNA damage response. The domain architecture includes an N-terminal RING finger domain, a ubiquitin-binding zinc finger (UBZ4) domain, a SAP (SAF-A/B, Acinus and PIAS) domain, and a C-terminal RAD6-binding domain (R6BD).
The RING finger domain (IPR001841) located at the N-terminus is the catalytic domain responsible for E3 ubiquitin ligase activity. This domain mediates the interaction with the E2 ubiquitin-conjugating enzyme RAD6 and facilitates ubiquitin transfer to substrates [notenboom-2007-domains-abstract]. Structural studies have determined the crystal structure of the homodimeric RAD18 RING domain (PDB: 2Y43), revealing a classical RING-RING dimer that dimerizes through helices adjacent to the RING domains. The RING domain can theoretically recruit two RAD6 molecules, but the full-length RAD18 homodimer binds only a single RAD6 molecule due to constraints imposed by other domains.
The UBZ4 domain (IPR006642) is a C2HC-type zinc finger that functions as a ubiquitin-binding module rather than a DNA-binding domain as initially proposed [notenboom-2007-domains-abstract]. NMR structural studies have determined the structure of the RAD18-UBZ domain both alone (PDB: 2MRF) and in complex with ubiquitin (PDB: 2MRE), revealing that it adopts a Ξ²1-Ξ²2-Ξ± fold and binds ubiquitin with micromolar affinity (Kd approximately 42 ΞΌM) [rizzo-2014-ubzstructure-abstract]. The RAD18-UBZ4 interacts with ubiquitin through both its Ξ±-helix and Ξ²1 strand, distinguishing it from the PolΞ·-UBZ3 domain that uses only the Ξ±-helix for binding. This ubiquitin-binding activity is critical for RAD18 accumulation at DNA damage sites, particularly through recognition of RNF8-generated ubiquitin chains at double-strand breaks [huang-2009-hrrrepair-abstract].
The SAP domain (IPR003034) provides DNA-binding activity, with preferential affinity for single-stranded DNA over double-stranded DNA (affinity approximately 1 ΞΌM for ssDNA) [notenboom-2007-domains-abstract]. Despite its DNA-binding capability, the SAP domain is not absolutely required for RAD18 accumulation at damage sites but appears crucial for PCNA ubiquitination and PolΞ· focus formation [nakajima-2006-replication-dependent-abstract]. The SAP domain may function by positioning the RAD18 complex appropriately at stalled replication forks where ssDNA is exposed.
The C-terminal RAD6-binding domain (R6BD) provides a second interaction interface with RAD6, distinct from the RING domain interaction [notenboom-2007-domains-abstract]. Importantly, this domain competes with ubiquitin for the backside binding site on RAD6, thereby suppressing polyubiquitin chain formation and ensuring monoubiquitination specificity [hibbert-2011-monoubiquitination-abstract].
RAD18 is predominantly a nuclear protein that displays dynamic localization patterns depending on cell cycle phase and DNA damage status. Under normal conditions, RAD18 shows diffuse nuclear distribution, but upon DNA damage, it rapidly accumulates at sites of DNA lesions, forming distinct nuclear foci [nakajima-2006-replication-dependent-abstract].
Following UV irradiation, RAD18 forms numerous nuclear foci (typically >80 per cell) that colocalize extensively with PCNA, consistent with its role at stalled replication forks [nakajima-2006-replication-dependent-abstract]. This UV-induced pattern is replication-dependent and relies on the SAP domain of RAD18. The colocalization with PCNA reflects RAD18's function in monoubiquitinating this replication clamp to initiate translesion synthesis.
In contrast, ionizing radiation (IR) induces a distinct pattern of RAD18 localization. X-ray-induced RAD18 foci are fewer in number (approximately 50 per cell) but larger than UV-induced foci, and they colocalize with Ξ³-H2AX rather than PCNA [nakajima-2006-replication-dependent-abstract]. This pattern reflects RAD18's replication-independent role in double-strand break repair. The IR-induced recruitment depends on the zinc finger domain and occurs through recognition of ubiquitin chains generated by the RNF8/UBC13 system at break sites [huang-2009-hrrrepair-abstract].
The mechanism of RAD18 recruitment differs between these two types of DNA damage. At stalled replication forks, RPA-coated single-stranded DNA serves as the recruitment signal, while at double-strand breaks, RAD18 is recruited through a signaling cascade involving H2AX phosphorylation, MDC1, RNF8, and ubiquitin chain formation. RAD18 colocalizes with chromatin-associated conjugated ubiquitin and ubiquitylated H2A throughout the cell cycle and following irradiation, indicating constitutive association with ubiquitin-modified chromatin.
Cell cycle-specific patterns have also been observed. RAD18 shows distinct localization during G1 phase when it participates in 53BP1-dependent DSB repair, and during S phase when it functions in replication-coupled DNA damage tolerance [watanabe-2009-53bp1-abstract]. Accumulation of RAD18 in nucleoli has been observed in late G2, dependent on its zinc finger domain.
The activity and localization of RAD18 are tightly controlled through multiple regulatory mechanisms including post-translational modifications, protein-protein interactions, and transcriptional regulation.
Phosphorylation represents a key regulatory mechanism for RAD18 function. Cdc7/DDK kinase phosphorylates RAD18 at serine residues within the S box region, with S434 being a major target [day-2010-phosphorylation-abstract]. This phosphorylation enhances RAD18's interaction with PolΞ· and is essential for efficient PolΞ· recruitment to stalled replication forks. The phosphorylation occurs both during normal S phase and is enhanced following UV damage through a Chk1-dependent pathway, integrating RAD18 function with DNA damage checkpoint signaling. Additionally, SLF1 recognizes RAD18 phosphorylated at S442 and S444 through its tandem BRCT domain, facilitating RAD18 accumulation at DNA breaks in post-replicative chromatin.
More recently, O-GlcNAcylation has emerged as another important modification regulating RAD18 function. This modification promotes both translesion DNA synthesis and homologous recombination repair. Importantly, abrogation of RAD18 O-GlcNAcylation limits Cdc7-dependent RAD18 phosphorylation at S434, establishing crosstalk between these two modifications. Reduced O-GlcNAcylation significantly decreases damage-induced PCNA monoubiquitination, impairs PolΞ· focus formation, and enhances UV sensitivity.
RAD18 is also subject to autoubiquitination at multiple lysine residues (K161, K261, K309, K318 in mouse RAD18), which regulates its stability and activity [notenboom-2007-domains-abstract]. Auto-ubiquitination mediated by RAD6 inhibits RAD18 recruitment to DNA breaks, providing a negative feedback mechanism.
Several accessory proteins regulate RAD18 activity at damaged sites. SIVA1 functions as a critical adaptor protein that constitutively interacts with PCNA and directs RAD18 to its substrate [han-2014-siva1-abstract]. SIVA1 binds RAD18 through domains separate from those used to bind PCNA, creating a bridging complex. Cells lacking SIVA1 phenocopy RAD18 deficiency with compromised PCNA monoubiquitination, defective PolΞ· recruitment, increased UV sensitivity, and elevated mutation frequencies.
Other proteins that regulate RAD18 function include NBS1 (mutated in Nijmegen breakage syndrome), which recruits RAD18 to sites of DNA damage through direct binding; Claspin and CHK1, which participate in checkpoint-dependent RAD18 regulation; and chromatin remodeling complexes including Ino80, RSC, and NuRD that modulate chromatin accessibility at damage sites [hedglin-2015-regulation-abstract].
While RAD18 is best characterized for its function in translesion synthesis, accumulating evidence demonstrates its participation in additional DNA repair pathways, establishing it as a multifunctional coordinator of genome maintenance.
In double-strand break (DSB) repair, RAD18 plays distinct roles depending on cell cycle phase. During G1, RAD18 promotes DSB repair through a 53BP1-dependent mechanism [watanabe-2009-53bp1-abstract]. RAD18 directly associates with 53BP1 via its zinc finger domain and monoubiquitinates 53BP1 at K1268, enhancing 53BP1 chromatin retention at break sites. Rad18-null cells exhibit impaired DSB repair efficiency and reduced post-irradiation viability. This function appears to promote non-homologous end joining (NHEJ) repair.
During S and G2 phases, RAD18 participates in homologous recombination (HR) repair through a mechanism that involves direct interaction with RAD51C [huang-2009-hrrrepair-abstract]. Importantly, this HR function is independent of RAD18's E3 ligase activity and depends solely on its recruitment to damage sites. RAD18 localizes to DSBs through its zinc finger domain, which binds ubiquitin chains created by the RNF8/UBC13 complex, while the RING domain mediates RAD51C interaction. This reveals how RAD18 functions as a molecular bridge connecting DNA damage checkpoint signaling with repair processes.
RAD18 also plays a significant role in the Fanconi anemia (FA) pathway, which is essential for interstrand crosslink (ICL) repair [geng-2010-fanconianemia-abstract]. RAD18-mediated PCNA ubiquitination recruits FANCL, the E3 ligase of the FA core complex, to chromatin. Monoubiquitinated PCNA then stimulates FANCL-catalyzed monoubiquitination of the FANCI-FANCD2 complex, which is the critical activation step for ICL repair. This establishes PCNA as a regulatory hub coordinating TLS and FA pathway responses to DNA damage.
Beyond these pathway connections, RAD18 directly interacts with FANCD2 independently of the FA core complex and is required for efficient FANCD2 and FANCI chromatin loading [williams-2011-fancd2-abstract]. The E3 ligase activity of RAD18 is necessary for FANCD2 chromatin loading through a mechanism that appears independent of PCNA modification, suggesting additional direct roles for RAD18 in FA pathway regulation. RAD18-deficient cells show increased sensitivity to DNA crosslinking agents including mitomycin C and cisplatin.
Recent work has also implicated RAD18 in suppressing R-loop-mediated genome instability by promoting FANCD2 recruitment to difficult-to-replicate and R-loop-prone genomic sites. This function helps prevent transcription-replication conflicts, expanding RAD18's role as a guardian of genome stability.
The RAD6-RAD18 pathway for PCNA modification represents an evolutionarily ancient DNA damage tolerance mechanism that is highly conserved across eukaryotes. The human RAD18 gene was identified through its homology to the Saccharomyces cerevisiae RAD18 gene, and the yeast pathway has served as a foundational model for understanding mammalian DNA damage tolerance [tateishi-2000-dysfunction-abstract].
Human RAD18 encodes a 495-amino acid protein that shares 20% sequence identity and 42% similarity with yeast Rad18, with particularly strong conservation in the functional domains including the RING finger and zinc finger motifs. The mouse ortholog (mRAD18Sc) is 509 amino acids and shows strong conservation with both yeast and human homologs, demonstrating preserved domain architecture across mammals [vanderlaan-2000-mrad18-abstract]. The conservation of the RING-zinc-finger structure and the interaction with RAD6 homologs indicates that the core biochemical mechanism of PCNA monoubiquitination has been maintained throughout eukaryotic evolution.
Functionally orthologous genes have been identified in diverse fungi including Neurospora crassa (uvs-2) and Aspergillus nidulans (nuvA), all sharing the characteristic zinc finger motifs and involvement in DNA repair. Notably, the Schizosaccharomyces pombe rad18 gene is not a true ortholog of S. cerevisiae RAD18 but instead belongs to the SMC family of proteins (the true ortholog is RHC18), illustrating the importance of functional rather than nomenclature-based comparisons.
The conservation of the RAD6-RAD18 pathway extends to the downstream signaling as well. PCNA monoubiquitination at K164, the recruitment of Y-family TLS polymerases, and the extension to K63-linked polyubiquitin chains for template switching are all conserved from yeast to humans, underscoring the fundamental importance of this pathway in maintaining genome stability across evolution.
RAD18 has emerged as a significant factor in cancer biology through multiple mechanisms, reflecting its dual nature as both a genome maintenance factor and a potential contributor to mutagenesis [yang-2018-tumorigenesis-abstract]. The human RAD18 gene maps to chromosome 3p24-25, a region frequently deleted in lung, breast, ovarian, and testicular cancers, initially suggesting a tumor suppressor role [tateishi-2000-dysfunction-abstract].
However, the relationship between RAD18 and cancer is complex. RAD18 and the downstream Y-family TLS polymerases confer DNA damage tolerance at the expense of DNA replication fidelity, making them attractive candidate mediators of mutagenesis and carcinogenesis. Consistent with this, RAD18 is pathologically overexpressed in many cancer types including colorectal cancer, triple-negative breast cancer, and lung adenocarcinoma [yang-2018-tumorigenesis-abstract]. One mechanism of RAD18 overexpression involves increased protein stability through binding to MAGE-A4, a cancer/testis antigen that is normally absent in somatic cells but is aberrantly expressed in tumors.
Studies of RAD18 in colorectal cancer (CRC) have demonstrated that high RAD18 expression correlates with lymph node metastasis and poor prognosis. RAD18 overexpression increases the metastatic potential of CRC cells through activation of the epithelial-mesenchymal transition (EMT) pathway. In triple-negative breast cancer (TNBC), RAD18 is highly expressed and inversely related to patient prognosis, promoting cancer stem cell characteristics through the Hippo/YAP signaling pathway.
In vivo studies using mouse models have provided mechanistic insights into RAD18's role in shaping mutational landscapes [lou-2021-mutational-signatures-abstract]. Analysis of carcinogen-induced tumors revealed that Rad18-proficient tumors predominantly display COSMIC mutational signature 22, while Rad18-deficient tumors show features associated with homologous recombination defects (signature 3). Analysis of The Cancer Genome Atlas (TCGA) data demonstrates that RAD18 expression is strongly associated with high single nucleotide variant burdens across multiple human cancer types, suggesting RAD18 promotes mutagenesis in human cancers.
The role of RAD18 in drug resistance has also been documented. In osteosarcoma, RAD18 was identified as a determinant of doxorubicin sensitivity through genome-wide CRISPR screening. Rad18 knockout increased sensitivity to doxorubicin, while overexpression led to resistance, highlighting RAD18 as a potential therapeutic target for overcoming chemoresistance.
Paradoxically, RAD18 can also act as a tumor suppressor in specific contexts. In carcinogen-induced oral cancer models, Rad18 deficiency accelerated tumor onset, with Rad18-null tumors showing increased genomic instability and characteristic mutational patterns. This context-dependent activity reflects the balance between RAD18's role in maintaining genome stability through proper TLS and its contribution to mutagenesis through error-prone polymerase activity.
Despite substantial progress in understanding RAD18 function, several important questions remain:
Substrate specificity determinants: While PCNA, 53BP1, and RFC2 have been identified as RAD18 substrates, the full spectrum of RAD18 targets remains incompletely characterized. Understanding how RAD18 achieves substrate selectivity in different cellular contexts requires further investigation.
Coordination between pathways: RAD18 participates in TLS, HR, NHEJ, and FA pathways. How the cell coordinates these different activities of RAD18 and directs it toward specific pathways depending on damage type and cell cycle phase remains unclear.
Regulatory integration: Multiple modifications regulate RAD18 (phosphorylation, O-GlcNAcylation, auto-ubiquitination), but how these modifications are integrated to produce context-appropriate responses is not fully understood.
Tissue-specific functions: The observation that RAD18 maps to a region frequently deleted in various cancers raises questions about potential tissue-specific roles that may be relevant to tumor suppression.
Structure of full-length complex: While structures of individual domains are available, a complete structural understanding of the RAD6-(RAD18)β-PCNA complex and how it achieves substrate monoubiquitination is lacking.
