ERCC3 encodes XPB, a 782-amino-acid ATP-dependent DNA motor in the TFIIH core complex. In the nucleoplasm, XPB engages duplex DNA and uses ATP hydrolysis to promote DNA opening during nucleotide-excision repair and RNA polymerase II transcription initiation. Its activity also contributes to promoter clearance. Partner-dependent regulation within TFIIH coordinates the XPB motor with the repair and transcription assemblies. Its principal DNA-opening activity is ATP-driven duplex translocation; it also has measurable 3′–5′ DNA-unwinding capacity. The extent of XPB dependence varies among promoters and experimental conditions. Biallelic ERCC3 variants cause xeroderma pigmentosum group B, sometimes with Cockayne syndrome features, or photosensitive trichothiodystrophy.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0000112 nucleotide-excision repair factor 3 complex | IBA GO_REF:0000033 | ACCEPT | Summary: The repair-complex IBA is phylogenetically and experimentally grounded. Reason: The current IBD at the eukaryotic XPB/Ssl2 node is inherited by human ERCC3. Its yeast donor is the Rad2/core-TFIIH/Ssl2 assembly actually purified and tested for incision in PMID:8855246, Methods 10718–10719 and Figures 1–3. This is a complex-membership assertion, not endonuclease activity assigned to XPB. Human TFIIH/XPG repair assemblies in PMID:41673165 independently support the conserved repair context, without claiming that all yeast purification properties were reproduced with human protein. Propagation Review Root cause: NO FAILURE CORE Sources checked: PANTHER:PTN000138598 SUPPORTS TRANSFER Actual PTHR11274 v19 tree places human P19447 leaf PTN002477849 below PTN000138598 (Eukaryota); current IBD line 13805 supports GO:0000112. No intervening NOT record was found; target MSA sequence matches canonical 782 aa. The yeast donor complex was read in the actual scanned original; no target-specific loss was found. |
| GO:0000439 transcription factor TFIIH core complex | IDA PMID:8692841 Isolation and characterization of two human transcription fa... | ACCEPT | Summary: Human XPB is a constituent of the TFIIH core. Reason: PMID:8692841, Methods and Results pp. 6483–6486, Figures 3–5, purifies an XPB/p62/p44/p41/p34-containing human HeLa TFIIH fraction and reconstitutes transcription and repair with the complementary components. The repair complementation includes hamster mutant extracts; it does not turn the human XPB subunit into an incision nuclease. |
| GO:0000439 transcription factor TFIIH core complex | IDA PMID:8692842 Human cyclin-dependent kinase-activating kinase exists in th... | ACCEPT | Summary: XPB belongs to the human TFIIH core within holo-TFIIH. Reason: PMID:8692842, Results pp. 6489–6490 and Figures 1–2, identifies XPB in human HeLa TFIIH and recovers it with MAT1 in controlled immunoprecipitations. The distinct CAK–XPD fraction lacking XPB is not being conflated with the complete TFIIH preparation. |
| GO:0003677 DNA binding | IEA GO_REF:0000002 | ACCEPT | Summary: ERCC3 directly engages DNA as the XPB motor of TFIIH. Reason: IPR006935 is an actual P19447 match (315–471) carrying the DNA-binding mapping. Independent human PIC structures place XPB on downstream duplex DNA (PMID:27193682, Results/Figure 3f and Figure 5; Methods uses HeLa-derived TFIIH), and human repair assemblies retain this engagement (PMID:41673165). This establishes DNA binding without inferring sequence-specific recognition. |
| GO:0003677 DNA binding | TAS PMID:8663148 A 3' --> 5' XPB helicase defect in repair/transcription fact... | ACCEPT | Summary: XPB directly engages DNA in its repair and transcription motor roles. Reason: PMID:8663148, Figure 4, measures DNA-dependent ATPase and unwinding with recombinant human GST-XPB. Independent human initiation structures place XPB on downstream duplex DNA (PMID:27193682, Results and Figures 3 and 5); repair assemblies also contact DNA (PMID:41673165). These support DNA binding, without adding lesion-selective or sequence-specific recognition. |
| GO:0003678 DNA helicase activity | IEA GO_REF:0000002 | MODIFY | Summary: Refine the family-level helicase mapping to the supported translocase and directional unwinding activities. Reason: IPR001161 genuinely matches P19447 (60–779) and supplies this helicase annotation; the mapping is not a wrong-family assignment. Human PIC structures and newer recombinant human TFIIH experiments establish XPB engagement and ATP-driven movement along duplex DNA (PMID:27193682, Results 22–23/34–42; PMID:41673165, Results 46–51/Figure 5). GO:0015616 describes this motor action. The distinct 3′–5′ unwinding capacity directly measured in PMID:17466626 Figure 5B is retained in its specific non-core annotations, rather than declared absent. The replacement terms retain both supported activities. The specific helicase rows still entail the broad helicase ancestor; this refinement does not claim to remove that ancestor from the inferred term set. Direction is grounded in the measured assay, with the current ontology definition mismatch documented in the specific rows. Proposed replacements: DNA translocase activity 3'-5' DNA helicase activity |
| GO:0003684 damaged DNA binding | NAS PMID:2167179 A presumed DNA helicase encoded by ERCC-3 is involved in the... | UNDECIDED | Summary: The source establishes repair complementation, but specific damaged-DNA binding remains unresolved. Reason: The actual PMID:2167179 original describes predicted DNA/helicase motifs and human ERCC3 correction of UV-induced repair synthesis in XPB cells (Results, Figure 4 and Experimental Procedures). It does not directly compare binding to damaged and undamaged DNA. Later human XPB structures establish general duplex contact and motor-driven opening, including an internal Cy5 lesion mimic in PMID:41673165, but do not establish preferential damage recognition. Retain uncertainty on this specific MF rather than infer it from repair participation. |
| GO:0005515 protein binding | IPI PMID:10734143 The xeroderma pigmentosum group C protein complex XPC-HR23B ... | KEEP AS NON CORE | Summary: XPB associates with the XPC–RAD23B repair-recognition complex. Reason: PMID:10734143, Methods and Figures 1–3, supports human TFIIH association with XPC–HR23B. Free XPC binds GST-XPB, whereas isolated HR23B does not bind the tested TFIIH subunits; HR23B recovery therefore depends on the XPC-containing complex. Retain the supported association without claiming a purified binary XPB–RAD23B interface or assigning RAD23B activity to XPB. |
| GO:0005515 protein binding | IPI PMID:10734143 The xeroderma pigmentosum group C protein complex XPC-HR23B ... | KEEP AS NON CORE | Summary: Human XPC binds XPB during recruitment of TFIIH. Reason: PMID:10734143, Figure 3 and recombinant-protein Methods, shows free human XPC and XPC–HR23B binding to GST-XPB, with isolated HR23B negative. The protein recruitment context is supported, but it does not by itself make XPB a separate adaptor or damage-recognition receptor. |