Template switching coordination: How RAD18-dependent monoubiquitination is extended to polyubiquitin chains that promote template switching, and how the choice between TLS and TS is made, requires further mechanistic characterization.
Alternative E3 ligases: CRL4-Cdt2 can also monoubiquitinate PCNA independently of RAD18 in proliferating cells. The relative contributions and coordination of these alternative pathways in different contexts remains to be determined.
[tateishi-2000-dysfunction-abstract] Tateishi S, Sakuraba Y, Masuyama S, Inoue H, Yamaizumi M. Dysfunction of human Rad18 results in defective postreplication repair and hypersensitivity to multiple mutagens. Proc Natl Acad Sci USA. 2000;97(14):7927-7932. PMID: 10884424. DOI: 10.1073/pnas.97.14.7927
[watanabe-2004-poleta-abstract] Watanabe K, Tateishi S, Kawasuji M, Tsurimoto T, Inoue H, Yamaizumi M. Rad18 guides poleta to replication stalling sites through physical interaction and PCNA monoubiquitination. EMBO J. 2004;23(19):3886-3896. PMID: 15359278. DOI: 10.1038/sj.emboj.7600383
[nakajima-2006-replication-dependent-abstract] Nakajima S, Lan L, Kanno S, Usami N, Kobayashi K, Mori M, Shiomi T, Yasui A. Replication-dependent and -independent responses of RAD18 to DNA damage in human cells. J Biol Chem. 2006;281(45):34687-34695. PMID: 16980296. DOI: 10.1074/jbc.M605545200
[notenboom-2007-domains-abstract] Notenboom V, Hibbert RG, van Rossum-Fikkert SE, Olsen JV, Mann M, Sixma TK. Functional characterization of Rad18 domains for Rad6, ubiquitin, DNA binding and PCNA modification. Nucleic Acids Res. 2007;35(17):5819-5830. PMID: 17720710. DOI: 10.1093/nar/gkm615
[watanabe-2009-53bp1-abstract] Watanabe K, Iwabuchi K, Sun J, Tsuji Y, Tani T, Tokunaga K, Date T, Hashimoto M, Yamaizumi M, Tateishi S. RAD18 promotes DNA double-strand break repair during G1 phase through chromatin retention of 53BP1. Nucleic Acids Res. 2009;37(7):2176-2193. PMID: 19228710. DOI: 10.1093/nar/gkp082
[huang-2009-hrrrepair-abstract] Huang J, Huen MSY, Kim H, Leung CCY, Glover JNM, Yu X, Chen J. RAD18 transmits DNA damage signaling to elicit homologous recombination repair. Nat Cell Biol. 2009;11(5):592-603. PMID: 19396164. DOI: 10.1038/ncb1865
[geng-2010-fanconianemia-abstract] Geng L, Huntoon CJ, Karnitz LM. RAD18-mediated ubiquitination of PCNA activates the Fanconi anemia DNA repair network. J Cell Biol. 2010;191(2):249-257. PMID: 20937699. DOI: 10.1083/jcb.201005101
[day-2010-phosphorylation-abstract] Day TA, Palle K, Barkley LR, Kakusho N, Zou Y, Tateishi S, Verreault A, Masai H, Vaziri C. Phosphorylated Rad18 directs DNA Polymerase Ξ· to sites of stalled replication. J Cell Biol. 2010;191(5):953-966. PMID: 21098111. DOI: 10.1083/jcb.201006043
[hibbert-2011-monoubiquitination-abstract] Hibbert RG, Huang A, Boelens R, Sixma TK. E3 ligase Rad18 promotes monoubiquitination rather than ubiquitin chain formation by E2 enzyme Rad6. Proc Natl Acad Sci USA. 2011;108(14):5590-5595. PMID: 21422291. DOI: 10.1073/pnas.1017516108
[williams-2011-fancd2-abstract] Williams SA, Longerich S, Sung P, Vaziri C, Kupfer GM. The E3 ubiquitin ligase RAD18 regulates ubiquitylation and chromatin loading of FANCD2 and FANCI. Blood. 2011;117(19):5078-5087. PMID: 21355096. DOI: 10.1182/blood-2010-10-311761
[masuda-2012-asymmetric-abstract] Masuda Y, Suzuki M, Kawai H, Suzuki F, Kamiya K. Asymmetric nature of two subunits of RAD18, a RING-type ubiquitin ligase E3, in the human RAD6A-RAD18 ternary complex. Nucleic Acids Res. 2012;40(3):1065-1076. PMID: 21967848. DOI: 10.1093/nar/gkr805
[rizzo-2014-ubzstructure-abstract] Rizzo AA, Salerno PE, Bezsonova I, Korzhnev DM. NMR structure of the human Rad18 zinc finger in complex with ubiquitin defines a class of UBZ domains in proteins linked to the DNA damage response. Biochemistry. 2014;53(37):5895-5906. PMID: 25162118. DOI: 10.1021/bi500823h
[han-2014-siva1-abstract] Han J, Liu T, Huen MSY, Hu L, Chen Z, Huang J. SIVA1 directs the E3 ubiquitin ligase RAD18 for PCNA monoubiquitination. J Cell Biol. 2014;205(6):811-827. PMID: 24958773. DOI: 10.1083/jcb.201311007
[hedglin-2015-regulation-abstract] Hedglin M, Benkovic SJ. Regulation of Rad6/Rad18 Activity During DNA Damage Tolerance. Annu Rev Biophys. 2015;44:207-228. PMID: 26098514. DOI: 10.1146/annurev-biophys-060414-033841
[vanderlaan-2000-mrad18-abstract] van der Laan R, Roest HP, Hoogerbrugge JW, Smit EM, Slater R, Baarends WM, Hoeijmakers JH, Grootegoed JA. Characterization of mRAD18Sc, a mouse homolog of the yeast postreplication repair gene RAD18. Genomics. 2000;69(1):86-94. PMID: 11013078. DOI: 10.1006/geno.2000.6220
[durando-2013-noncatalytic-abstract] Durando M, Tateishi S, Vaziri C. A non-catalytic role of DNA polymerase Ξ· in recruiting Rad18 and promoting PCNA monoubiquitination at stalled replication forks. Nucleic Acids Res. 2013;41(5):3079-3093. PMID: 23345618. DOI: 10.1093/nar/gkt016
[yang-2018-tumorigenesis-abstract] Yang Y, Gao Y, Zlatanou A, Tateishi S, Yurchenko V, Rogozin IB, Vaziri C. Diverse roles of RAD18 and Y-family DNA polymerases in tumorigenesis. Cell Cycle. 2018;17(7):833-843. PMID: 29683380. DOI: 10.1080/15384101.2018.1456296
[lou-2021-mutational-signatures-abstract] Lou J, Yang Y, Gu Q, Price BA, Qiu Y, Fedoriw Y, Desai S, Mose LE, Chen B, Tateishi S, Parker JS, Vaziri C, Wu D. Rad18 mediates specific mutational signatures and shapes the genomic landscape of carcinogen-induced tumors in vivo. NAR Cancer. 2021;3(1):zcaa037. PMID: 33447826. DOI: 10.1093/narcan/zcaa037
The research report should be a detailed narrative explaining the function, biological processes, and localization of the gene product. Citations should be given for all claims.
You should prioritize authoritative reviews and primary scientific literature when conducting research. You can supplement
this with annotations you find in gene/protein databases, but these can be outdated or inaccurate.
We are specifically interested in the primary function of the gene - for enzymes, what reaction is catalyzed, and what is the substrate specificity? For transporters, what is the substrate? For structural proteins or adapters, what is the broader structural role? For signaling molecules, what is the role in the pathway.
We are interested in where in or outside the cell the gene product carries out its function.
We are also interested in the signaling or biochemical pathways in which the gene functions. We are less interested in broad pleiotropic effects, except where these elucidate the precise role.
Include evidence where possible. We are interested in both experimental evidence as well as inference from structure, evolution, or bioinformatic analysis. Precise studies should be prioritized over high-throughput, where available.
Comprehensive research report: Human RAD18 (UniProt Q9NS91)
Verification and identity
- Gene/protein: RAD18 (RNF73), human E3 ubiquitin-protein ligase; UniProt Q9NS91. Recent human studies consistently examine RAD18 as the principal E3 ligase catalyzing PCNA Lys164 monoubiquitination in DNA damage tolerance pathways, matching the UniProt description and domain architecture, with no conflicting gene symbol usage detected (ma2024rad18oglcnacylationpromotes pages 1-2, chen2024atrlimitsrad18mediated pages 1-2, khatib2024parp10promotesthe pages 1-2).
Key concepts and definitions
- Primary biochemical function: RAD18 is a RING-type E3 ubiquitin ligase that, with its E2 partner RAD6, catalyzes monoubiquitination of the replication clamp PCNA at Lys164, initiating translesion DNA synthesis (TLS) and coordinating downstream damage tolerance decisions. This modification recruits TLS polymerases (e.g., REV1/PolΞ·) and can be extended to K63-linked chains for template switching, linking to recombination-based bypass and fork protection (Oct 2023; Bioscience Reports; Jul 2024; Nature Communications) (xia2023implicationsofubiquitination pages 10-11, khatib2024parp10promotesthe pages 1-2). URLS: https://doi.org/10.1042/bsr20222591; https://doi.org/10.1038/s41467-024-50429-3.
- Core domains and roles: RAD18 contains a catalytic RING domain (E3 function), a UBZ domain that binds ubiquitin and contributes to damage-site targeting, a SAP domain implicated in DNA/chromatin binding, and a PCNA-interacting motif (PIP) recently mapped adjacent to Ser403; the PIP-like region mediates RAD18βPCNA interaction and is subject to regulation (May 2024; Cell Death & Disease; Mar 2024; EMBO Journal) (ma2024rad18oglcnacylationpromotes pages 1-2, chen2024atrlimitsrad18mediated pages 1-2). URLS: https://doi.org/10.1038/s41419-024-06700-y; https://doi.org/10.1038/s44318-024-00066-9.
Localization and pathway context
- Cellular localization: RAD18 accumulates at stalled replication forks and at RPA-coated ssDNA regions during replication stress; it is also recruited to nascent strand gaps where it ubiquitinates PCNA to enable TLS-mediated gap filling. RAD18βs activity influences replication fork stability, and at telomeres (ALT cells), ATR-modulated RAD18 activity controls PCNA ubiquitination to preserve telomere integrity (Mar 2024; EMBO Journal; Jul 2024; Nature Communications; Oct 2023; Bioscience Reports) (chen2024atrlimitsrad18mediated pages 1-2, khatib2024parp10promotesthe pages 1-2, xia2023implicationsofubiquitination pages 5-7). URLS: https://doi.org/10.1038/s44318-024-00066-9; https://doi.org/10.1038/s41467-024-50429-3; https://doi.org/10.1042/bsr20222591.
- Pathway roles: RAD18 is central to DNA damage tolerance (DDT). PCNA K164 monoubiquitination triggers TLS polymerase engagement; subsequent K63-linked polyubiquitination coordinates template switching and fork remodeling, which support fork stability and damage bypass. RAD18 also participates in crosstalk with the Fanconi anemia (FA) pathway (FANCD2/FANCI ubiquitination and chromatin loading) and HR-associated mechanisms, thereby shaping repair pathway choice during replication stress (Oct 2023; Bioscience Reports; Mar 2024; EMBO Journal; May 2024; Cell Death & Disease) (xia2023implicationsofubiquitination pages 10-11, chen2024atrlimitsrad18mediated pages 1-2, ma2024rad18oglcnacylationpromotes pages 1-2). URLS: https://doi.org/10.1042/bsr20222591; https://doi.org/10.1038/s44318-024-00066-9; https://doi.org/10.1038/s41419-024-06700-y.
Recent developments and latest research (priority 2023β2024)
- ATR constrains RAD18 activity at forks and telomeres: ATR phosphorylates RAD18 at Ser403 adjacent to a PIP motif, weakening RAD18βPCNA interaction and limiting PCNA monoubiquitination. This prevents excessive SLX4 accumulation at stalled forks and protects fork integrity; in ALT cells, this preserves telomere stability. ATR inhibition (VEβ821) or knockdown increases PCNA monoubiquitination after HU, aphidicolin, or UV (Mar 2024; EMBO Journal) (chen2024atrlimitsrad18mediated pages 1-2). URL: https://doi.org/10.1038/s44318-024-00066-9.
- O-GlcNAcylation tunes RAD18βs recruitment and activity: Human RAD18 is O-GlcNAcylated at Ser130/Ser164/Thr468. These modifications promote RAD18 accumulation at damage sites and enable CDC7-dependent RAD18 Ser434 phosphorylation, which supports damage-induced PCNA monoubiquitination, PolΞ· focus formation, and TLS efficiency. Mutating these sites (S130A/S164A/T468A) reduces PCNA monoubiquitination, impairs PolΞ· foci, and increases UV sensitivity; O-GlcNAcylation also enhances RAD18βs contribution to HR through RAD51C/ubiquitin interactions and RAD51 loading, reducing CPT hypersensitivity (May 2024; Cell Death & Disease) (ma2024rad18oglcnacylationpromotes pages 1-2). URL: https://doi.org/10.1038/s41419-024-06700-y.
- PARP10 recruits RAD18 to gaps for REV1-dependent filling: PARP10 interacts with RAD18 and recruits it to nascent ssDNA gaps, leading to PCNA monoubiquitination and REV1 recruitment for gap filling in G2. PARP10βs catalytic activity and PIP-box-mediated interaction with PCNA are required; in BRCA-deficient cells, PARP10 is hyperactive, and its inactivation increases gap accumulation and cytotoxicity (Jul 2024; Nature Communications) (khatib2024parp10promotesthe pages 1-2). URL: https://doi.org/10.1038/s41467-024-50429-3.
- Alternative E3 for PCNA in unperturbed replication: BRCA1/BARD1 ubiquitinates PCNA independently of RAD18 under unperturbed conditions to prevent ssDNA gaps and promote continuous DNA synthesis, indicating PCNA ubiquitination control extends beyond the canonical RAD18βRAD6 axis (May 2024; Nature Communications) (salaslloret2024brca1bard1ubiquitinatespcna pages 1-2). URL: https://doi.org/10.1038/s41467-024-48427-6.
Current applications and real-world implementations
- Therapeutic targeting of RAD18/RAD6 axis and associated regulators: Reviews highlight the RAD18βRAD6 pathway as a tractable therapeutic target for modulating DDT and replication fork stability. Overexpression of RAD18 is reported across several cancers and is linked to therapy resistance phenotypes; efforts include targeting E2/E3 interfaces and deubiquitinases such as USP1 that counteract PCNA-Ub (Oct 2023; Bioscience Reports) (xia2023implicationsofubiquitination pages 10-11, xia2023implicationsofubiquitination pages 18-19). URL: https://doi.org/10.1042/bsr20222591.
- Vulnerabilities in BRCA-deficient settings: The RAD18-dependent gap-filling axis (via PARP10βRAD18βPCNA-UbβREV1) mitigates nascent strand gaps in BRCA-deficient cells; inhibition of PARP10 or disruption of RAD18 recruitment sensitizes these cells, suggesting combination strategies with DNA damaging agents (Jul 2024; Nature Communications) (khatib2024parp10promotesthe pages 1-2). URL: https://doi.org/10.1038/s41467-024-50429-3.
Expert opinions and authoritative analyses
- A 2023 expert review synthesizes how ubiquitination, including RAD18-mediated PCNA modification, orchestrates replication fork stabilization and DDT signaling, emphasizing translational opportunities in oncology by modulating E2/E3/DUB activities and repair-pathway crosstalk (Oct 2023; Bioscience Reports) (xia2023implicationsofubiquitination pages 10-11, xia2023implicationsofubiquitination pages 5-7, xia2023implicationsofubiquitination pages 18-19). URL: https://doi.org/10.1042/bsr20222591.
- Primary 2024 studies deliver mechanistic consensus: ATR acts as a brake on RAD18 at stalled forks and ALT telomeres; O-GlcNAc/PTM crosstalk tunes RAD18βs recruitment and function; and PCNA ubiquitination can be executed by BRCA1/BARD1 in the absence of stress, refocusing the field on the context-specific regulation of PCNA-Ub beyond the canonical RAD18 pathway (MarβJul 2024; EMBO Journal; Cell Death & Disease; Nature Communications) (chen2024atrlimitsrad18mediated pages 1-2, ma2024rad18oglcnacylationpromotes pages 1-2, khatib2024parp10promotesthe pages 1-2, salaslloret2024brca1bard1ubiquitinatespcna pages 1-2). URLS: https://doi.org/10.1038/s44318-024-00066-9; https://doi.org/10.1038/s41419-024-06700-y; https://doi.org/10.1038/s41467-024-50429-3; https://doi.org/10.1038/s41467-024-48427-6.
Relevant statistics and data from recent studies
- ATR inhibition elevates PCNA K164 monoubiquitination in multiple stress contexts (HU, aphidicolin, UV), consistent with ATRβs S403 phosphorylation limiting RAD18βPCNA binding (Mar 2024; EMBO Journal) (chen2024atrlimitsrad18mediated pages 1-2). URL: https://doi.org/10.1038/s44318-024-00066-9.
- Defined genotoxic conditions used for gap-induction and repair: PARP10βRAD18 axis tested under 0.4 mM hydroxyurea and 150 ΞΌM cisplatin; PARP10 catalytic activity and PCNA interaction are required for REV1 recruitment and gap filling (Jul 2024; Nature Communications) (khatib2024parp10promotesthe pages 1-2). URL: https://doi.org/10.1038/s41467-024-50429-3.
- RAD18 PTM mutants alter sensitivity and repair outputs: An O-GlcNAc-deficient RAD18 mutant (S130A/S164A/T468A) reduces damage-induced PCNA monoubiquitination, impairs PolΞ· focus formation, and increases cellular sensitivity to UV; O-GlcNAcylation promotes RAD18βs contribution to HR, lowering CPT hypersensitivity via improved RAD51 loading (May 2024; Cell Death & Disease) (ma2024rad18oglcnacylationpromotes pages 1-2). URL: https://doi.org/10.1038/s41419-024-06700-y.
- Cell-type specific roles in recombination control: RAD18 loss elevates hyper-recombination phenotypes (sister chromatid exchange, gene conversion) in some human cell lines (e.g., HCT116) and these effects are linked to defective PCNA K164 ubiquitination, underscoring context-specific RAD18 functions (Jan 2025; Biomolecules) (rogers2025celltypespecific pages 1-2). URL: https://doi.org/10.3390/biom15010150.
Mechanistic synthesis: substrate specificity and reaction
- Enzymatic reaction: RAD18 transfers ubiquitin from E2 RAD6 to PCNA (Lys164), predominantly forming mono-ubiquitinated PCNA (mUb-PCNA) that acts as a platform for TLS polymerases; RAD18 thereby controls the switch from replicative to specialized polymerases at damaged templates and in post-replicative gap filling (Oct 2023; Bioscience Reports; Jul 2024; Nature Communications) (xia2023implicationsofubiquitination pages 10-11, khatib2024parp10promotesthe pages 1-2). URLS: https://doi.org/10.1042/bsr20222591; https://doi.org/10.1038/s41467-024-50429-3.
- Recruitment logic: RAD18 is targeted to sites of replication stress by RPA-coated ssDNA and by adapter/regulator proteins such as PARP10. ATR signaling modulates RAD18βPCNA interaction via S403 phosphorylation to prevent over-ubiquitination and excessive SLX4 accumulation, preserving fork/telomere integrity in ALT contexts (Mar 2024; EMBO Journal; Jul 2024; Nature Communications) (chen2024atrlimitsrad18mediated pages 1-2, khatib2024parp10promotesthe pages 1-2). URLS: https://doi.org/10.1038/s44318-024-00066-9; https://doi.org/10.1038/s41467-024-50429-3.
- PTM crosstalk: O-GlcNAcylation of RAD18 (S130/S164/T468) facilitates subsequent CDC7-dependent S434 phosphorylation, supporting optimal PCNA monoubiquitination and efficient TLS/HR (May 2024; Cell Death & Disease) (ma2024rad18oglcnacylationpromotes pages 1-2). URL: https://doi.org/10.1038/s41419-024-06700-y.
- Alternative E3 activity on PCNA: In unperturbed replication, BRCA1/BARD1 can ubiquitinate PCNA independently of RAD18 to prevent replication-associated ssDNA gaps, indicating layered control of PCNA ubiquitination in different cellular contexts (May 2024; Nature Communications) (salaslloret2024brca1bard1ubiquitinatespcna pages 1-2). URL: https://doi.org/10.1038/s41467-024-48427-6.
Embedding: Evidence map
| Aspect | Key finding / definition | Mechanism / details | Evidence (Year; Journal) | URL |
|---|---|---:|---|---|
| Identity / organism | Human RAD18 (UniProt Q9NS91), E3 ubiquitin ligase involved in DNA damage tolerance | Member of RAD18 family; RING-type E3 ligase annotation (EC 2.3.2.27) | 2024; Cell Death & Disease; 2024; EMBO J (ma2024rad18oglcnacylationpromotes pages 1-2, chen2024atrlimitsrad18mediated pages 1-2) | https://doi.org/10.1038/s41419-024-06700-y, https://doi.org/10.1038/s44318-024-00066-9 |
| Domains (RING, UBZ, SAP, PIP) & roles | RING = catalytic E3 activity; UBZ = ubiquitin-binding/targeting to lesions; SAP = DNA/chromatin interactions; PIP-like motif adjacent to Ser403 mediates PCNA contact | Domain architecture guides recruitment to damage, ubiquitin recognition, and PCNA engagement (PIP adjacent to ATR-phosphorylated S403) | 2024; Cell Death & Disease; 2024; EMBO J (ma2024rad18oglcnacylationpromotes pages 1-2, chen2024atrlimitsrad18mediated pages 1-2) | https://doi.org/10.1038/s41419-024-06700-y, https://doi.org/10.1038/s44318-024-00066-9 |
| Enzymatic function | Catalyzes monoubiquitination of PCNA at Lys164 (with E2 RAD6) to initiate TLS; can influence FANCI/FANCD2 signalling | RAD18βRAD6 conjugates single ubiquitin onto PCNA K164 β recruits Y-family TLS polymerases or supports extension to K63-linked chains for template switching | 2024; Nat Commun; 2023; Biosci Reports (khatib2024parp10promotesthe pages 1-2, xia2023implicationsofubiquitination pages 10-11) | https://doi.org/10.1038/s41467-024-50429-3, https://doi.org/10.1042/bsr20222591 |
| Recruitment / localization | Localizes to stalled forks and ssDNA regions coated by RPA; recruited to nascent-gap structures by adapter factors | Recruitment aided by adapter proteins (e.g., PARP10 recruits RAD18 to gaps); interplay with PCNA, RPA, and upstream sensors at forks; RAD18 activity regulated at telomeres/ALT | 2024; Nat Commun; 2024; EMBO J (khatib2024parp10promotesthe pages 1-2, chen2024atrlimitsrad18mediated pages 1-2) | https://doi.org/10.1038/s41467-024-50429-3, https://doi.org/10.1038/s44318-024-00066-9 |
| Pathway roles | Central regulator of DNA damage tolerance: TLS initiation, template switching, crosstalk with HR and fork stability mechanisms | mUb-PCNA (K164) promotes TLS polymerase recruitment; K63 extension/template switching connects to fork reversal and recombination-based bypass; RAD18 also impacts FA pathway ubiquitination and fork protection | 2023-2024; Biosci Reports; EMBO J; Cell Death & Disease (xia2023implicationsofubiquitination pages 10-11, chen2024atrlimitsrad18mediated pages 1-2, ma2024rad18oglcnacylationpromotes pages 1-2) | https://doi.org/10.1042/bsr20222591, https://doi.org/10.1038/s44318-024-00066-9, https://doi.org/10.1038/s41419-024-06700-y |
| Recent regulation (2023β2024) | Multiple PTMs and alternative E3s modulate PCNA ubiquitination and RAD18 activity: ATR phosphorylation (S403) limits RAD18βPCNA binding; O-GlcNAcylation (S130/S164/T468) promotes RAD18 accumulation; PARP10 recruits RAD18 to gaps; BRCA1/BARD1 can ubiquitinate PCNA in unperturbed replication independently of RAD18 | ATR phosphorylates S403 adjacent to a PIP motif to restrict RAD18βPCNA interaction; O-GlcNAcylation enables CDC7-dependent S434 phosphorylation β supports PCNA mUb; PARP10βRAD18 recruits REV1 for gap-filling; BRCA1/BARD1 adds another layer of PCNA ubiquitination control | 2024; EMBO J; 2024; Cell Death & Disease; 2024; Nat Commun; 2024; Nat Commun (chen2024atrlimitsrad18mediated pages 1-2, ma2024rad18oglcnacylationpromotes pages 1-2, khatib2024parp10promotesthe pages 1-2, salaslloret2024brca1bard1ubiquitinatespcna pages 1-2) | https://doi.org/10.1038/s44318-024-00066-9, https://doi.org/10.1038/s41419-024-06700-y, https://doi.org/10.1038/s41467-024-50429-3, https://doi.org/10.1038/s41467-024-48427-6 |
| Disease / therapy relevance | RAD18 is frequently overexpressed in diverse cancers and implicated in chemoresistance; RAD18/RAD6 axis is a therapeutic target to sensitize tumours; BRCA-deficient contexts depend on gap-filling pathways involving RAD18 | Overexpression correlates with progression and therapy resistance (e.g., cisplatin resistance, TNBC RAD6/RAD18 signalling); PARP10 inhibition or RAD6/RAD18 targeting sensitizes BRCA-deficient or gap-prone tumours | 2023-2024; Biosci Reports; 2024; Nat Commun (xia2023implicationsofubiquitination pages 10-11, khatib2024parp10promotesthe pages 1-2, salaslloret2024brca1bard1ubiquitinatespcna pages 1-2) | https://doi.org/10.1042/bsr20222591, https://doi.org/10.1038/s41467-024-50429-3, https://doi.org/10.1038/s41467-024-48427-6 |
| Quantitative / experimental highlights | ATR inhibition increases PCNA monoubiquitination; RAD18 PTM mutants reduce damage-induced PCNA mUb and increase UV/CPT sensitivity; PARP10βRAD18 recruitment increases REV1-dependent gap filling under cisplatin/HU | Chen 2024: ATR inhibition (VE-821) or knockdown β elevated PCNA-Ub after HU/APH/UV; Ma 2024: RAD18 (3A) PTM mutant β reduced PCNA mUb, impaired PolΞ· foci, increased UV sensitivity; Khatib 2024: PARP10 catalytic requirement for REV1 recruitment and gap filling under defined genotoxin doses (cisplatin, HU) | 2024; EMBO J; 2024; Cell Death & Disease; 2024; Nat Commun (chen2024atrlimitsrad18mediated pages 1-2, ma2024rad18oglcnacylationpromotes pages 1-2, khatib2024parp10promotesthe pages 1-2) | https://doi.org/10.1038/s44318-024-00066-9, https://doi.org/10.1038/s41419-024-06700-y, https://doi.org/10.1038/s41467-024-50429-3 |
Table: A compact evidence map (2023β2024) summarizing RAD18 identity, domains, enzymatic activity, recruitment, pathway roles, recent regulatory mechanisms, disease relevance, and key experimental highlights with source links for rapid reference.
Notes on ambiguity and domain alignment
- The literature surveyed explicitly studies human RAD18 and is consistent with the UniProt entry (RING-type E3 ligase; UBZ, SAP domains; and a functional PIP motif proximal to S403). No conflicting gene symbol usage or organism mismatch was found in recent sources (ma2024rad18oglcnacylationpromotes pages 1-2, chen2024atrlimitsrad18mediated pages 1-2, khatib2024parp10promotesthe pages 1-2).
References (URLs and dates)
- Ma et al., Cell Death & Disease, May 2024. RAD18 O-GlcNAcylation promotes TLS and HR. https://doi.org/10.1038/s41419-024-06700-y (ma2024rad18oglcnacylationpromotes pages 1-2).
- Xia et al., Bioscience Reports, Oct 2023. Ubiquitination and replication fork stability in cancer therapy; RAD18βRAD6 axis overview, cancer relevance. https://doi.org/10.1042/bsr20222591 (xia2023implicationsofubiquitination pages 10-11, xia2023implicationsofubiquitination pages 5-7, xia2023implicationsofubiquitination pages 18-19).
- Chen et al., EMBO Journal, Mar 2024. ATR limits RAD18-mediated PCNA monoubiquitination; S403 phosphorylation near PIP. https://doi.org/10.1038/s44318-024-00066-9 (chen2024atrlimitsrad18mediated pages 1-2).
- Khatib et al., Nature Communications, Jul 2024. PARP10 recruits RAD18 to nascent gaps β PCNA-Ub β REV1. https://doi.org/10.1038/s41467-024-50429-3 (khatib2024parp10promotesthe pages 1-2).
- Salas-Lloret et al., Nature Communications, May 2024. BRCA1/BARD1 ubiquitinates PCNA independently of RAD18 in unperturbed replication. https://doi.org/10.1038/s41467-024-48427-6 (salaslloret2024brca1bard1ubiquitinatespcna pages 1-2).
- Rogers et al., Biomolecules, Jan 2025. Cell type-specific suppression of hyper-recombination by RAD18 linked to PCNA K164 ubiquitination. https://doi.org/10.3390/biom15010150 (rogers2025celltypespecific pages 1-2).
References
(ma2024rad18oglcnacylationpromotes pages 1-2): Xiaolu Ma, Hui Fu, Chenyi Sun, Wei Wu, Wenya Hou, Zibin Zhou, Hui Zheng, Yifei Gong, Honglin Wu, Junying Qin, Huiqiang Lou, Jing Li, Tie-Shan Tang, and Caixia Guo. Rad18 o-glcnacylation promotes translesion dna synthesis and homologous recombination repair. Cell Death & Disease, May 2024. URL: https://doi.org/10.1038/s41419-024-06700-y, doi:10.1038/s41419-024-06700-y. This article has 9 citations and is from a peer-reviewed journal.
(chen2024atrlimitsrad18mediated pages 1-2): Siyuan Chen, Chen Pan, Jun Huang, and Tingting Liu. Atr limits rad18-mediated pcna monoubiquitination to preserve replication fork and telomerase-independent telomere stability. The EMBO Journal, 43:1301-1324, Mar 2024. URL: https://doi.org/10.1038/s44318-024-00066-9, doi:10.1038/s44318-024-00066-9. This article has 12 citations.