| GO:0005515 protein binding | IPI PMID:10801852 Distinct regions of MAT1 regulate cdk7 kinase and TFIIH tran... | KEEP AS NON CORE | Summary: XPB–MAT1 association is independently established in human TFIIH. Reason: The complete experimental text of PMID:10801852 was unavailable. The same partner association is independently demonstrated in PMID:8692842, Figure 2, by reciprocal XPB/MAT1 immunoprecipitation from human HeLa material with controls. Retain the interaction while distinguishing this independent evidence from verification of the inaccessible original MAT1-domain assays. |
| GO:0005515 protein binding | IPI PMID:16669699 Dynamic interaction of TTDA with TFIIH is stabilized by nucl... | KEEP AS NON CORE | Summary: XPB associates with XPD-containing human TFIIH. Reason: PMID:16669699, Results and Figure 1C/D, recovers XPB with XPD-GFP in human fibroblasts, with parental controls. This establishes complex association; it does not assign XPD helicase chemistry or a separate scaffold activity to XPB. |
| GO:0005515 protein binding | IPI PMID:16669699 Dynamic interaction of TTDA with TFIIH is stabilized by nucl... | KEEP AS NON CORE | Summary: XPB associates with TTDA-containing human TFIIH. Reason: PMID:16669699, Results and Figure 1C/D, recovers XPB with TTDA-GFP in human fibroblasts, with parental controls. Retain the supported association without claiming that co-immunoprecipitation alone defines a binary contact or a distinct molecular adaptor role. |
| GO:0005515 protein binding | IPI PMID:17438371 Detection and identification of transcription factors as int... | KEEP AS NON CORE | Summary: XPB is recovered in human Alien/COPS2-containing complexes. Reason: PMID:17438371, Methods paragraph and Figure 1B, identifies ERCC3 in endogenous Alien complexes from U2OS cells by mass spectrometry and verifies recovery by co-immunoprecipitation, using nonspecific antibody controls. This is a supported complex association, not purified binary binding or evidence that XPB itself is a transcriptional corepressor. |
| GO:0005515 protein binding | IPI PMID:17466626 Distinct roles for the XPB/p52 and XPD/p44 subcomplexes of T... | KEEP AS NON CORE | Summary: XPB binds the p52 subunit that stimulates its ATPase. Reason: PMID:17466626, Figures 2–3, examines human XPB–p52 association and shows that p52 stimulates XPB ATPase, with the F99S mutant reducing both association and stimulation. XPB is the activated motor; these data do not give XPB the ATPase-activator function of p52. Retain the partner association alongside the separately reviewed catalytic activities. |
| GO:0005515 protein binding | IPI PMID:19172752 Structural basis for group A trichothiodystrophy. | KEEP AS NON CORE | Summary: The XPB–TTDA complex association is supported independently. Reason: The complete operative original of PMID:19172752 was not recovered. PMID:16669699, Figure 1C/D, independently shows XPB recovery with TTDA-GFP in human fibroblasts. Retain the established human association without claiming that the inaccessible source assays, structural species or precise interfaces were verified; the source title is not evidence of a wrong-target attribution. |
| GO:0005515 protein binding | IPI PMID:19934020 Both XPD alleles contribute to the phenotype of compound het... | KEEP AS NON CORE | Summary: XPB and XPD associate within recombinant human TFIIH. Reason: PMID:19934020, Figure 4B and recombinant-complex Methods, supports XPB/XPD association in human TFIIH assembled using insect-cell expression. Figure 4D specifically assays XPD–p44 and is not a binary XPB–XPD assay. Retain the complex interaction without transferring XPD-specific catalytic or architectural conclusions to XPB. |
| GO:0005515 protein binding | IPI PMID:21988832 Toward an understanding of the protein interaction network o... | MODIFY | Summary: Human XPB binds KPNA3, a member of the importin-alpha family. Reason: PMID:21988832, Supplementary Table S2, row 669, contains Entrez 2071–3839, ERCC3–KPNA3, in the library Y2H screen. The original Methods describe screening and retesting; biochemical follow-up applies only to selected pairs. Official human UniProt O00505 identifies KPNA3 as an importin-alpha family protein, and GO:0061676 denotes binding to that family. Refine the generic interaction to the partner-specific binding term without inferring that XPB itself is a transport receptor or that this screen establishes its physiological nuclear-import mechanism. Proposed replacements: importin-alpha family protein binding |
| GO:0005515 protein binding | IPI PMID:25416956 A proteome-scale map of the human interactome network. | KEEP AS NON CORE | Summary: The HI-II-14 dataset supports an ERCC3–XIAP interaction. Reason: The actual PMID:25416956-linked HI-II-14 PSI-MI dataset contains human P19447–P98170 records at lines 286, 18591 and 48685. The main original describes repeated Y2H screens, quadruplicate retesting and identity confirmation; orthogonal validation covers subsets. Retain the supported screen interaction without assigning XIAP ubiquitin-ligase or anti-apoptotic activities to XPB. |
| GO:0005515 protein binding | IPI PMID:25416956 A proteome-scale map of the human interactome network. | KEEP AS NON CORE | Summary: The HI-II-14 dataset supports an ERCC3–CEP70 interaction. Reason: The actual PMID:25416956-linked HI-II-14 PSI-MI dataset contains human P19447–Q8NHQ1 records at lines 6101, 20205 and 37561. Repeated Y2H and retest procedures support the interaction, but the evidence does not establish a centrosomal function or native TFIIH mechanism for this pair. |
| GO:0005515 protein binding | IPI PMID:26496610 A human interactome in three quantitative dimensions organiz... | KEEP AS NON CORE | Summary: The XPB–TTDA complex association is supported independently. Reason: The complete operative original of PMID:26496610 was not recovered. PMID:16669699, Figure 1C/D, independently shows XPB recovery with TTDA-GFP in human fibroblasts. Retain the established human association without claiming that the inaccessible source assays, structural species or precise interfaces were verified; the source title is not evidence of a wrong-target attribution. |
| GO:0005515 protein binding | IPI PMID:27193682 Near-atomic resolution visualization of human transcription ... | KEEP AS NON CORE | Summary: XPB and XPD are components of the same human initiation assembly. Reason: PMID:27193682 uses human HeLa TFIIH and Pol II with recombinant initiation factors, and locates XPB and XPD in TFIIH. Shared assembly membership supports association, without treating it as a purified binary assay. TBP substitutes for TFIID in these reconstructions; XPB remains a TFIIH subunit. |
| GO:0005515 protein binding | IPI PMID:28514442 Architecture of the human interactome defines protein commun... | KEEP AS NON CORE | Summary: The XPB–TTDA association is retained with independent human support. Reason: The actual PMID:28514442 main Methods describe tagged-bait affinity-purification mass spectrometry and interaction scoring, but the pair-specific target record was not located in the inspected supplemental material. Independently, PMID:16669699, Figure 1C/D, directly recovers XPB with TTDA-GFP in human fibroblasts. Retain the established association without claiming pair-specific validation of this screen or a purified binary interface. |