(khatib2024parp10promotesthe pages 1-2): Jude B. Khatib, Ashna Dhoonmoon, George-Lucian Moldovan, and Claudia M. Nicolae. Parp10 promotes the repair of nascent strand dna gaps through rad18 mediated translesion synthesis. Nature Communications, Jul 2024. URL: https://doi.org/10.1038/s41467-024-50429-3, doi:10.1038/s41467-024-50429-3. This article has 14 citations and is from a highest quality peer-reviewed journal.
(xia2023implicationsofubiquitination pages 10-11): Donghui Xia, Xuefei Zhu, Ying Wang, Peng Gong, Hong-Shu Su, and Xingzhi Xu. Implications of ubiquitination and the maintenance of replication fork stability in cancer therapy. Bioscience Reports, Oct 2023. URL: https://doi.org/10.1042/bsr20222591, doi:10.1042/bsr20222591. This article has 2 citations and is from a peer-reviewed journal.
(xia2023implicationsofubiquitination pages 5-7): Donghui Xia, Xuefei Zhu, Ying Wang, Peng Gong, Hong-Shu Su, and Xingzhi Xu. Implications of ubiquitination and the maintenance of replication fork stability in cancer therapy. Bioscience Reports, Oct 2023. URL: https://doi.org/10.1042/bsr20222591, doi:10.1042/bsr20222591. This article has 2 citations and is from a peer-reviewed journal.
(salaslloret2024brca1bard1ubiquitinatespcna pages 1-2): Daniel Salas-Lloret, NΓ©stor GarcΓa-RodrΓguez, Emily Soto-Hidalgo, Lourdes GonzΓ‘lez-Vinceiro, Carmen Espejo-Serrano, Lisanne Giebel, MarΓa Luisa Mateos-MartΓn, Arnoud H. de Ru, Peter A. van Veelen, Pablo Huertas, Alfred C. O. Vertegaal, and RomΓ‘n GonzΓ‘lez-Prieto. Brca1/bard1 ubiquitinates pcna in unperturbed conditions to promote continuous dna synthesis. Nature Communications, May 2024. URL: https://doi.org/10.1038/s41467-024-48427-6, doi:10.1038/s41467-024-48427-6. This article has 14 citations and is from a highest quality peer-reviewed journal.
(xia2023implicationsofubiquitination pages 18-19): Donghui Xia, Xuefei Zhu, Ying Wang, Peng Gong, Hong-Shu Su, and Xingzhi Xu. Implications of ubiquitination and the maintenance of replication fork stability in cancer therapy. Bioscience Reports, Oct 2023. URL: https://doi.org/10.1042/bsr20222591, doi:10.1042/bsr20222591. This article has 2 citations and is from a peer-reviewed journal.
(rogers2025celltypespecific pages 1-2): Colette B. Rogers, Wendy Leung, Ryan M. Baxley, Rachel E. Kram, Liangjun Wang, Joseph P. Buytendorp, Khoi Le, David A. Largaespada, Eric A. Hendrickson, and Anja-Katrin Bielinsky. Cell type specific suppression of hyper-recombination by human rad18 is linked to proliferating cell nuclear antigen k164 ubiquitination. Biomolecules, 15:150, Jan 2025. URL: https://doi.org/10.3390/biom15010150, doi:10.3390/biom15010150. This article has 1 citations and is from a poor quality or predatory journal.
RAD18 is a human gene encoding an E3 ubiquitin-protein ligase critical for DNA damage tolerance and repair. The RAD18 protein (UniProt Q9NS91) contains a RING-finger domain that confers E3 ligase activity, a SAP domain for DNA binding, and a ubiquitin-binding zinc-finger (UBZ) domain (www.nature.com) (pmc.ncbi.nlm.nih.gov). These domains enable RAD18 to recognize stalled DNA replication sites and coordinate the post-replication repair (PRR) pathway. RAD18 is conserved from yeast to humans and interacts with the E2 ubiquitin-conjugating enzyme RAD6 (also known as UBE2A/B in humans) (www.ncbi.nlm.nih.gov). Together, the RAD18βRAD6 complex monoubiquitinates proliferating cell nuclear antigen (PCNA) on Lysine-164 of PCNA (www.nature.com). PCNA is a DNA-sliding clamp and a master coordinator of replication and repair proteins at replication forks (pmc.ncbi.nlm.nih.gov). By tagging PCNA with ubiquitin, RAD18 acts as a molecular switch that prevents replication fork collapse, allowing cells to tolerate DNA damage during S phase (pmc.ncbi.nlm.nih.gov). This post-replication βdamage toleranceβ mechanism is distinct from direct DNA repair: rather than immediately fixing a DNA lesion, RAD18-mediated PCNA ubiquitination permits DNA synthesis to continue past the lesion, avoiding deadly fork stalling (pmc.ncbi.nlm.nih.gov).
Translesion DNA Synthesis (TLS): The primary function of RAD18 is to trigger TLS, a process by which specialized DNA polymerases replicate across damaged DNA templates. Upon DNA damage (e.g. UV-induced lesions), RAD18-RAD6 adds a single ubiquitin to PCNA (monoubiquitination), which creates a docking signal for Y-family TLS polymerases such as PolΞ· (eta) and PolΞΊ (kappa) (www.nature.com) (www.nature.com). These polymerases have low-fidelity but can accommodate distorted DNA bases, allowing replication to bypass lesions (www.nature.com). TLS is error-prone, often introducing mutations, but it is vital for avoiding acute replication failure. For example, cells lacking RAD18 cannot ubiquitinate PCNA after UV damage and fail to recruit PolΞ·, leading to stalled replication and hypersensitivity to UV (www.ncbi.nlm.nih.gov) (www.nature.com). A landmark study in yeast first linked RAD6βRAD18 to PCNA ubiquitination as the key step in DNA damage tolerance (pmc.ncbi.nlm.nih.gov), a finding later confirmed in human cells (www.nature.com). In human fibroblasts, RAD18 knockouts display defective replication on UV-damaged templates and increased chromosomal breaks, underscoring RAD18βs role in maintaining fork progression (www.ncbi.nlm.nih.gov). Consistently, RAD18-deficient mouse cells show elevated genomic instability and mutagen sensitivity (pmc.ncbi.nlm.nih.gov).
Template Switching (Error-Free PRR): In addition to TLS, RAD18-initiated PCNA ubiquitination can be channeled into an error-free damage bypass pathway. Monoubiquitin on PCNA can be extended into a Lys-63βlinked polyubiquitin chain by other E3 ligases (in yeast, Rad5; in human, HLTF and SHPRH) (www.nature.com). This polyubiquitinated PCNA promotes a template switching mechanism, where the replication machinery bypasses the lesion by using the newly synthesized sister chromatid as a template instead of the damaged strand. Template switching avoids mutations and complements the TLS pathway. RAD18 is required for this process as the initiator of PCNA ubiquitination, even though the extension to polyubiquitin involves additional factors (www.nature.com). Through TLS and template switching, RAD18 safeguards replication: it allows cells to tolerate DNA lesions during S phase, deferring repair to after replication. A 2024 report in Nucleic Acids Research succinctly stated that RAD18 βprevents replication fork collapse by promoting DNA translesion synthesis and template switching,β highlighting its dual role in these tolerance pathways (pmc.ncbi.nlm.nih.gov).
PCNA Ubiquitination Reaction: RAD18 functions as a RING-type E3 ligase that works with the E2 enzyme RAD6. RAD18 directly binds RAD6 via a conserved RING/Rad6-binding domain and facilitates transfer of ubiquitin from RAD6 to PCNA (pubmed.ncbi.nlm.nih.gov). Notably, human RAD18 specifically ubiquitinates PCNA at K164, and this modification is absolutely dependent on RAD18-RAD6 in vivo (www.nature.com). In biochemical assays, the RAD18/RAD6 complex predominantly catalyzes monoubiquitination rather than polyubiquitin chain formation (pubmed.ncbi.nlm.nih.gov). Structural studies indicate RAD18 likely forms a homo-dimer and encircles DNA together with PCNA and RAD6, ensuring ubiquitin is attached to PCNAβs DNA-bound form (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). RAD18 contains a SAP domain (a DNA-binding motif) that preferentially binds single-stranded DNA, helping target the ligase to stalled replication forks where stretches of single-stranded DNA accumulate (pmc.ncbi.nlm.nih.gov). This targeting is enhanced by RAD18βs UBZ domain, which can bind ubiquitin β a recent study showed RAD18βs UBZ domain recognizes ubiquitinated chromatin marks at damage sites (pmc.ncbi.nlm.nih.gov). Indeed, recruitment of RAD18 to sites of stalled replication involves RPA-coated ssDNA and possibly pre-existing ubiquitinated proteins. For example, both ATR kinase activation and RAD18 loading are triggered by RPA-ssDNA, suggesting RAD18 scans replication protein A filaments for fork distress signals (www.embopress.org). Once localized, RAD18 ubiquitinates PCNA, which in turn attracts TLS polymerases that also carry ubiquitin-binding motifs (UBM/UBZ in PolΞ·, PolΞΊ) (www.nature.com).
Key Interactions: Beyond PCNA and RAD6, RAD18 interacts with multiple genome maintenance proteins. It physically associates with REV1/PolΞ· in cells to facilitate polymerase switch during TLS (www.nature.com). Intriguingly, RAD18 also binds the recombination factor RAD51C, a paralog of RAD51, and helps localize RAD51C to DNA breaks (www.nature.com) (www.nature.com). This suggests RAD18 serves as a hub connecting replication stress tolerance to homologous recombination (HR) repair. Regulatory proteins modulate RAD18βs activity via binding: for instance, the MAGEA4 oncoprotein (a cancer-testis antigen) binds directly to RAD18βs C-terminal domain. A 2024 EMBO Journal study reported that MAGEA4 docking on RAD18 partially displaces RAD6 and inhibits RAD18βs auto-ubiquitination, thereby stabilizing the RAD18 protein (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). Normally, RAD18 can undergo autoubiquitination (tags itself for degradation to turn off its signal), but MAGEA4 binding protects RAD18 from self-degradation (pmc.ncbi.nlm.nih.gov). This interaction enhances RAD18βs TLS activity and is thought to encourage error-prone DNA synthesis in cancer cells overexpressing MAGEA4 (pmc.ncbi.nlm.nih.gov). In healthy tissue, RAD18 and MAGEA4 are both highly expressed in testes and during spermatogenesis (pmc.ncbi.nlm.nih.gov), hinting that this regulatory mechanism may operate in germ cells. Aberrant MAGEA4 expression in tumors effectively βhijacksβ RAD18, keeping it active even without exogenous DNA damage, which can exacerbate genomic instability (pmc.ncbi.nlm.nih.gov). The RAD18βMAGEA4 interface is now being explored as a potential drug target to block TLS in cancers (pmc.ncbi.nlm.nih.gov).
Localization: Consistent with its role in DNA replication and repair, RAD18 is predominantly a nuclear protein. Immunohistochemistry data show RAD18 has selective nuclear expression in proliferating cell types β for example, in germinal center B-cells and spermatogonia in testis, RAD18 is strongly nuclear (www.proteinatlas.org). In cell culture, RAD18 relocalizes to nuclear foci upon DNA damage. These foci often colocalize with replication fork markers such as PCNA. A study of gastric cancer tissues confirmed that RAD18 protein is mainly detected in the nucleus of tumor cells (pubmed.ncbi.nlm.nih.gov). RAD18 does not have a classic nuclear localization sequence, but its binding partners (PCNA, RPA, etc.) and DNA-binding SAP domain concentrate it in the nucleus. Notably, RAD18 can shuttle to sites of double-strand breaks and stalled forks as needed. For example, after UV irradiation or replication stress, RAD18 accumulates at damage sites in an RPA- and PCNA-dependent manner (www.embopress.org). RAD18βs PIP motif (PCNA-interacting peptide) near its C-terminus also contributes to binding PCNA directly (www.embopress.org). Recent research (EMBO J, 2024) identified that the ATR kinase phosphorylates RAD18 at Ser403, adjacent to this PIP motif, which weakens RAD18βs interaction with PCNA (www.embopress.org). This phosphorylation by ATR is a key regulatory mechanism to restrict RAD18 activity during replication stress (www.embopress.org). By limiting how tightly RAD18 binds PCNA, ATR prevents excessive PCNA ubiquitination. This is physiologically important, as unchecked RAD18 activity can lead to aberrant processing of replication forks (discussed below). In summary, RAD18 is constitutively nuclear in cycling cells and dynamically enriched at DNA lesions, with its localization and activity finely tuned by cell-cycle checkpoints.
Post-translational Regulation: Cells tightly regulate RAD18 through modifications to ensure it acts at the right time and place. ATR-mediated phosphorylation is one such control: upon replication stress, ATR phosphorylates RAD18 (Ser403), causing RAD18 to release PCNA and thus limiting PCNA monoubiquitination (www.embopress.org). Functionally, this prevents an overactivation of the TLS pathway. A 2024 study demonstrated that inhibiting ATR led to excessive RAD18-dependent PCNA ubiquitination and consequent replication fork breakage β an outcome that could be rescued by RAD18 knockdown or a PCNA-K164R (non-ubiquitinable) mutant (www.embopress.org) (www.embopress.org). Thus, ATR acts as a brake on RAD18 to preserve replication fork stability (www.embopress.org) (www.embopress.org). Another layer of regulation is O-GlcNAcylation (O-linked N-acetylglucosamine modification) of RAD18. Emerging evidence (Cell Death & Disease, 2024) indicates RAD18 is modified by O-GlcNAc at multiple residues (Ser130, Ser164, Thr468), mediated by the OGT enzyme that localizes to DNA damage sites (www.nature.com) (www.nature.com). Loss of RAD18βs O-GlcNAc modification (by mutating those sites) impairs its recruitment to damaged DNA and reduces its ability to ubiquitinate PCNA (www.nature.com). Mechanistically, O-GlcNAcylation of RAD18 was required for efficient RAD18 phosphorylation at Ser434 by CDC7 kinase, which in turn promotes PCNA ubiquitination and PolΞ· focus formation (www.nature.com). Cells expressing an O-GlcNAc-deficient RAD18 mutant showed reduced HR repair and heightened sensitivity to DNA damage (www.nature.com). Therefore, O-GlcNAcylation positively regulates RAD18, enhancing both TLS and homologous recombination functions. RAD18 is also subject to autoubiquitination, as mentioned earlier. Autoubiquitination typically targets RAD18 for proteasomal degradation, serving as a negative feedback to turn off PRR once lesions are bypassed (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). Interactions with proteins like MAGEA4 that suppress autoubiquitination will prolong RAD18βs half-life. In summary, phosphorylation (ATR), glycosylation (O-GlcNAc), and self-ubiquitination of RAD18 all integrate to modulate the timing and intensity of RAD18βs activity in the DNA damage response.
Post-Replication Repair (PRR) Pathway: RAD18 is a central player in the PRR pathway, also known as the DNA damage tolerance pathway. This pathway comes into play when replication forks encounter DNA lesions that cannot be immediately repaired. Rather than stalling indefinitely, PRR allows forks to bypass lesions, and repair is handled after DNA replication. RAD18βs ubiquitination of PCNA is the molecular trigger for PRR (pmc.ncbi.nlm.nih.gov). Depending on context, RAD18-mediated PCNA ubiquitination can initiate error-prone TLS or be coupled to error-free template switching. The importance of RAD18 in PRR is illustrated by the Rad18 knockout phenotype: RAD18-null mouse embryonic stem cells and knockout mice exhibit defective post-replication repair, evidenced by accumulation of daughter-strand gaps behind replication forks and elevated sensitivity to UV, methylating agents, and other mutagens (pmc.ncbi.nlm.nih.gov). In S. cerevisiae, rad18 mutants were first discovered for their inability to survive DNA damage despite intact excision repair, defining the post-replication repair pathway. Human RAD18 restores post-replication repair when expressed in rad18-deficient yeast (pmc.ncbi.nlm.nih.gov), highlighting the pathwayβs conservation. RAD18 also interacts with the Fanconi Anemia (FA) pathway, which is another post-replication repair mechanism especially for DNA interstrand crosslinks. A recent study (PLoS Genetics, 2022) found that RAD18 helps recruit the Fanconi anemia protein FANCD2 to sites of transcription-replication conflicts (pmc.ncbi.nlm.nih.gov). In RAD18-deficient human cells, R-loop structures (RNAβDNA hybrids) accumulate, leading to replication stress and double-strand breaks, partly because FANCD2 fails to localize to resolve these R-loops (pmc.ncbi.nlm.nih.gov). RAD18 activity was shown to be critical for activating FANCD2 under replication stress caused by either transcription blockage or mild replication inhibitors (pmc.ncbi.nlm.nih.gov). Thus, RAD18 links standard PRR (PCNA ubiquitination) with the FA pathway to protect stalled forks from transcriptional interference. This underscores a broader role for RAD18: itβs not only guarding against exogenous DNA damage like UV, but also against endogenous stresses such as hard-to-replicate sequences and R-loops (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov).
Homologous Recombination (HR) and Double-Strand Break Repair: Although traditionally associated with replication lesions, RAD18 has emerging roles in double-strand break (DSB) repair, particularly in promoting HR. In the context of a one-ended DSB arising at a collapsed replication fork, RAD18 appears to channel repair toward HR (error-free repair using a sister chromatid) rather than non-homologous end joining (NHEJ). In mid-2024, Palek et al. reported that RAD18 is actively recruited to DSBs in post-replicative chromatin by recognizing ubiquitylated histone H2A marks (pmc.ncbi.nlm.nih.gov). Specifically, ubiquitination of histone H2A at K15 (placed by upstream DNA damage response E3s like RNF168) creates a binding site for RAD18βs UBZ domain (pmc.ncbi.nlm.nih.gov). RAD18βs presence at breaks then antagonizes 53BP1 loading (pmc.ncbi.nlm.nih.gov). 53BP1 is a factor that favors NHEJ and blocks DNA end resection; by limiting 53BP1 accumulation, RAD18 tilts the balance toward resection and homologous recombination. Using super-resolution microscopy, RAD18 was seen localizing adjacent to DSB sites and confining 53BP1 to peripheral chromatin domains around the break (pmc.ncbi.nlm.nih.gov). Mechanistically, RAD18βs effect required cooperation with SLF1 (SCAF-like factor 1), which helps target RAD18 to newly replicated chromatin marked by unmethylated H4K20 (H4K20me0 is a signature of post-replicative chromatin) (pubmed.ncbi.nlm.nih.gov) (pubmed.ncbi.nlm.nih.gov). Intriguingly, RAD18βs own ubiquitin ligase activity is auto-regulated at DSBs: if RAD18 autoubiquitinates itself (with RAD6βs help), its recruitment to breaks is inhibited (pmc.ncbi.nlm.nih.gov). By preventing self-ubiquitination (for example, via SLF1 or MAGEA4 as discussed), RAD18 can persist at damage sites and promote HR repair. Supporting this model, mutations in RAD18 found in some cancer patients impaired RAD18βs recruitment to DSBs and were associated with genomic instability (www.sciencedirect.com) (pubmed.ncbi.nlm.nih.gov). In summary, RAD18 extends its influence beyond replication forks to the realm of DSB repair: it helps decide the repair pathway choice by favoring homologous recombination in replicating cells, thereby preventing toxic misrepair.
Replication Stress and Fork Rescue: Oncogene activation and other intrinsic stressors often cause replication fork stalling or slowing, known as replication stress. RAD18 has been identified as a key factor that cancer cells exploit to survive high levels of replication stress. A notable study (J. Cell Biol., 2017) showed that RAD18 and PolΞΊ enable tolerance of oncogene-induced replication stress, such as that caused by Cyclin E overexpression (pmc.ncbi.nlm.nih.gov). RAD18-deficient cells fail to resolve stalled forks efficiently and undergo lethal fork collapse when driven into unscheduled replication by oncogenic signals (pmc.ncbi.nlm.nih.gov). In line with this, cells require RAD18 to recover from prolonged S-phase checkpoint arrest (pmc.ncbi.nlm.nih.gov). Recent evidence also points to RAD18βs role in alternative replication rescue pathways like break-induced replication (BIR) (pmc.ncbi.nlm.nih.gov), a process to restart broken forks. These diverse functions position RAD18 as a central responder to replication impediments, whether they are DNA lesions, difficult-to-replicate DNA structures, or collisions between replication and transcription machineries (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). By catalyzing PCNA ubiquitination and cooperating with multiple repair pathways, RAD18 coordinates a network of responses that preserve genome integrity during DNA synthesis.
Cancer Genomics and Mutagenesis: Given its role in tolerating DNA damage (often at the cost of introducing mutations), RAD18 has a complex relationship with cancer. On one hand, RAD18 is protective against acute DNA damage and genomic instability; on the other, its error-prone bypass of lesions can contribute to mutagenesis. High levels of RAD18 have been observed in many cancers, and this is often associated with aggressive disease. For instance, a 2020 clinical study of 96 gastric cancer patients found that tumors with strong RAD18 expression had significantly higher rates of lymph node metastasis and vascular invasion, and patients with RAD18-high tumors had markedly shorter overall survival (pubmed.ncbi.nlm.nih.gov). Specifically, high nuclear RAD18 in gastric tumors correlated with advanced stage (p = 0.0253) and poor prognosis (p = 0.0061 for overall survival) (pubmed.ncbi.nlm.nih.gov). Similarly, in triple-negative breast cancer (TNBC), RAD18 was shown to be overexpressed in high-grade tumors and to correlate inversely with patient survival (pmc.ncbi.nlm.nih.gov). Experimental models have elucidated how RAD18 may drive cancer progression: RAD18βs TLS activity can generate mutations that fuel tumor evolution (pmc.ncbi.nlm.nih.gov). In TNBC cells, RAD18 was found to promote a cancer stem cell-like phenotype via interaction with the Hippo/YAP signaling pathway (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). RAD18 also engages in a positive feedback loop with tumor-associated macrophages: tumor-secreted factors induce macrophages to produce TGF-Ξ², which in turn activates RAD18 and YAP in cancer cells, sustaining stemness and therapy resistance (pmc.ncbi.nlm.nih.gov). These findings underscore that RAD18 is not simply a repair protein but can be co-opted by tumors to enhance malignant traits (metastasis, stemness, mutational adaptability).
Therapeutic Resistance: Cancer cells often rely on RAD18 to survive DNA-damaging treatments, making it a factor in chemo- and radio-resistance. Overexpression of RAD18 has been linked to resistance to platinum chemotherapy in colorectal cancer and to radiotherapy in glioblastoma and lung cancers (www.nature.com) (www.nature.com). For example, knocking down RAD18 in glioma models increased their sensitivity to ionizing radiation, indicating RAD18 normally helps repair or tolerate radiation-induced DNA damage (www.nature.com). Mechanistically, RAD18 can modulate the repair of therapy-induced DNA lesions: one study showed RAD18 overexpression in esophageal carcinoma enhanced repair of radiation damage by regulating DNA-PKcs (a key NHEJ factor) (pmc.ncbi.nlm.nih.gov). Another report described RAD18 promoting epithelialβmesenchymal transition (EMT) and metastasis in colorectal cancer, suggesting RAD18βs activity may extend to altering gene expression programs via DNA damage signals (pmc.ncbi.nlm.nih.gov). These insights have motivated efforts to target RAD18 or its partners pharmacologically. Small-molecule inhibitors of the RAD18 pathway are being explored as adjuvants to cancer therapy. In 2022, researchers discovered a series of xanthene compounds (e.g., βTZ9β) that disrupt RAD6βRAD18 function, thereby blocking PCNA ubiquitination (pmc.ncbi.nlm.nih.gov) (pubmed.ncbi.nlm.nih.gov). These compounds inhibit the RAD6~Ub thioester formation and the RAD6βRAD18 interaction, effectively shutting down TLS (pmc.ncbi.nlm.nih.gov). Notably, treating cells with a RAD6/RAD18 inhibitor (like TZ9) phenocopies RAD18 loss: it prevented NiV virus protein ubiquitination (as discussed below) and also impaired post-replication repair (pubmed.ncbi.nlm.nih.gov). Patent literature in 2021β2023 reflects active interest in RAD18 inhibitors for cancer treatment, indicating preclinical development of molecules aiming to block RAD18-mediated tolerance in tumors (patents.google.com) (patents.justia.com). The rationale is that disabling RAD18 will render cancer cells less able to cope with therapy-induced DNA damage or replication stress, thereby enhancing the efficacy of chemo/radiation. However, this strategy must balance the potential for increased normal tissue toxicity and genomic instability.
Viral Exploitation of RAD18: In an interesting twist, viruses can hijack the RAD18 pathway for their own life cycle. A recent study (Cell Reports, 2023) on Nipah virus (NiV) β a highly pathogenic paramyxovirus β revealed that NiV usurps the RAD6βRAD18 ubiquitin complex to modify its matrix (M) protein (pubmed.ncbi.nlm.nih.gov). The NiV M protein must shuttle from the nucleus (where virions assemble) to the cytoplasm for viral budding. RAD18 was found to directly ubiquitinate NiV M at Lys258 via K63-linked polyubiquitin chains, using RAD6A as the E2 enzyme (pubmed.ncbi.nlm.nih.gov). This ubiquitination of M is crucial for its nuclear export: ubiquitinated M relocalizes to the cytoplasm and reaches the plasma membrane for virion release (pubmed.ncbi.nlm.nih.gov). Disrupting the RAD18βRAD6A complex, either by mutating RAD18βs RING domain or applying the RAD6 inhibitor TZ9, blocked Mβs ubiquitination and trapped the M protein in the nucleus (pubmed.ncbi.nlm.nih.gov). As a result, NiV and the related Hendra virus were unable to efficiently bud from infected cells, greatly attenuating infection (pubmed.ncbi.nlm.nih.gov). This finding identifies RAD18 as a host factor essential for NiV egress. It suggests that RAD18 inhibitors might serve as antivirals against certain viruses, although host DNA repair would concurrently be affected. Nonetheless, the NiV example highlights RAD18βs versatile enzymatic activity β extending beyond PCNA to ubiquitinate other proteins (here a viral protein) when recruited to them. It also provides a βreal-worldβ demonstration that small molecules targeting the RAD18/RAD6 pathway (like TZ9) can have tangible biological effects (e.g. blocking a lethal virus) (pubmed.ncbi.nlm.nih.gov).
RAD18 is widely regarded by experts as a master regulator of replication stress responses. As an authoritative review noted, RAD18 βcoordinates multiple DNA repair and damage tolerance pathways including post-replication repair, homologous recombination, Fanconi anemia, and break-induced replicationβ (pmc.ncbi.nlm.nih.gov). By modifying the key sliding clamp PCNA, RAD18 orchestrates the switch between high-fidelity replication and specialized rescue pathways (pmc.ncbi.nlm.nih.gov). This central role has made RAD18 a focal point in understanding how cells maintain genome stability. Recent research (2022β2024) has significantly expanded our understanding of RAD18βs functions:
- Transcription-Associated Damage: Wells et al. (PLoS Genet, Dec 2022) demonstrated that RAD18 prevents transcription-replication conflicts from turning into DNA breaks by recruiting FANCD2 to resolve R-loops (pmc.ncbi.nlm.nih.gov). This indicates RAD18 is active at common fragile sites and conflict-prone genes, not just at exogenous damage sites.
- DSB Repair Choice: Palek et al. (Nucleic Acids Res, July 2024) showed RAD18 is a novel factor in DSB repair pathway choice β promoting HR by excluding 53BP1 in the context of newly replicated chromatin (pmc.ncbi.nlm.nih.gov). This was a surprising new role, hinting that RAD18 links the replication-coupled repair of one-ended breaks to the classical HR machinery.
- Regulatory Modifications: Zhang et al. (Cell Death Dis., 2024) uncovered the O-GlcNAc modification of RAD18 as a key enhancer of its activity in both TLS and HR, connecting cellular metabolic status (glucose levels) to DNA repair capacity (www.nature.com) (www.nature.com). In parallel, Okano et al. (EMBO J., 2024) identified ATR kinase as a checkpoint that restrains RAD18, thereby protecting replication forks and telomeres from excessive processing (www.embopress.org) (www.embopress.org). This kind of crosstalk between checkpoint signaling and RAD18 ensures a balance between damage bypass and fork stability.
- Structural Insights: Griffith-Jones et al. (EMBO J., 2024) provided high-resolution insight into RAD18βs regulation by cancer-testis antigens (MAGE proteins). Their work solved how MAGEA4 binds RAD18βs RING domain and RAD6-binding domain, stabilizing the ligase and enhancing its activity (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). This not only explained one mechanism of chemoresistance in MAGEA4-positive tumors, but also suggested a new therapeutic angle: disrupting the RAD18βMAGEA4 interaction may selectively sensitize cancer cells (pmc.ncbi.nlm.nih.gov).
- Disease Models: Recent in vivo studies have examined RAD18 in disease contexts. For example, a 2024 Scientific Reports study tested RAD18βs role in B cell lymphomas using Rad18-knockout mice. Spontaneously, Rad18-deficient mice had increased B-cell malignancies after carcinogen exposure (www.nature.com), but in an aggressive Myc-driven lymphoma model, loss of Rad18 did not significantly alter tumor onset (www.nature.com) (www.nature.com). These results imply that RAD18βs role in cancer can be context-dependent and potentially compensated by parallel pathways in some cell types (www.nature.com).
Overall, current expert consensus portrays RAD18 as a guardian of replication that, if dysregulated, can become a double-edged sword β preventing catastrophic genome damage on one hand, but enabling genome instability and therapy resistance on the other (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). Its importance is underscored by the breadth of processes it touches: from ensuring fertility (spermatogenesis requires RAD18 for meiotic DNA repair (www.nature.com)) to influencing the outcomes of cancer therapy. As of 2024, RAD18 remains an active research focus. Key open questions include how RAD18 selects its substrates (beyond PCNA and the few known targets), how it is coordinated with polymerase choice in different lesions, and whether transient RAD18 inhibition can be a safe and effective strategy to augment cancer treatments. Ongoing clinical interest is evident β RAD18 expression is being evaluated as a prognostic biomarker, and preclinical trials of RAD18-pathway inhibitors are likely on the horizon (patents.google.com) (patents.justia.com).