| GO:0005515 protein binding | IPI PMID:31515488 Extensive disruption of protein interactions by genetic vari... | KEEP AS NON CORE | Summary: The variant-screen data retain ERCC3 association with TRIM27. Reason: PMID:31515488, Supplementary Data 2 row 1222, reports TRIM27 N355S with ERCC3 and disruption score 0; Supplementary Data 6 row 37 also records an intact PCA interaction. The Methods compare variant and wild-type interaction profiles. Retain the experimental association without misidentifying P14373 as PML or inferring that XPB has TRIM27 ubiquitin-ligase activity. |
| GO:0005515 protein binding | IPI PMID:31515488 Extensive disruption of protein interactions by genetic vari... | KEEP AS NON CORE | Summary: The variant-screen data support ERCC3 association with XIAP. Reason: PMID:31515488, Supplementary Data 4 row 321, reports XIAP G188E with ERCC3 and disruption score 0. Interpret this in the original wild-type/variant screen design, not as a new gain-of-interaction claim. The independent HI-II-14 interaction also supports the pair; no XIAP enzymatic function is assigned to XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | MODIFY | Summary: Human XPB binds KPNA3, a member of the importin-alpha family. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains human P19447–O00505 at lines 12814, 53970 and 125683. Original main Methods describe repeated Y2H screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Official UniProt identifies O00505/KPNA3 as an importin-alpha family member, so GO:0061676 expresses the experimentally supported partner class. Human protein identities are distinct from the yeast host, and this binding result does not establish a physiological transport mechanism or assign the partner’s receptor activity to XPB. Proposed replacements: importin-alpha family protein binding |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–TRIM27 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–P14373-1 at lines 38254, 54008 and 160989. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–FXR1 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–P51114-2 at lines 152285, 164319 and 170897. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–SNW1 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–Q13573 at lines 89513, 114499 and 155597. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–TRIM14 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–Q14142-1 at lines 13229, 153653 and 164548. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | UNDECIDED | Summary: The ADAMTSL4 interaction is present, but the exact partner-isoform mapping is unresolved. Reason: The actual HuRI dataset linked to PMID:32296183 contains P19447–Q6UY14-1 records at lines 114036, 141053 and 163714, whereas the preserved imported supporting entity is Q6UY14-3. The inspected record does not reconcile these alternative-product identifiers or historical clone mapping. This is uncertainty about the exact imported context, not evidence that the gene-level interaction is false; do not silently replace the source entity or equate isoforms. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–CEP76 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–Q8TAP6-1 at lines 35844, 67092 and 157520. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–BLZF1 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–Q9H2G9-1 at lines 52346, 65140 and 68817. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–ROPN1 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–Q9HAT0-1 at lines 14929, 146820 and 171131. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | KEEP AS NON CORE | Summary: HuRI reports a human ERCC3–MAGED1 interaction. Reason: The actual PMID:32296183-linked HuRI PSI-MI dataset contains P19447–Q9Y5V3-1 at lines 107794, 129127 and 169700. Human protein accessions are distinguished from the yeast Y2H assay host. The original main Methods describe repeated screening, retesting and sequence confirmation; orthogonal validation applies to subsets. Retain the supported interaction without inferring a native compartment, physiological mechanism or the partner’s molecular activity for XPB. |
| GO:0005515 protein binding | IPI PMID:33961781 Dual proteome-scale networks reveal cell-specific remodeling... | KEEP AS NON CORE | Summary: The XPB–TTDA association is retained with independent human support. Reason: The actual PMID:33961781 main Methods describe tagged-bait affinity-purification mass spectrometry and interaction scoring, but the pair-specific target record was not located in the inspected supplemental material. Independently, PMID:16669699, Figure 1C/D, directly recovers XPB with TTDA-GFP in human fibroblasts. Retain the established association without claiming pair-specific validation of this screen or a purified binary interface. |
| GO:0005515 protein binding | IPI PMID:34591642 A protein network map of head and neck cancer reveals PIK3CA... | KEEP AS NON CORE | Summary: XPB–XPC binding is independently established. Reason: The original PMID:34591642 main Methods describe affinity-purification screens in head-and-neck cell models, but the exact XPB–XPC target record was not located in the inspected supplement. PMID:10734143, Figure 3, independently shows recombinant human XPC binding to GST-XPB. Retain the established pair without asserting that this independently verifies the cancer-screen-specific conditions. |
| GO:0005515 protein binding | IPI PMID:7663514 p53 modulation of TFIIH-associated nucleotide excision repai... | UNDECIDED | Summary: The source-specific p53–XPB binding experiment remains unverified. Reason: The complete original of PMID:7663514 was not recovered. PMID:8675009 demonstrates XPB-dependent modulation of p53-induced apoptosis, but its discussion of direct p53 binding cites the earlier work rather than providing an independent purified binding assay. That functional evidence alone does not verify this exact molecular interaction, so retain uncertainty rather than invent a p53-binding replacement. |
| GO:0005515 protein binding | IPI PMID:7926747 Transcription factor IIE binds preferentially to RNA polymer... | KEEP AS NON CORE | Summary: Human XPB binds the 56-kDa GTF2E1 subunit of TFIIE. Reason: PMID:7926747, Figure 5 and Methods pp. 522–523, uses MBP-human ERCC3 on amylose beads and individually translated TFIIE subunits, with MBP and TFIIA controls. Figure 6 separately recovers transcriptionally functional TFIIH on TFIIE affinity resin. Retain this supported basal-factor interaction; it does not establish sequence-specific DNA-binding transcription-factor binding or a separate coactivator activity for XPB. |
| GO:0005515 protein binding | IPI PMID:7926747 Transcription factor IIE binds preferentially to RNA polymer... | KEEP AS NON CORE | Summary: Human XPB binds the 34-kDa GTF2E2 subunit of TFIIE. Reason: PMID:7926747, Figure 5 and Methods pp. 522–523, uses MBP-human ERCC3 on amylose beads and individually translated TFIIE subunits, with MBP and TFIIA controls. Figure 6 separately recovers transcriptionally functional TFIIH on TFIIE affinity resin. Retain this supported basal-factor interaction; it does not establish sequence-specific DNA-binding transcription-factor binding or a separate coactivator activity for XPB. |
| GO:0005515 protein binding | IPI PMID:8652557 Interactions involving the human RNA polymerase II transcrip... | KEEP AS NON CORE | Summary: Human XPB association with XPD is independently established in TFIIH. Reason: The complete experimental original of PMID:8652557 was unavailable. Independent human TFIIH purification/reconstitution in PMID:8692841, Figure 3, and the cited human complex experiments establish association with XPD. This preserves the supported complex interaction while not claiming that the inaccessible source’s specific subunit-contact experiment was inspected or that co-complex recovery proves a binary interface. |
| GO:0005515 protein binding | IPI PMID:8652557 Interactions involving the human RNA polymerase II transcrip... | UNDECIDED | Summary: The exact XPB–XPG interaction context remains unresolved. Reason: The complete operative PMID:8652557 original was unavailable. XPG participates with TFIIH in repair assemblies, but that broader association alone does not verify the exact XPB–ERCC5 supporting-entity context or its claimed experimental interface. Retain uncertainty without interpreting the paper title, or the distinction between XPB and XPD, as a curation error. |
| GO:0005515 protein binding | IPI PMID:8652557 Interactions involving the human RNA polymerase II transcrip... | KEEP AS NON CORE | Summary: Human XPB association with p62/GTF2H1 is independently established in TFIIH. Reason: The complete experimental original of PMID:8652557 was unavailable. Independent human TFIIH purification/reconstitution in PMID:8692841, Figure 3, and the cited human complex experiments establish association with p62/GTF2H1. This preserves the supported complex interaction while not claiming that the inaccessible source’s specific subunit-contact experiment was inspected or that co-complex recovery proves a binary interface. |
| GO:0005515 protein binding | IPI PMID:8652557 Interactions involving the human RNA polymerase II transcrip... | KEEP AS NON CORE | Summary: Human XPB association with p44/GTF2H2 is independently established in TFIIH. Reason: The complete experimental original of PMID:8652557 was unavailable. Independent human TFIIH purification/reconstitution in PMID:8692841, Figure 3, and the cited human complex experiments establish association with p44/GTF2H2. This preserves the supported complex interaction while not claiming that the inaccessible source’s specific subunit-contact experiment was inspected or that co-complex recovery proves a binary interface. |
| GO:0005515 protein binding | IPI PMID:8652557 Interactions involving the human RNA polymerase II transcrip... | KEEP AS NON CORE | Summary: Human XPB association with p34/GTF2H3 is independently established in TFIIH. Reason: The complete experimental original of PMID:8652557 was unavailable. Independent human TFIIH purification/reconstitution in PMID:8692841, Figure 3, and the cited human complex experiments establish association with p34/GTF2H3. This preserves the supported complex interaction while not claiming that the inaccessible source’s specific subunit-contact experiment was inspected or that co-complex recovery proves a binary interface. |
| GO:0005515 protein binding | IPI PMID:8692842 Human cyclin-dependent kinase-activating kinase exists in th... | KEEP AS NON CORE | Summary: XPB and MAT1 associate in human holo-TFIIH. Reason: PMID:8692842, Figure 2 and Results pp. 6489–6490, shows reciprocal recovery of XPB and MAT1 from human HeLa material with controls. This supports TFIIH-associated binding, not XPB kinase activity or the claim that XPB alone bridges all CAK/core interfaces. |
| GO:0005515 protein binding | IPI PMID:9173976 The XPB subunit of repair/transcription factor TFIIH directl... | MODIFY | Summary: XPB binds the AAA ATPase SUG1/PSMC5. Reason: PMID:9173976, Figures 5–6, recovers endogenous human SUG1 with XPB from HeLa cells and with functional tagged human XPB in complemented cells. The partner is the ATPase PSMC5, so ATPase binding is an evidence-backed refinement. The interaction does not make XPB a proteasomal peptidase or assign the partner’s catalytic activity to it. Proposed replacements: ATPase binding |
| GO:0005515 protein binding | IPI PMID:9173976 The XPB subunit of repair/transcription factor TFIIH directl... | MODIFY | Summary: Human XPB binds the mouse SUG1/Psmc5 ATPase in the experimental system. Reason: PMID:9173976, Methods pp. 2275–2276 and Figures 2–4, identifies mouse Sug1 in a library screen with human XPB and validates association by tagged coexpression, affinity purification and immunoprecipitation. UniProt P62196 is mouse Psmc5; it is not a different human proteasomal ATPase. Refine the supported cross-species partner interaction to ATPase binding, preserving the original partner ID and construct boundaries. Proposed replacements: ATPase binding |
| GO:0005524 ATP binding | IEA GO_REF:0000002 | ACCEPT | Summary: ATP binding is intrinsic to the experimentally established XPB motor. Reason: The current P19447 IPR006935 match supports the electronic nucleotide-binding mapping. Recombinant human XPB ATPase assays and the K346R Walker-A perturbation establish the ATP-dependent motor cycle (PMID:17466626, Figures 3–5 and ATPase Methods 254; PMID:41673165, Results 46–51). This does not assign the separate CDK7 kinase reaction to XPB. |
| GO:0005634 nucleus | IEA GO_REF:0000044 | MODIFY | Summary: Refine broad nuclear localization to the directly observed nucleoplasm. Reason: The UniProt subcellular mapping SL-0191 supports nucleus, while target-specific HPA ICC/IF records for ERCC3/ENSG00000163161 report nucleoplasm with both CAB037153 and HPA046077 in A-431, U-251MG and U2OS. This is a location refinement supported by the actual target antibody/cell-line data; it is not an isoform-specific or exclusively nuclear claim. Proposed replacements: nucleoplasm |
| GO:0005634 nucleus | TAS PMID:8663148 A 3' --> 5' XPB helicase defect in repair/transcription fact... | MODIFY | Summary: The established nuclear localization can be refined to nucleoplasm. Reason: The original PMID:8663148 concerns nuclear repair/transcription but is not treated as a complete localization survey. Independent human XPB-GFP microscopy in PMID:16669699, Figure 2C, and current Human Protein Atlas ERCC3 ICC/IF with CAB037153 and HPA046077 support nucleoplasmic localization in the assayed cell lines. Refine the broad nucleus term without excluding other reported locations or claiming isoform-specific imaging. Proposed replacements: nucleoplasm |