In summary, RAD18 is a pivotal E3 ligase in human cells with a well-established role in monoubiquitinating PCNA to promote DNA damage tolerance. It operates at the crossroads of DNA replication, repair, and checkpoint signaling, ensuring that cells can bypass DNA lesions and recover from replication stress. Cutting-edge studies in 2023β2024 have expanded its known functions to include aiding homologous recombination and preventing transcription-associated genome instability, as well as illuminating mechanisms of its regulation. Clinically, while essential for genome stability, RAD18βs activity can be a liability when hijacked by cancer cells or viruses β making it an attractive, if challenging, target for therapeutic intervention. As one research group aptly summarized, βRAD18 plays numerous roles in genome instability, driven mostly through regulated ubiquitination of [its] primary substrate, PCNAβ (pmc.ncbi.nlm.nih.gov) (pmc.ncbi.nlm.nih.gov). Understanding and modulating those roles continues to be critical in the quest to maintain genomic integrity and improve disease outcomes.
id: Q9NS91
gene_symbol: RAD18
product_type: PROTEIN
status: COMPLETE
taxon:
id: NCBITaxon:9606
label: Homo sapiens
description: >-
RAD18 is a RING-type E3 ubiquitin ligase (EC 2.3.2.27) that functions as a central
regulator of DNA damage tolerance (DDT).
In complex with its E2 partner RAD6 (UBE2A/UBE2B), RAD18 catalyzes monoubiquitination
of PCNA at Lys164, which is the
key initiating event for translesion DNA synthesis (TLS). This modification recruits
Y-family TLS polymerases
(e.g., POL eta) to stalled replication forks, enabling bypass of DNA lesions. RAD18
contains functional domains including
a RING finger (E3 ligase catalytic activity), UBZ domain (ubiquitin binding/damage
site targeting), SAP domain
(DNA/chromatin binding for recognition of forked/ssDNA), and a PIP-like motif for
PCNA interaction. RAD18 also
participates in error-free template switching via K63-linked PCNA polyubiquitination
and exhibits crosstalk with
the Fanconi anemia pathway and homologous recombination.
existing_annotations:
# IBA annotations - phylogenetically inferred, generally high quality
- term:
id: GO:0005634
label: nucleus
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: >-
RAD18 is localized to the nucleus where it carries out its DNA damage tolerance
functions.
Multiple studies confirm nuclear localization: PMID:10884424 identified hRAD18
as nuclear,
PMID:15632077 showed RAD18 colocalizes with BRCTx in the nucleus, PMID:22036607
demonstrated
nuclear localization and nuclear inclusion body formation, and PMID:25023518
showed nuclear
foci formation after DNA damage.
action: ACCEPT
reason: >-
Nuclear localization is well-supported by multiple experimental studies. The
IBA annotation
is phylogenetically consistent with experimental evidence from human and model
organisms.
supported_by:
- reference_id: PMID:10884424
supporting_text: "hRad18 protein binds to hHR6 protein through a conserved
ring-finger motif"
- reference_id: PMID:15632077
supporting_text: "BRCTx binds to the C terminus of hRAD18 in yeast two-hybrid
and immunoprecipitation assays and colocalizes with this protein in the
nucleus"
- reference_id: PMID:22036607
supporting_text: "RAD18-BRCTx interaction is required for efficient repair
of UV-induced DNA damage"
- reference_id: file:human/RAD18/RAD18-deep-research-falcon.md
supporting_text: 'model: Edison Scientific Literature'
- term:
id: GO:0006301
label: DNA damage tolerance
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: >-
DNA damage tolerance is the core biological process of RAD18. RAD18-mediated
PCNA monoubiquitination
is the key initiating event for translesion synthesis and template switching,
both major branches
of DDT. Loss of RAD18 results in defective postreplication repair and hypersensitivity
to UV,
MMS, and mitomycin C (PMID:10884424). Recent studies (Chen et al. 2024, Ma
et al. 2024) confirm
RAD18's central role in DDT through PCNA ubiquitination.
action: ACCEPT
reason: >-
This is the primary biological process annotation for RAD18 and is strongly
supported by
extensive literature. The IBA annotation correctly captures the core function.
supported_by:
- reference_id: PMID:10884424
supporting_text: "Stable transformants with hRad18 mutated in this motif
become sensitive to UV, methyl methanesulfonate, and mitomycin C, and
are defective in the replication of UV-damaged DNA"
- reference_id: PMID:10908344
supporting_text: "Through interaction and complex formation with HHR6A and
HHR6B, RAD18 protein may play an important role in lesion bypass mechanisms
in humans"
- term:
id: GO:0006513
label: protein monoubiquitination
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: >-
RAD18, together with E2 RAD6, catalyzes monoubiquitination of PCNA at Lys164.
This is the
primary enzymatic output of RAD18 activity. Multiple studies confirm this
including
PMID:18363965 which shows the SAP domain is required for efficient mono-ubiquitination
of PCNA,
and PMID:25023518 which demonstrates that Rad18 is required for PCNA monoubiquitination.
action: ACCEPT
reason: >-
Protein monoubiquitination accurately describes RAD18's enzymatic activity
on its primary
substrate PCNA. This is a core function annotation.
supported_by:
- reference_id: PMID:18363965
supporting_text: "The SAP domain is also required for the efficient mono-ubiquitination
of PCNA"
- reference_id: PMID:25023518
supporting_text: "Rad18 is a central E3 ubiquitin ligase in DDT, which exists
in a monoubiquitinated (Rad18β’Ub) and nonubiquitinated form in human cells"
- term:
id: GO:0097505
label: Rad6-Rad18 complex
evidence_type: IBA
original_reference_id: GO_REF:0000033
review:
summary: >-
RAD18 forms a stable complex with RAD6 (UBE2A/UBE2B in humans) that is essential
for its
E3 ubiquitin ligase function. PMID:10908344 demonstrated that human RAD18
interacts with
HHR6A and HHR6B, with stable protein complexes identified and purified. PMID:10884424
showed hRad18 binds to hHR6 through the conserved ring-finger motif. PMID:18363965
confirmed that RAD18 complexed with RAD6B is recruited to stalled replication
forks.
action: ACCEPT
reason: >-
Complex formation with RAD6 is essential for RAD18 function and is well-supported
by multiple experimental studies in human cells.
supported_by:
- reference_id: PMID:10908344
supporting_text: "Human RAD18 protein (hRAD18) was found to interact with
HHR6A and HHR6B. When co-expressed in yeast cells, stable hRAD18-HHR6A
and hRAD18-HHR6B protein complexes were identified and purified to near
homogeneity"
- reference_id: PMID:10884424
supporting_text: "In vivo, hRad18 protein binds to hHR6 protein through
a conserved ring-finger motif"
# IEA annotations - electronic, need verification
- term:
id: GO:0003677
label: DNA binding
evidence_type: IEA
original_reference_id: GO_REF:0000120
review:
summary: >-
RAD18 binds DNA through its SAP domain, with preference for forked and single-stranded
DNA structures. PMID:18363965 provides direct experimental evidence that RAD18
complexed
with RAD6B preferentially binds to forked and ssDNA structures, with the SAP
domain
(residues 248-282) being crucial for DNA binding.
action: ACCEPT
reason: >-
DNA binding is experimentally validated. The IEA annotation is correct and
supported
by direct evidence in PMID:18363965.
supported_by:
- reference_id: PMID:18363965
supporting_text: "Human RAD18 complexed with RAD6B protein preferentially
binds to forked and single-stranded DNA (ssDNA) structures"
- term:
id: GO:0003697
label: single-stranded DNA binding
evidence_type: IEA
original_reference_id: GO_REF:0000002
review:
summary: >-
PMID:18363965 directly demonstrated that RAD18-RAD6B complex binds to ssDNA
structures
localized at stalled replication forks. This binding is mediated by the SAP
domain.
action: ACCEPT
reason: >-
The IEA annotation is validated by experimental evidence. ssDNA binding is
a more
specific annotation than general DNA binding and accurately reflects RAD18's
substrate
preference.
supported_by:
- reference_id: PMID:18363965
supporting_text: "Human RAD18 complexed with RAD6B protein preferentially
binds to forked and single-stranded DNA (ssDNA) structures, which are
known to be localized at stalled replication forks"
- term:
id: GO:0005634
label: nucleus
evidence_type: IEA
original_reference_id: GO_REF:0000120
review:
summary: >-
Duplicate annotation of nucleus localization, also supported by IBA evidence.
Well-validated experimentally (see IBA annotation review above).
action: ACCEPT
reason: >-
Correct annotation, duplicative with IBA but acceptable.
supported_by:
- reference_id: PMID:15632077
supporting_text: "colocalizes with this protein in the nucleus"
- term:
id: GO:0005694
label: chromosome
evidence_type: IEA
original_reference_id: GO_REF:0000117
review:
summary: >-
RAD18 functions at replication forks and DNA damage sites on chromosomes.
Its localization
to chromatin during DNA damage response is well-documented, including localization
to
stalled replication forks and sites of double-strand breaks.
action: ACCEPT
reason: >-
RAD18's association with chromosomes during replication stress and DNA damage
is
consistent with its function.
supported_by:
- reference_id: PMID:18363965
supporting_text: "RAD18 complexed with RAD6B is recruited to stalled replication
forks"
- term:
id: GO:0005813
label: centrosome
evidence_type: IEA
original_reference_id: GO_REF:0000044
review:
summary: >-
PMID:15632077 provides experimental evidence that BRCTx (a RAD18-interacting
protein)
localizes to the centrosome, and the study showed RAD18 interaction with BRCTx.
RAD18 centrosome localization is experimentally supported.
action: ACCEPT
reason: >-
Centrosome localization is supported by IDA evidence from PMID:15632077, validating
the IEA annotation.
supported_by:
- reference_id: PMID:15632077
supporting_text: "the BRCT domain of BRCTx is responsible for mediating
its localization to the nucleus and centrosome in interphase cells"
- term:
id: GO:0006281
label: DNA repair
evidence_type: IEA
original_reference_id: GO_REF:0000120
review:
summary: >-
RAD18 participates in DNA repair through its role in postreplication repair.
While DNA
damage tolerance (GO:0006301) is more precise for RAD18's primary function,
DNA repair
as a parent term is not incorrect. PMID:10884424 describes RAD18's role in
postreplication
repair.
action: ACCEPT
reason: >-
DNA repair is a broader term that encompasses RAD18's function. While DNA
damage
tolerance is more specific, this annotation is not incorrect.
supported_by:
- reference_id: PMID:10884424
supporting_text: "Dysfunction of human Rad18 results in defective postreplication
repair and hypersensitivity to multiple mutagens"
- term:
id: GO:0006301
label: DNA damage tolerance
evidence_type: IEA
original_reference_id: GO_REF:0000002
review:
summary: >-
Duplicate of IBA annotation. DNA damage tolerance is the core biological process
for RAD18.
action: ACCEPT
reason: >-
Correct annotation, duplicative with IBA evidence but acceptable.
supported_by:
- reference_id: PMID:10884424
supporting_text: "Dysfunction of human Rad18 results in defective postreplication
repair"
- term:
id: GO:0006513
label: protein monoubiquitination
evidence_type: IEA
original_reference_id: GO_REF:0000002
review:
summary: >-
Duplicate of IBA annotation. RAD18 catalyzes PCNA monoubiquitination.
action: ACCEPT
reason: >-
Correct annotation, duplicative with IBA evidence.
supported_by:
- reference_id: PMID:18363965
supporting_text: "The SAP domain is also required for the efficient mono-ubiquitination
of PCNA"
- term:
id: GO:0006974
label: DNA damage response
evidence_type: IEA
original_reference_id: GO_REF:0000120
review:
summary: >-
RAD18 is involved in the cellular response to DNA damage, particularly at
stalled
replication forks. Multiple IDA annotations support this (PMID:22036607, PMID:25023518,
PMID:25931565).
action: ACCEPT
reason: >-
DNA damage response is well-supported by multiple experimental studies.
supported_by:
- reference_id: PMID:22036607
supporting_text: "RAD18-BRCTx interaction is required for efficient repair
of UV-induced DNA damage"
- term:
id: GO:0008270
label: zinc ion binding
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: >-
RAD18 contains a RING finger domain and a UBZ (ubiquitin-binding zinc finger)
domain,
both of which coordinate zinc ions. The RING domain is essential for E3 ligase
activity.
action: ACCEPT
reason: >-
Zinc ion binding is structurally required for both the RING and UBZ domains.
This is a valid molecular function annotation.
supported_by:
- reference_id: PMID:10884424
supporting_text: "hRad18 protein binds to hHR6 protein through a conserved
ring-finger motif"
- term:
id: GO:0016740
label: transferase activity
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: >-
RAD18 has E3 ubiquitin ligase activity (EC 2.3.2.27), which is a type of transferase.
However, this is a very general term.
action: MODIFY
reason: >-
While technically correct, GO:0061630 (ubiquitin protein ligase activity)
or
GO:0004842 (ubiquitin-protein transferase activity) are more specific and
informative.
proposed_replacement_terms:
- id: GO:0061630
label: ubiquitin protein ligase activity
- term:
id: GO:0046872
label: metal ion binding
evidence_type: IEA
original_reference_id: GO_REF:0000043
review:
summary: >-
RAD18 binds zinc ions through its RING finger and UBZ domains. Metal ion binding
is a parent term of zinc ion binding.
action: ACCEPT
reason: >-
Correct but redundant with zinc ion binding annotation. Both are valid.
- term:
id: GO:0061630
label: ubiquitin protein ligase activity
evidence_type: IEA
original_reference_id: GO_REF:0000120
review:
summary: >-
RAD18 is a RING-type E3 ubiquitin ligase (EC 2.3.2.27). It catalyzes ubiquitin
transfer
from E2 RAD6 to substrate PCNA. This is the core molecular function of RAD18.
action: ACCEPT
reason: >-
This is the primary molecular function annotation for RAD18 and accurately
describes
its enzymatic activity.
supported_by:
- reference_id: PMID:10884424
supporting_text: "hRad18 protein binds to hHR6 protein through a conserved
ring-finger motif"
- reference_id: PMID:10908344
supporting_text: "stable hRAD18-HHR6A and hRAD18-HHR6B protein complexes
were identified and purified"
# Protein binding annotations - should be REMOVED per curation guidelines
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18316726
review:
summary: >-
This annotation reflects RAD18 interaction with HLTF (Q14527). The study examined
HLTF's role in PCNA polyubiquitination and showed RAD18-HLTF interaction.
action: REMOVE
reason: >-
Per curation guidelines, GO:0005515 (protein binding) is uninformative and
should
be replaced with more specific terms. The RAD18-HLTF interaction is functionally
relevant to DNA damage tolerance pathway.
supported_by:
- reference_id: PMID:18316726
supporting_text: Human HLTF functions as a ubiquitin ligase for
proliferating cell nuclear antigen polyubiquitination.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:18719106
review:
summary: >-
Another HLTF interaction annotation. HLTF and SHPRH are E3 ligases that interact
with RAD18 for PCNA polyubiquitination.
action: REMOVE
reason: >-
GO:0005515 is uninformative. The interaction with HLTF is relevant to RAD18's
role in DNA damage tolerance but protein binding term lacks specificity.
supported_by:
- reference_id: PMID:18719106
supporting_text: Polyubiquitination of proliferating cell nuclear
antigen by HLTF and SHPRH prevents genomic instability from stalled
replication forks.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:19549727
review:
summary: >-
High-throughput E2 interaction network study. Shows RAD18 interaction with
UBE2A (P49459)
and UBE2B (P63146), its E2 partners.
action: REMOVE
reason: >-
The RAD6 interaction is important but captured by Rad6-Rad18 complex annotation.