| GO:0005654 nucleoplasm | IDA GO_REF:0000052 | ACCEPT | Summary: The HPA source directly supports ERCC3 nucleoplasmic localization. Reason: GO_REF:0000052 describes curated immunofluorescence rather than an electronic family inference. The actual ERCC3 HPA XML supplies supported ICC/IF nucleoplasm calls for antibodies CAB037153 and HPA046077 in A-431, U-251MG and U2OS. Antibody records were read; image pixels were not independently scored. Additional vesicle staining in one antibody record does not invalidate the nucleoplasmic observation. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-109639 | ACCEPT | Summary: The ERCC3 participant in Formation of the closed pre-initiation complex is nucleoplasmic. Reason: The official Reactome:R-HSA-109639 source resolves through the actual participant chain 109639 --input--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-111264 | ACCEPT | Summary: The ERCC3 participant in Addition of nucleotides between position +11 and +30 is nucleoplasmic. Reason: The official Reactome:R-HSA-111264 source resolves through the actual participant chain 111264 --input--> 75902 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-112379 | ACCEPT | Summary: The ERCC3 participant in Recruitment of elongation factors to form elongation complex is nucleoplasmic. Reason: The official Reactome:R-HSA-112379 source resolves through the actual participant chain 112379 --input--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-112383 | ACCEPT | Summary: The ERCC3 participant in Hypophosphorylation of RNA Pol II CTD by FCP1P protein is nucleoplasmic. Reason: The official Reactome:R-HSA-112383 source resolves through the actual participant chain 112383 --input--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-112385 | ACCEPT | Summary: The ERCC3 participant in Addition of nucleotides leads to transcript elongation is nucleoplasmic. Reason: The official Reactome:R-HSA-112385 source resolves through the actual participant chain 112385 --output--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-113430 | ACCEPT | Summary: The ERCC3 participant in Extrusion of 5'-end of 30 nt long transcript through the pore in Pol II complex is nucleoplasmic. Reason: The official Reactome:R-HSA-113430 source resolves through the actual participant chain 113430 --input--> 111261 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5689317 | ACCEPT | Summary: The ERCC3 participant in Formation of the pre-incision complex in GG-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-5689317 source resolves through the actual participant chain 5689317 --input--> 6790517 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5689861 | ACCEPT | Summary: The ERCC3 participant in Recruitment of XPA and release of CAK is nucleoplasmic. Reason: The official Reactome:R-HSA-5689861 source resolves through the actual participant chain 5689861 --input--> 5689862 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5690213 | ACCEPT | Summary: The ERCC3 participant in DNA polymerases delta, epsilon or kappa bind the GG-NER site is nucleoplasmic. Reason: The official Reactome:R-HSA-5690213 source resolves through the actual participant chain 5690213 --input--> 5691059 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5690988 | ACCEPT | Summary: The ERCC3 participant in 3'-incision of DNA by ERCC5 (XPG) in GG-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-5690988 source resolves through the actual participant chain 5690988 --output--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5690990 | ACCEPT | Summary: The ERCC3 participant in 5'- incision of DNA by ERCC1:ERCC4 in GG-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-5690990 source resolves through the actual participant chain 5690990 --output--> 5691059 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5690991 | ACCEPT | Summary: The ERCC3 participant in Binding of ERCC1:ERCC4 (ERCC1:XPF) to pre-incision complex in GG-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-5690991 source resolves through the actual participant chain 5690991 --input--> 5691043 --hasComponent--> 6790517 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5690996 | ACCEPT | Summary: The ERCC3 participant in ERCC2 and ERCC3 DNA helicases form an open bubble structure in damaged DNA is nucleoplasmic. Reason: The official Reactome:R-HSA-5690996 source resolves through the actual participant chain 5690996 --output--> 5691018 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5691000 | ACCEPT | Summary: The ERCC3 participant in TFIIH binds GG-NER site to form a verification complex is nucleoplasmic. Reason: The official Reactome:R-HSA-5691000 source resolves through the actual participant chain 5691000 --input--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5696670 | ACCEPT | Summary: The ERCC3 participant in CHD1L is recruited to GG-NER site is nucleoplasmic. Reason: The official Reactome:R-HSA-5696670 source resolves through the actual participant chain 5696670 --input--> 5689300 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6781818 | ACCEPT | Summary: The ERCC3 participant in RNA Pol II initiates transcription from damaged DNA template is nucleoplasmic. Reason: The official Reactome:R-HSA-6781818 source resolves through the actual participant chain 6781818 --input--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6781824 | ACCEPT | Summary: The ERCC3 participant in Active RNA Pol II complex transcribes lesion-containing DNA template is nucleoplasmic. Reason: The official Reactome:R-HSA-6781824 source resolves through the actual participant chain 6781824 --input--> 6781821 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6781833 | ACCEPT | Summary: The ERCC3 participant in ERCC8 (CSA) binds stalled RNA Pol II is nucleoplasmic. Reason: The official Reactome:R-HSA-6781833 source resolves through the actual participant chain 6781833 --input--> 6781837 --hasComponent--> 6781822 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6781840 | ACCEPT | Summary: The ERCC3 participant in ERCC6 binds stalled RNA Pol II is nucleoplasmic. Reason: The official Reactome:R-HSA-6781840 source resolves through the actual participant chain 6781840 --input--> 6781822 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6781867 | ACCEPT | Summary: The ERCC3 participant in ERCC8:DDB1:CUL4:RBX1 ubiquitinates ERCC6 and RNA Pol II is nucleoplasmic. Reason: The official Reactome:R-HSA-6781867 source resolves through the actual participant chain 6781867 --input--> 6781839 --hasComponent--> 6781837 --hasComponent--> 6781822 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782004 | ACCEPT | Summary: The ERCC3 participant in Assembly of the pre-incision complex in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782004 source resolves through the actual participant chain 6782004 --input--> 6781866 --hasComponent--> 6781848 --hasComponent--> 6781861 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782069 | ACCEPT | Summary: The ERCC3 participant in UVSSA:USP7 deubiquitinates ERCC6 is nucleoplasmic. Reason: The official Reactome:R-HSA-6782069 source resolves through the actual participant chain 6782069 --input--> 6782063 --hasComponent--> 6781866 --hasComponent--> 6781848 --hasComponent--> 6781861 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782131 | ACCEPT | Summary: The ERCC3 participant in ERCC2-facilitated RNA Pol II backtracking in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782131 source resolves through the actual participant chain 6782131 --output--> 9684117 --hasComponent--> 9684121 --hasComponent--> 9684120 --hasComponent--> 9684119 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782138 | ACCEPT | Summary: The ERCC3 participant in ERCC5 and RPA bind TC-NER site is nucleoplasmic. Reason: The official Reactome:R-HSA-6782138 source resolves through the actual participant chain 6782138 --input--> 6782111 --hasComponent--> 6782122 --hasComponent--> 6782112 --hasComponent--> 6782116 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782141 | ACCEPT | Summary: The ERCC3 participant in Binding of ERCC1:ERCC4 (ERCC1:XPF) to pre-incision complex in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782141 source resolves through the actual participant chain 6782141 --input--> 6782134 --hasComponent--> 6782111 --hasComponent--> 6782122 --hasComponent--> 6782112 --hasComponent--> 6782116 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782204 | ACCEPT | Summary: The ERCC3 participant in 5' incision of damaged DNA strand by ERCC1:ERCC4 in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782204 source resolves through the actual participant chain 6782204 --output--> 6782205 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782208 | ACCEPT | Summary: The ERCC3 participant in Repair DNA synthesis of ~27-30 bases long patch by POLD, POLE or POLK in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782208 source resolves through the actual participant chain 6782208 --input--> 6782222 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782211 | ACCEPT | Summary: The ERCC3 participant in DNA polymerases delta, epsilon or kappa bind the TC-NER site is nucleoplasmic. Reason: The official Reactome:R-HSA-6782211 source resolves through the actual participant chain 6782211 --input--> 6782205 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782224 | ACCEPT | Summary: The ERCC3 participant in 3' incision by ERCC5 (XPG) in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782224 source resolves through the actual participant chain 6782224 --input--> 6782219 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782227 | ACCEPT | Summary: The ERCC3 participant in Ligation of newly synthesized repair patch to incised DNA in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782227 source resolves through the actual participant chain 6782227 --input--> 6782220 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6782234 | ACCEPT | Summary: The ERCC3 participant in Recovery of RNA synthesis after TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-6782234 source resolves through the actual participant chain 6782234 --output--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6790454 | ACCEPT | Summary: The ERCC3 participant in SUMOylation of XPC is nucleoplasmic. Reason: The official Reactome:R-HSA-6790454 source resolves through the actual participant chain 6790454 --input--> 5691018 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6790487 | ACCEPT | Summary: The ERCC3 participant in RNF111 ubiquitinates SUMOylated XPC is nucleoplasmic. Reason: The official Reactome:R-HSA-6790487 source resolves through the actual participant chain 6790487 --input--> 6790468 --hasComponent--> 5689624 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6797606 | ACCEPT | Summary: The ERCC3 participant in CDK12 phosphorylates RNA Pol II CTD at DNA repair genes is nucleoplasmic. Reason: The official Reactome:R-HSA-6797606 source resolves through the actual participant chain 6797606 --input--> 6797614 --hasComponent--> 6797611 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6797616 | ACCEPT | Summary: The ERCC3 participant in CCNK:CDK12 binds RNA Pol II at DNA repair genes is nucleoplasmic. Reason: The official Reactome:R-HSA-6797616 source resolves through the actual participant chain 6797616 --input--> 6797611 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-73758 | ACCEPT | Summary: The ERCC3 participant in Recruitment of RNA Polymerase I:RRN3 to the 45S pre-rRNA gene is nucleoplasmic. Reason: The official Reactome:R-HSA-73758 source resolves through the actual participant chain 73758 --input--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-73769 | ACCEPT | Summary: The ERCC3 participant in Loss of RRN3 from RNA Polymerase I promoter escape complex is nucleoplasmic. Reason: The official Reactome:R-HSA-73769 source resolves through the actual participant chain 73769 --input--> 73716 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-73946 | ACCEPT | Summary: The ERCC3 participant in Abortive initiation after formation of the first phosphodiester bond is nucleoplasmic. Reason: The official Reactome:R-HSA-73946 source resolves through the actual participant chain 73946 --output--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-74986 | ACCEPT | Summary: The ERCC3 participant in Elongation of pre-rRNA transcript is nucleoplasmic. Reason: The official Reactome:R-HSA-74986 source resolves through the actual participant chain 74986 --input--> 73717 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-74992 | ACCEPT | Summary: The ERCC3 participant in Dissociation of PTRF:RNA Polymerase I:pre-rRNA complex is nucleoplasmic. Reason: The official Reactome:R-HSA-74992 source resolves through the actual participant chain 74992 --output--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-74993 | ACCEPT | Summary: The ERCC3 participant in PTRF binds the paused RNA Polymerase I complex is nucleoplasmic. Reason: The official Reactome:R-HSA-74993 source resolves through the actual participant chain 74993 --input--> 74979 --hasComponent--> 73717 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-74994 | ACCEPT | Summary: The ERCC3 participant in Elongating RNA Polymerase I Transcription Complex pauses at the TTF1:Sal Box is nucleoplasmic. Reason: The official Reactome:R-HSA-74994 source resolves through the actual participant chain 74994 --input--> 9988366 --hasComponent--> 73717 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75850 | ACCEPT | Summary: The ERCC3 participant in Addition of the third nucleotide on the nascent transcript is nucleoplasmic. Reason: The official Reactome:R-HSA-75850 source resolves through the actual participant chain 75850 --input--> 109878 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75856 | ACCEPT | Summary: The ERCC3 participant in Abortive Initiation Before Second Transition is nucleoplasmic. Reason: The official Reactome:R-HSA-75856 source resolves through the actual participant chain 75856 --output--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75861 | ACCEPT | Summary: The ERCC3 participant in NTP Binds Active Site of RNA Polymerase II is nucleoplasmic. Reason: The official Reactome:R-HSA-75861 source resolves through the actual participant chain 75861 --input--> 109876 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75862 | ACCEPT | Summary: The ERCC3 participant in Fall Back to Closed Pre-initiation Complex is nucleoplasmic. Reason: The official Reactome:R-HSA-75862 source resolves through the actual participant chain 75862 --input--> 109876 