Protein binding is too general.
supported_by:
- reference_id: PMID:19549727
supporting_text: Analysis of the human E2 ubiquitin conjugating enzyme
protein interaction network.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:21422291
review:
summary: >-
Study on RAD18 promoting monoubiquitination rather than chain formation. Shows
RAD18-UBE2B interaction.
action: REMOVE
reason: >-
GO:0005515 is uninformative. The E2 interaction is captured by complex annotation.
supported_by:
- reference_id: PMID:21422291
supporting_text: E3 ligase Rad18 promotes monoubiquitination rather
than ubiquitin chain formation by E2 enzyme Rad6.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:24981860
review:
summary: >-
Chromatin-related protein interaction study. Shows RAD18-UBE2A interaction.
action: REMOVE
reason: >-
GO:0005515 is uninformative. High-throughput interactome data.
supported_by:
- reference_id: PMID:24981860
supporting_text: 2014 Jun 26. Human-chromatin-related protein
interactions identify a demethylase complex required for chromosome
segregation.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:25416956
review:
summary: >-
Large-scale human interactome mapping. Shows RAD18 interaction with TAX1BP1
(Q86VP1).
action: REMOVE
reason: >-
GO:0005515 is uninformative. High-throughput interactome data.
supported_by:
- reference_id: PMID:25416956
supporting_text: A proteome-scale map of the human interactome
network.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:26496610
review:
summary: >-
Quantitative interactome study. Shows RAD18-UBE2A interaction.
action: REMOVE
reason: >-
GO:0005515 is uninformative. Redundant with other E2 interaction annotations.
supported_by:
- reference_id: PMID:26496610
supporting_text: Oct 22. A human interactome in three quantitative
dimensions organized by stoichiometries and abundances.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:28514442
review:
summary: >-
Architecture of human interactome. Shows interactions with MAGEA3 (P43358)
and UBE2B (P63146).
action: REMOVE
reason: >-
GO:0005515 is uninformative. High-throughput interactome data.
supported_by:
- reference_id: PMID:28514442
supporting_text: Architecture of the human interactome defines protein
communities and disease networks.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:32296183
review:
summary: >-
Reference map of human binary interactome. Shows multiple interactions including
SA1 (O14737), MAGEA3, GOLGA2, ORC2, DAZAP1, TAX1BP1, NAPB.
action: REMOVE
reason: >-
GO:0005515 is uninformative. High-throughput interactome data.
supported_by:
- reference_id: PMID:32296183
supporting_text: Apr 8. A reference map of the human binary protein
interactome.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:32814053
review:
summary: >-
Neurodegenerative disease interactome study. Shows interactions with ATXN1
(P54253)
and TARDBP (Q13148).
action: REMOVE
reason: >-
GO:0005515 is uninformative. These interactions may not be functionally relevant
to RAD18's core DNA damage tolerance function.
supported_by:
- reference_id: PMID:32814053
supporting_text: Interactome Mapping Provides a Network of
Neurodegenerative Disease Proteins and Uncovers Widespread Protein
Aggregation in Affected Brains.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:33961781
review:
summary: >-
Cell-specific interactome remodeling. Shows MAGEA3 and UBE2B interactions.
action: REMOVE
reason: >-
GO:0005515 is uninformative. The UBE2B interaction is captured by complex
annotation.
supported_by:
- reference_id: PMID:33961781
supporting_text: 2021 May 6. Dual proteome-scale networks reveal
cell-specific remodeling of the human interactome.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:40205054
review:
summary: >-
Multimodal cell maps study. Shows MAGEA3 interaction.
action: REMOVE
reason: >-
GO:0005515 is uninformative.
# IDA annotations from HPA (Human Protein Atlas)
supported_by:
- reference_id: PMID:40205054
supporting_text: Apr 9. Multimodal cell maps as a foundation for
structural and functional genomics.
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: IDA
original_reference_id: GO_REF:0000052
review:
summary: >-
HPA immunofluorescence data showing RAD18 localization in nucleoplasm.
Consistent with RAD18's nuclear function in DNA damage tolerance.
action: ACCEPT
reason: >-
Nucleoplasm localization is consistent with RAD18's function at replication
forks
and DNA damage sites.
- term:
id: GO:0016604
label: nuclear body
evidence_type: IDA
original_reference_id: GO_REF:0000052
review:
summary: >-
HPA data showing RAD18 in nuclear bodies. RAD18 forms foci at DNA damage sites,
consistent with this annotation.
action: ACCEPT
reason: >-
Nuclear body localization is consistent with RAD18's DNA damage-induced foci
formation.
supported_by:
- reference_id: PMID:22036607
supporting_text: "this interaction, mediated via highly conserved serine
residues on the RAD18 C terminus, is required for BRCTx accumulation at
DNA damage sites"
- term:
id: GO:0016607
label: nuclear speck
evidence_type: IDA
original_reference_id: GO_REF:0000052
review:
summary: >-
HPA data showing RAD18 in nuclear specks. This may reflect RAD18 foci or
storage/regulatory localization.
action: ACCEPT
reason: >-
Consistent with nuclear localization data from HPA.
- term:
id: GO:0016567
label: protein ubiquitination
evidence_type: IEA
original_reference_id: GO_REF:0000041
review:
summary: >-
RAD18 catalyzes ubiquitination of PCNA. This is a parent term of protein
monoubiquitination.
action: ACCEPT
reason: >-
Correct but less specific than protein monoubiquitination. Both annotations
are valid.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:35849344
review:
summary: >-
LncRNA CTBP1-DT microprotein DDUP interaction study.
action: REMOVE
reason: >-
GO:0005515 is uninformative.
# IDA annotations from specific publications
supported_by:
- reference_id: PMID:35849344
supporting_text: LncRNA CTBP1-DT-encoded microprotein DDUP sustains
DNA damage response signalling to trigger dual DNA repair
mechanisms.
- term:
id: GO:0005634
label: nucleus
evidence_type: IDA
original_reference_id: PMID:25023518
review:
summary: >-
Zeman et al. 2014 showed RAD18 nuclear localization and formation of nuclear
foci
after DNA damage. The study demonstrates wild-type RAD18 forms detergent-resistant
nuclear foci after MMS, UV, or ionizing radiation treatment.
action: ACCEPT
reason: >-
Strong experimental evidence for nuclear localization. Core localization annotation.
supported_by:
- reference_id: PMID:25023518
supporting_text: "Although wild-type Rad18 foci were observed after MMS
treatment"
- term:
id: GO:0006974
label: DNA damage response
evidence_type: IDA
original_reference_id: PMID:25023518
review:
summary: >-
Zeman et al. 2014 comprehensively demonstrated RAD18's role in DNA damage
response.
RAD18 is deubiquitinated after MMS/H2O2 treatment, enabling interaction with
SHPRH
for error-free bypass.
action: ACCEPT
reason: >-
Strong experimental support for RAD18's involvement in DNA damage response.
supported_by:
- reference_id: PMID:25023518
supporting_text: "Upon exposure to MMS or H2O2, Rad18 is deubiquitinated,
promoting a switch from Rad18β’UbβRad18 complexes to Rad18βSHPRH complexes
and error-free bypass of DNA lesions"
- term:
id: GO:0042802
label: identical protein binding
evidence_type: IDA
original_reference_id: PMID:25023518
review:
summary: >-
Zeman et al. 2014 demonstrated RAD18 homodimerization/self-interaction. The
ubiquitinated form of RAD18 (Rad18-Ub) preferentially binds to non-ubiquitinated
RAD18, and this interaction modulates RAD18 activity.
action: ACCEPT
reason: >-
Self-interaction is experimentally demonstrated and functionally significant.
This is more informative than generic protein binding.
supported_by:
- reference_id: PMID:25023518
supporting_text: "Interestingly, Rad18β’Ub also has a strong preference for
binding to nonubiquitinated Rad18, suggesting that the ubiquitinated form
may inhibit other Rad18 molecules in trans"
- term:
id: GO:0051865
label: protein autoubiquitination
evidence_type: IDA
original_reference_id: PMID:25023518
review:
summary: >-
RAD18 undergoes autoubiquitination with its E2 partner RAD6. Zeman et al.
2014
showed that ~25% of RAD18 exists in monoubiquitinated form, and this is enhanced
by RAD6 co-expression.
action: ACCEPT
reason: >-
Autoubiquitination is experimentally demonstrated and is an important regulatory
mechanism for RAD18 activity.
supported_by:
- reference_id: PMID:25023518
supporting_text: "Rad18 is monoubiquitinated in several different mammalian
cell lines"
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:22036607
review:
summary: >-
RAD18-BRCTx (Q8R3P9) interaction. BRCTx is a RAD18-interacting protein.
action: REMOVE
reason: >-
GO:0005515 is uninformative. The RAD18-BRCTx interaction is functionally relevant
but should be captured by more specific terms.
supported_by:
- reference_id: PMID:22036607
supporting_text: Epub 2011 Oct 28. RAD18-BRCTx interaction is required
for efficient repair of UV-induced DNA damage.
- term:
id: GO:0005634
label: nucleus
evidence_type: IDA
original_reference_id: PMID:15632077
review:
summary: >-
Adams et al. 2005 showed BRCTx colocalizes with RAD18 in the nucleus.
action: ACCEPT
reason: >-
Confirms nuclear localization.
supported_by:
- reference_id: PMID:15632077
supporting_text: "BRCTx binds to the C terminus of hRAD18 in yeast two-hybrid
and immunoprecipitation assays and colocalizes with this protein in the
nucleus"
- term:
id: GO:0005634
label: nucleus
evidence_type: IDA
original_reference_id: PMID:22036607
review:
summary: >-
Liu et al. 2012 confirmed RAD18 nuclear localization during UV damage response.
action: ACCEPT
reason: >-
Confirms nuclear localization.
supported_by:
- reference_id: PMID:22036607
supporting_text: Epub 2011 Oct 28. RAD18-BRCTx interaction is required
for efficient repair of UV-induced DNA damage.
- term:
id: GO:0005813
label: centrosome
evidence_type: IDA
original_reference_id: PMID:15632077
review:
summary: >-
Adams et al. 2005 showed BRCTx localizes to centrosome and interacts with
RAD18.
This suggests RAD18 may also localize to centrosome through BRCTx interaction.
action: ACCEPT
reason: >-
Centrosome localization is supported by experimental evidence.
supported_by:
- reference_id: PMID:15632077
supporting_text: "the BRCT domain of BRCTx is responsible for mediating
its localization to the nucleus and centrosome in interphase cells"
- term:
id: GO:0006974
label: DNA damage response
evidence_type: IDA
original_reference_id: PMID:22036607
review:
summary: >-
Liu et al. 2012 demonstrated RAD18-BRCTx module is critical for UV-induced
DNA damage repair.
action: ACCEPT
reason: >-
Strong experimental support for DNA damage response involvement.
supported_by:
- reference_id: PMID:22036607
supporting_text: "RAD18-BRCTx interaction is required for efficient repair
of UV-induced DNA damage"
- term:
id: GO:0042405
label: nuclear inclusion body
evidence_type: IDA
original_reference_id: PMID:22036607
review:
summary: >-
Liu et al. 2012 showed RAD18 forms nuclear inclusion bodies during DNA damage.
action: ACCEPT
reason: >-
Specific localization during DNA damage response.
supported_by:
- reference_id: PMID:22036607
supporting_text: "this interaction, mediated via highly conserved serine
residues on the RAD18 C terminus, is required for BRCTx accumulation at
DNA damage sites"
- term:
id: GO:0044877
label: protein-containing complex binding
evidence_type: IPI
original_reference_id: PMID:25931565
review:
summary: >-
Raschle et al. 2015 identified SLF1 (Q8IY18) and SLF2 (Q96SB8) as forming
a complex
with RAD18 that recruits SMC5/6 to DNA lesions.
action: ACCEPT
reason: >-
More informative than generic protein binding. RAD18 forms a complex with
SLF1/SLF2 for SMC5/6 recruitment.
supported_by:
- reference_id: PMID:25931565
supporting_text: "SLF1 and SLF2, which form a complex with RAD18 and together
define a pathway that suppresses genome instability by recruiting the
SMC5/6 cohesion complex to DNA lesions"
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:25931565
review:
summary: >-
Same study as above, shows interactions with ANKRD17 (Q8IX21) and ELF1 (Q9BQI6).
action: REMOVE
reason: >-
GO:0005515 is uninformative. The more specific protein-containing complex
binding
annotation captures the SLF1/SLF2 interaction.
supported_by:
- reference_id: PMID:25931565
supporting_text: Apr 30. DNA repair. Proteomics reveals dynamic
assembly of repair complexes during bypass of DNA cross-links.
- term:
id: GO:0006974
label: DNA damage response
evidence_type: IDA
original_reference_id: PMID:25931565
review:
summary: >-
Raschle et al. 2015 proteomics study of DNA repair during ICL bypass revealed
RAD18's role in the DNA damage response.
action: ACCEPT
reason: >-
Strong experimental support from systematic proteomics study.
supported_by:
- reference_id: PMID:25931565
supporting_text: "define a pathway that suppresses genome instability by
recruiting the SMC5/6 cohesion complex to DNA lesions"
- term:
id: GO:0035861
label: site of double-strand break
evidence_type: IDA
original_reference_id: PMID:25931565
review:
summary: >-
Raschle et al. 2015 showed RAD18 is recruited to DNA double-strand breaks
as part of the repair complex assembly.
action: ACCEPT
reason: >-
Specific localization to DSB sites during repair.
supported_by:
- reference_id: PMID:25931565
supporting_text: "Among numerous prospective DNA repair factors, we identified
SLF1 and SLF2, which form a complex with RAD18 and together define a pathway
that suppresses genome instability by recruiting the SMC5/6 cohesion complex
to DNA lesions"
- term:
id: GO:0051984
label: positive regulation of chromosome segregation
evidence_type: IMP
original_reference_id: PMID:25931565
review:
summary: >-
Raschle et al. 2015 showed RAD18-SLF1-SLF2 complex promotes genome stability,
which includes proper chromosome segregation.
action: KEEP_AS_NON_CORE
reason: >-
This is a downstream consequence of RAD18's DNA damage tolerance function
rather than a core function. Keep as non-core.
supported_by:
- reference_id: PMID:25931565
supporting_text: "define a pathway that suppresses genome instability"
# Reactome TAS annotations
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: TAS
original_reference_id: Reactome:R-HSA-5652005
review:
summary: >-
Reactome annotation for RAD18:UBE2B complex binding to PCNA associated with
damaged DNA.
action: ACCEPT
reason: >-
Consistent with nucleoplasm localization.
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: TAS
original_reference_id: Reactome:R-HSA-5652009
review:
summary: >-
Reactome annotation for RAD18:UBE2B monoubiquitinating PCNA.
action: ACCEPT
reason: >-
Consistent with nucleoplasm localization for PCNA ubiquitination.
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: TAS
original_reference_id: Reactome:R-HSA-8943003
review:
summary: >-
Reactome annotation for SHPRH polyubiquitinating monoubiquitinated PCNA (RAD18
participates).
action: ACCEPT
reason: >-
Consistent with nucleoplasm localization.
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: TAS
original_reference_id: Reactome:R-HSA-8943007
review:
summary: >-
Reactome annotation for SHPRH binding monoUb-PCNA with RAD6:RAD18.
action: ACCEPT
reason: >-
Consistent with nucleoplasm localization.
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: TAS
original_reference_id: Reactome:R-HSA-8943040
review:
summary: >-
Reactome annotation for HLTF polyubiquitinating monoubiquitinated PCNA.
action: ACCEPT
reason: >-
Consistent with nucleoplasm localization.