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75864 | ACCEPT | Summary: The ERCC3 participant in Newly Formed Phosphodiester Bond Stabilized and PPi Released is nucleoplasmic. Reason: The official Reactome:R-HSA-75864 source resolves through the actual participant chain 75864 --input--> 83601 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75866 | ACCEPT | Summary: The ERCC3 participant in Nucleophillic Attack by 3'-hydroxyl Oxygen of nascent transcript on the Alpha Phosphate of NTP is nucleoplasmic. Reason: The official Reactome:R-HSA-75866 source resolves through the actual participant chain 75866 --output--> 83601 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75869 | ACCEPT | Summary: The ERCC3 participant in Addition of the fourth nucleotide on the Nascent Transcript: Second Transition is nucleoplasmic. Reason: The official Reactome:R-HSA-75869 source resolves through the actual participant chain 75869 --input--> 75878 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75873 | ACCEPT | Summary: The ERCC3 participant in Addition of Nucleotides 5 through 9 on the growing Transcript is nucleoplasmic. Reason: The official Reactome:R-HSA-75873 source resolves through the actual participant chain 75873 --input--> 75881 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75891 | ACCEPT | Summary: The ERCC3 participant in Abortive Initiation After Second Transition is nucleoplasmic. Reason: The official Reactome:R-HSA-75891 source resolves through the actual participant chain 75891 --output--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-75949 | ACCEPT | Summary: The ERCC3 participant in RNA Polymerase II Promoter Opening: First Transition is nucleoplasmic. Reason: The official Reactome:R-HSA-75949 source resolves through the actual participant chain 75949 --catalystActivity--> 109879 --activeUnit--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-76576 | ACCEPT | Summary: The ERCC3 participant in Addition of nucleotides 10 and 11 on the growing transcript: Third Transition is nucleoplasmic. Reason: The official Reactome:R-HSA-76576 source resolves through the actual participant chain 76576 --input--> 75882 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77068 | ACCEPT | Summary: The ERCC3 participant in Activation of GT is nucleoplasmic. Reason: The official Reactome:R-HSA-77068 source resolves through the actual participant chain 77068 --input--> 77053 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77069 | ACCEPT | Summary: The ERCC3 participant in RNA Polymerase II CTD (phosphorylated) binds to CE is nucleoplasmic. Reason: The official Reactome:R-HSA-77069 source resolves through the actual participant chain 77069 --input--> 157174 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77071 | ACCEPT | Summary: The ERCC3 participant in Phosphorylation (Ser5) of RNA pol II CTD is nucleoplasmic. Reason: The official Reactome:R-HSA-77071 source resolves through the actual participant chain 77071 --input--> 157171 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77073 | ACCEPT | Summary: The ERCC3 participant in SPT5 subunit of Pol II binds the RNA triphosphatase (RTP) is nucleoplasmic. Reason: The official Reactome:R-HSA-77073 source resolves through the actual participant chain 77073 --input--> 77056 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77077 | ACCEPT | Summary: The ERCC3 participant in Capping complex formation is nucleoplasmic. Reason: The official Reactome:R-HSA-77077 source resolves through the actual participant chain 77077 --input--> 77061 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77078 | ACCEPT | Summary: The ERCC3 participant in Hydrolysis of the 5'-end of the nascent transcript by the capping enzyme is nucleoplasmic. Reason: The official Reactome:R-HSA-77078 source resolves through the actual participant chain 77078 --input--> 77063 --hasComponent--> 77061 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77081 | ACCEPT | Summary: The ERCC3 participant in Formation of the CE:GMP intermediate complex is nucleoplasmic. Reason: The official Reactome:R-HSA-77081 source resolves through the actual participant chain 77081 --input--> 77064 --hasComponent--> 77061 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77083 | ACCEPT | Summary: The ERCC3 participant in Transfer of GMP from the capping enzyme GT site to 5'-end of mRNA is nucleoplasmic. Reason: The official Reactome:R-HSA-77083 source resolves through the actual participant chain 77083 --output--> 77066 --hasComponent--> 77061 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77085 | ACCEPT | Summary: The ERCC3 participant in Dissociation of transcript with 5'-GMP from GT is nucleoplasmic. Reason: The official Reactome:R-HSA-77085 source resolves through the actual participant chain 77085 --input--> 77066 --hasComponent--> 77061 --hasComponent--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-77090 | ACCEPT | Summary: The ERCC3 participant in Methylation of GMP-cap by RNA Methyltransferase is nucleoplasmic. Reason: The official Reactome:R-HSA-77090 source resolves through the actual participant chain 77090 --output--> 109634 --hasComponent--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9613494 | ACCEPT | Summary: The ERCC3 participant in Unwinding of DNA for the Nascent Transcript: Second Transition is nucleoplasmic. Reason: The official Reactome:R-HSA-9613494 source resolves through the actual participant chain 9613494 --catalystActivity--> 109879 --activeUnit--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9613497 | ACCEPT | Summary: The ERCC3 participant in Unwinding DNA for the nascent transcript is nucleoplasmic. Reason: The official Reactome:R-HSA-9613497 source resolves through the actual participant chain 9613497 --catalystActivity--> 109879 --activeUnit--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9684118 | ACCEPT | Summary: The ERCC3 participant in ERCC3-facilitated RNA Pol II backtracking in TC-NER is nucleoplasmic. Reason: The official Reactome:R-HSA-9684118 source resolves through the actual participant chain 9684118 --catalystActivity--> 9684122 --activeUnit--> 67439 to R-HSA-67439, human UniProt P19447 residues1–782, whose own compartment is GO:0005654. The independent HPA target ICC/IF records corroborate nucleoplasm. This location assertion does not make ERCC3 the enzyme for every reaction represented by the larger complex. |
| GO:0005669 transcription factor TFIID complex | IDA PMID:27193682 Near-atomic resolution visualization of human transcription ... | MODIFY | Summary: The assayed XPB-containing complex is TFIIH, not TFIID. Reason: The actual PMID:27193682 Methods use human HeLa TFIIH and Pol II with recombinant initiation factors; TBP substitutes for TFIID. Its Results and Figures 3 and 5 place XPB within TFIIH on downstream DNA. Replace the complex assignment with the already established TFIIH core term; this judgment comes from the experimental setup, not from the article title. Proposed replacements: transcription factor TFIIH core complex |