- term:
id: GO:0005654
label: nucleoplasm
evidence_type: TAS
original_reference_id: Reactome:R-HSA-8943041
review:
summary: >-
Reactome annotation for HLTF binding monoUb-PCNA with RAD6:RAD18.
action: ACCEPT
reason: >-
Consistent with nucleoplasm localization.
- term:
id: GO:0031593
label: polyubiquitin modification-dependent protein binding
evidence_type: IDA
original_reference_id: PMID:22742833
review:
summary: >-
Panier et al. 2012 showed RAD18 accumulates at DSB sites through ubiquitin-binding
domains (UBZ). RAD18's UBZ domain recognizes ubiquitinated chromatin for recruitment
to damage sites.
action: ACCEPT
reason: >-
This is a specific molecular function that describes how RAD18 is recruited
to damage sites via ubiquitin recognition. More informative than generic protein
binding.
supported_by:
- reference_id: PMID:22742833
supporting_text: "RNF168, its paralog RNF169, RAD18, and the BRCA1-interacting
RAP80 protein accumulate at DSB sites through the use of bipartite modules
composed of UBDs juxtaposed to peptide motifs that provide specificity"
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:22681887
review:
summary: >-
Spartan/C1orf124 (Q9H040) interaction - a reader of PCNA ubiquitylation.
action: REMOVE
reason: >-
GO:0005515 is uninformative.
supported_by:
- reference_id: PMID:22681887
supporting_text: Spartan/C1orf124, a reader of PCNA ubiquitylation and
a regulator of UV-induced DNA damage response.
- term:
id: GO:0005515
label: protein binding
evidence_type: IPI
original_reference_id: PMID:21659603
review:
summary: >-
RHINO (Q9BSD3) interaction study.
action: REMOVE
reason: >-
GO:0005515 is uninformative.
supported_by:
- reference_id: PMID:21659603
supporting_text: A DNA damage response screen identifies RHINO, a
9-1-1 and TopBP1 interacting protein required for ATR signaling.
- term:
id: GO:0000403
label: Y-form DNA binding
evidence_type: IDA
original_reference_id: PMID:18363965
review:
summary: >-
Tsuji et al. 2008 directly demonstrated that RAD18-RAD6B complex preferentially
binds to forked (Y-form) DNA structures at stalled replication forks.
action: ACCEPT
reason: >-
This is a highly specific and experimentally validated molecular function.
Y-form DNA binding is central to RAD18's recruitment to stalled forks.
supported_by:
- reference_id: PMID:18363965
supporting_text: "Human RAD18 complexed with RAD6B protein preferentially
binds to forked and single-stranded DNA (ssDNA) structures, which are
known to be localized at stalled replication forks"
- term:
id: GO:0005657
label: replication fork
evidence_type: IDA
original_reference_id: PMID:18363965
review:
summary: >-
Tsuji et al. 2008 demonstrated RAD18-RAD6B recruitment to stalled replication
forks
via recognition of forked and ssDNA structures.
action: ACCEPT
reason: >-
Replication fork localization is central to RAD18's function in DNA damage
tolerance.
supported_by:
- reference_id: PMID:18363965
supporting_text: "RAD18 complexed with RAD6B is recruited to stalled replication
forks via interactions with forked DNA or long ssDNA structures"
- term:
id: GO:0031625
label: ubiquitin protein ligase binding
evidence_type: IPI
original_reference_id: PMID:18363965
review:
summary: >-
RAD18 binds to its E2 partner UBE2B (P63146/RAD6B). This is the E2 that provides
ubiquitin for PCNA monoubiquitination.
action: ACCEPT
reason: >-
Binding to E2 ubiquitin-conjugating enzyme is essential for E3 ligase function.
This is more specific than generic protein binding.
supported_by:
- reference_id: PMID:18363965
supporting_text: "RAD18 complexed with RAD6B protein"
- term:
id: GO:0031625
label: ubiquitin protein ligase binding
evidence_type: IPI
original_reference_id: PMID:10908344
review:
summary: >-
Xin et al. 2000 demonstrated human RAD18 interacts with both HHR6A (UBE2A/P49459)
and HHR6B (UBE2B/P63146), forming stable complexes.
action: ACCEPT
reason: >-
E2 binding is essential for RAD18's E3 ligase function.
supported_by:
- reference_id: PMID:10908344
supporting_text: "Human RAD18 protein (hRAD18) was found to interact with
HHR6A and HHR6B"
# NAS annotations from early characterization
- term:
id: GO:0003684
label: damaged DNA binding
evidence_type: NAS
original_reference_id: PMID:10884424
review:
summary: >-
Tateishi et al. 2000 characterized human RAD18 as involved in postreplication
repair
of damaged DNA. While not directly demonstrating damaged DNA binding, the
function
implies recognition of damage-associated structures.
action: MODIFY
reason: >-
NAS evidence is weak. The more specific GO:0000403 (Y-form DNA binding) is
supported
by IDA evidence from PMID:18363965. RAD18 binds fork/ssDNA structures rather
than
damaged bases directly.
proposed_replacement_terms:
- id: GO:0000403
label: Y-form DNA binding
supported_by:
- reference_id: PMID:10884424
supporting_text: Dysfunction of human Rad18 results in defective
postreplication repair and hypersensitivity to multiple mutagens.
- term:
id: GO:0005634
label: nucleus
evidence_type: NAS
original_reference_id: PMID:10884424
review:
summary: >-
Early characterization paper. Nuclear localization is well-supported by
later IDA evidence.
action: ACCEPT
reason: >-
Consistent with IDA evidence from multiple studies.
supported_by:
- reference_id: PMID:10884424
supporting_text: Dysfunction of human Rad18 results in defective
postreplication repair and hypersensitivity to multiple mutagens.
- term:
id: GO:0006281
label: DNA repair
evidence_type: NAS
original_reference_id: PMID:10884424
review:
summary: >-
Tateishi et al. 2000 showed dysfunction of RAD18 results in defective postreplication
repair. DNA repair is accurate but DNA damage tolerance (GO:0006301) is more
specific.
action: ACCEPT
reason: >-
DNA repair as a parent term is not incorrect, even though DNA damage tolerance
is more specific.
supported_by:
- reference_id: PMID:10884424
supporting_text: "Dysfunction of human Rad18 results in defective postreplication
repair"
references:
- id: GO_REF:0000002
title: Gene Ontology annotation through association of InterPro records with
GO terms
findings: []
- id: GO_REF:0000033
title: Annotation inferences using phylogenetic trees
findings: []
- id: GO_REF:0000041
title: Gene Ontology annotation based on UniPathway vocabulary mapping
findings: []
- id: GO_REF:0000043
title: Gene Ontology annotation based on UniProtKB/Swiss-Prot keyword
mapping
findings: []
- id: GO_REF:0000044
title: Gene Ontology annotation based on UniProtKB/Swiss-Prot Subcellular
Location vocabulary mapping
findings: []
- id: GO_REF:0000052
title: Gene Ontology annotation based on curation of immunofluorescence data
findings: []
- id: GO_REF:0000117
title: Electronic Gene Ontology annotations created by ARBA machine learning
models
findings: []
- id: GO_REF:0000120
title: Combined Automated Annotation using Multiple IEA Methods
findings: []
- id: PMID:10884424
title: Dysfunction of human Rad18 results in defective postreplication
repair and hypersensitivity to multiple mutagens.
findings:
- statement: RAD18 is essential for postreplication repair
- statement: RAD18 dysfunction causes sensitivity to UV, MMS, and
mitomycin C
- statement: RAD18 binds to RAD6 through conserved ring-finger motif
- id: PMID:10908344
title: The human RAD18 gene product interacts with HHR6A and HHR6B.
findings:
- statement: Human RAD18 forms stable complexes with UBE2A (HHR6A) and
UBE2B (HHR6B)
- statement: RAD18 is ubiquitously expressed in human tissues
- statement: RAD18 plays role in lesion bypass mechanisms
- id: PMID:15632077
title: BRCTx is a novel, highly conserved RAD18-interacting protein.
findings:
- statement: BRCTx binds to C-terminus of RAD18
- statement: RAD18 and BRCTx colocalize in nucleus
- statement: BRCTx localizes to nucleus and centrosome
- id: PMID:18316726
title: Human HLTF functions as a ubiquitin ligase for proliferating cell
nuclear antigen polyubiquitination.
findings:
- statement: HLTF interacts with RAD18
- statement: HLTF extends PCNA monoubiquitination to polyubiquitination
- id: PMID:18363965
title: Recognition of forked and single-stranded DNA structures by human
RAD18 complexed with RAD6B protein triggers its recruitment to stalled
replication forks.
findings:
- statement: RAD18-RAD6B preferentially binds forked and ssDNA structures
- statement: SAP domain (residues 248-282) is crucial for DNA binding
- statement: SAP domain is required for efficient PCNA monoubiquitination
- statement: RAD18 recruits Pol eta to stalled replication forks
- id: PMID:18719106
title: Polyubiquitination of proliferating cell nuclear antigen by HLTF and
SHPRH prevents genomic instability from stalled replication forks.
findings:
- statement: HLTF and SHPRH extend RAD18-mediated PCNA monoubiquitination
- id: PMID:22036607
title: RAD18-BRCTx interaction is required for efficient repair of
UV-induced DNA damage.
findings:
- statement: RAD18 interacts with BRCTx in phosphorylation-dependent
manner
- statement: RAD18-BRCTx module is critical for UV damage repair
- statement: RAD18 forms nuclear inclusion bodies
- id: PMID:22681887
title: Spartan/C1orf124, a reader of PCNA ubiquitylation and a regulator of
UV-induced DNA damage response.
findings:
- statement: Spartan reads RAD18-mediated PCNA ubiquitylation
- id: PMID:22742833
title: Tandem protein interaction modules organize the ubiquitin-dependent
response to DNA double-strand breaks.
findings:
- statement: RAD18 accumulates at DSB sites through UBD-LRM bipartite
modules
- statement: RAD18 recognizes ubiquitinated chromatin via UBZ domain
- id: PMID:25023518
title: DNA damage-specific deubiquitination regulates Rad18 functions to
suppress mutagenesis.
findings:
- statement: RAD18 exists in monoubiquitinated and non-ubiquitinated forms
- statement: RAD18 is deubiquitinated after MMS or H2O2 treatment
- statement: Ubiquitinated RAD18 preferentially binds non-ubiquitinated
RAD18
- statement: RAD18 deubiquitination promotes SHPRH interaction for
error-free bypass
- statement: RAD18 forms nuclear foci after DNA damage
- statement: RAD18 autoubiquitination is promoted by RAD6
- id: PMID:25931565
title: DNA repair. Proteomics reveals dynamic assembly of repair complexes
during bypass of DNA cross-links.
findings:
- statement: RAD18 forms complex with SLF1 and SLF2
- statement: RAD18-SLF1-SLF2 recruits SMC5/6 to DNA lesions
- statement: RAD18 suppresses genome instability at ICLs
- id: PMID:19549727
title: Analysis of the human E2 ubiquitin conjugating enzyme protein
interaction network.
findings:
- statement: High-throughput mapping of E2-E3 interactions
- statement: RAD18 interacts with UBE2A and UBE2B
- id: PMID:21422291
title: E3 ligase Rad18 promotes monoubiquitination rather than ubiquitin
chain formation by E2 enzyme Rad6.
findings:
- statement: RAD18 promotes monoubiquitination rather than chain formation
- id: PMID:24981860
title: Human-chromatin-related protein interactions identify a demethylase
complex required for chromosome segregation.
findings:
- statement: Chromatin-related protein interaction study
- id: PMID:25416956
title: A proteome-scale map of the human interactome network.
findings:
- statement: Large-scale human interactome mapping
- id: PMID:26496610
title: A human interactome in three quantitative dimensions organized by
stoichiometries and abundances.
findings:
- statement: Quantitative interactome study of E2-E3 interactions
- id: PMID:28514442
title: "Architecture of the human interactome defines protein communities and disease networks."
findings:
- statement: Systematic mapping of human protein interactions
- id: PMID:32296183
title: A reference map of the human binary protein interactome.
findings:
- statement: Comprehensive binary interactome mapping
- id: PMID:32814053
title: Interactome Mapping Provides a Network of Neurodegenerative Disease
Proteins and Uncovers Widespread Protein Aggregation in Affected Brains.
findings:
- statement: Disease-related protein interaction network
- id: PMID:33961781
title: Dual proteome-scale networks reveal cell-specific remodeling of the
human interactome.
findings:
- statement: Cell-specific interactome changes
- id: PMID:40205054
title: Multimodal cell maps as a foundation for structural and functional
genomics.
findings:
- statement: Multimodal proteomics approach
- id: PMID:35849344
title: LncRNA CTBP1-DT-encoded microprotein DDUP sustains DNA damage
response signalling to trigger dual DNA repair mechanisms.
findings:
- statement: DDUP microprotein interacts with DNA repair machinery
- id: PMID:21659603
title: A DNA damage response screen identifies RHINO, a 9-1-1 and TopBP1
interacting protein required for ATR signaling.
findings:
- statement: RHINO as DNA damage response factor
- id: Reactome:R-HSA-5652005
title: RAD18:UBE2B or RBX1:CUL4:DDB1:DTL ubiquitin ligase complex binds
PCNA:POLD,POLE:RPA:RFC associated with damaged dsDNA
findings: []
- id: Reactome:R-HSA-5652009
title: RAD18:UBE2B or RBX1:CUL4:DDB1:DTL monoubiquitinates PCNA
findings: []
- id: Reactome:R-HSA-8943003
title: SHPRH polyubiquitinates monoubiquitinated PCNA
findings: []
- id: Reactome:R-HSA-8943007
title: SHPRH binds monoUb-K164-PCNA, RAD6:RAD18, UBE2V2:Ub:UBE2N
findings: []
- id: Reactome:R-HSA-8943040
title: HLTF polyubiquitinates monoubiquitinated PCNA
findings: []
- id: Reactome:R-HSA-8943041
title: HLTF binds monoUb-K164-PCNA, RAD6:RAD18, UBE2V2:Ub:UBE2N
findings: []
- id: file:human/RAD18/RAD18-deep-research-falcon.md
title: Deep research report on RAD18
findings: []
- id: file:human/RAD18/RAD18-deep-research-cyberian.md
title: Cyberian deep research on RAD18 function
findings: []
core_functions:
- description: >-
RAD18 is a RING-type E3 ubiquitin ligase (EC 2.3.2.27) that, with its E2 partner
RAD6
(UBE2A/UBE2B), catalyzes monoubiquitination of PCNA at Lys164. Core enzymatic
function
supported by multiple studies (PMID:10884424, PMID:18363965, PMID:25023518).
molecular_function:
id: GO:0061630
label: ubiquitin protein ligase activity
directly_involved_in:
- id: GO:0006513
label: protein monoubiquitination
- id: GO:0006301
label: DNA damage tolerance
locations:
- id: GO:0005634
label: nucleus
- id: GO:0005657
label: replication fork
in_complex:
id: GO:0097505
label: Rad6-Rad18 complex
- description: >-
RAD18-RAD6B complex preferentially binds forked and ssDNA structures at stalled
replication forks. The SAP domain is essential for DNA binding and fork recruitment.
Directly demonstrated by PMID:18363965.
molecular_function:
id: GO:0000403
label: Y-form DNA binding
directly_involved_in:
- id: GO:0006974
label: DNA damage response
locations:
- id: GO:0005657
label: replication fork