| GO:0005675 transcription factor TFIIH holo complex | IBA GO_REF:0000033 | ACCEPT | Summary: ERCC3 is a conserved subunit of the TFIIH holo complex. Reason: The current eukaryotic IBD includes experimental evidence from human P19447 as well as fly and yeast; self-WITH is legitimate descendant evidence. Human TFIIH used in promoter PIC reconstructions contains XPB, with the mobile kinase module distinguished from the core (PMID:27193682, Results 22–23 and Methods 50–51). The source therefore supports holo-complex membership without assigning its kinase activity to XPB. Propagation Review Root cause: NO FAILURE CORE Sources checked: PANTHER:PTN000138598 SUPPORTS TRANSFER Actual PTHR11274 v19 tree places human P19447 leaf PTN002477849 below PTN000138598 (Eukaryota); current IBD line 7708 supports GO:0005675. No intervening NOT record was found; target MSA sequence matches canonical 782 aa. Human source evidence and conserved TFIIH architecture support inheritance; donor count is not used as a strength score. |
| GO:0005675 transcription factor TFIIH holo complex | IDA PMID:9852112 Immunoaffinity purification and functional characterization ... | ACCEPT | Summary: XPB is an established constituent of human holo-TFIIH. Reason: The complete operative original of PMID:9852112 was not recovered. Independent purification and controlled immunoprecipitation in PMID:8692842, Figures 1–2, establish XPB in human holo-TFIIH containing core and CAK components. Accept the clearly established complex membership without implying that this independently verifies every assay or structural detail of the inaccessible original. |
| GO:0005675 transcription factor TFIIH holo complex | IPI PMID:15220921 A new, tenth subunit of TFIIH is responsible for the DNA rep... | ACCEPT | Summary: XPB is an established constituent of human holo-TFIIH. Reason: The complete operative original of PMID:15220921 was not recovered. Independent purification and controlled immunoprecipitation in PMID:8692842, Figures 1–2, establish XPB in human holo-TFIIH containing core and CAK components. Accept the clearly established complex membership without implying that this independently verifies every assay or structural detail of the inaccessible original. |
| GO:0005675 transcription factor TFIIH holo complex | TAS PMID:7663514 p53 modulation of TFIIH-associated nucleotide excision repai... | ACCEPT | Summary: XPB is an established constituent of human holo-TFIIH. Reason: The complete operative original of PMID:7663514 was not recovered. Independent purification and controlled immunoprecipitation in PMID:8692842, Figures 1–2, establish XPB in human holo-TFIIH containing core and CAK components. Accept the clearly established complex membership without implying that this independently verifies every assay or structural detail of the inaccessible original. |
| GO:0006265 DNA topological change | IMP PMID:8663148 A 3' --> 5' XPB helicase defect in repair/transcription fact... | MARK AS OVER ANNOTATED | Summary: DNA opening in this source does not establish DNA linking-number change. Reason: Current GO:0006265 specifically describes a change in DNA linking number. PMID:8663148, Figures 2–4 and Table I, measures XPB-dependent strand unwinding, ATPase, transcription and repair complementation; it does not assay strand passage, break/resealing or another linking-number-changing step by XPB. Independent structures support local duplex translocation/opening, which can redistribute twist and writhe without establishing the process defined here. Mark this interpretation as overextended while retaining the measured motor and repair functions. |
| GO:0006281 DNA repair | IMP PMID:2167179 A presumed DNA helicase encoded by ERCC-3 is involved in the... | MODIFY | Summary: The broad repair annotation is specifically supported for nucleotide-excision repair. Reason: PMID:2167179, Results Figure 4 and Experimental Procedures, shows human ERCC3 cDNA correction of UV-induced repair synthesis in XPB patient cells, separately from rodent complementation. Later human XPB motor-mutant and reconstitution experiments identify its direct contribution to nucleotide-excision repair opening (PMID:17466626; PMID:41673165). Refine the general process to the demonstrated repair pathway, without inferring lesion-selective binding from the complementation result. Proposed replacements: nucleotide-excision repair |
| GO:0006283 transcription-coupled nucleotide-excision repair | IDA PMID:8663148 A 3' --> 5' XPB helicase defect in repair/transcription fact... | ACCEPT | Summary: XPB contributes its repair motor to transcription-coupled nucleotide-excision repair. Reason: PMID:8663148 directly establishes XPB repair/transcription defects and complementation, but does not separately assay transcription-coupled repair. Current curated human Reactome TC-NER models explicitly include ERCC3, and independent human motor experiments establish the nucleotide-excision repair DNA-opening role (PMID:17466626; PMID:41673165). Accept this established pathway participation while distinguishing it from direct validation of the original TC-NER assay or every proposed backtracking mechanism. |
| GO:0006283 transcription-coupled nucleotide-excision repair | TAS Reactome:R-HSA-6781827 | ACCEPT | Summary: ERCC3 contributes the TFIIH motor step to transcription-coupled nucleotide-excision repair. Reason: Reactome 6781827 contains the TC-NER pre-incision pathway and the explicit ERCC3 motor event9684118; catalyst 9684122 identifies P19447 entity 67439 as active unit. The modeled participant is therefore involved as motor machinery, not merely a substrate. Human XPB ATPase-dependent DNA opening and repair are independently established in PMID:17466626 Figures 1/3–5. The bacterial-UvrD analogy in the Reactome backtracking discussion is not treated as an isolated human backtracking assay. |
| GO:0006289 nucleotide-excision repair | IEA GO_REF:0000002 | ACCEPT | Summary: The XPB family mapping correctly captures nucleotide-excision repair participation. Reason: The actual P19447 IPR001161 match supports this process annotation. Human recombinant XPB/TFIIH ATPase perturbations alter DNA opening and reconstituted dual incision (PMID:17466626 Figures 1/3–5); human repair-complex structures and differential XPB/XPD mutants further distinguish the XPB motor contribution (PMID:41673165). ERCC3 performs an ATP-driven repair step; it is not itself assigned the XPG or XPF incision reaction. |
| GO:0006289 nucleotide-excision repair | IMP PMID:17466626 Distinct roles for the XPB/p52 and XPD/p44 subcomplexes of T... | ACCEPT | Summary: Human XPB ATPase-dependent DNA opening supports nucleotide-excision repair. Reason: PMID:17466626, Figures 3 and 5, separates XPB ATPase, weak helicase capacity and repair opening/incision using human proteins and TFIIH. ATPase-defective K346R fails repair, whereas two mutants with reduced measured helicase capacity retain repair. This identifies XPB as the motor contributor to the opening step rather than an incision enzyme. |
| GO:0006289 nucleotide-excision repair | IMP PMID:17509950 Influence of XPB helicase on recruitment and redistribution ... | ACCEPT | Summary: XPB directly contributes to nucleotide-excision repair. Reason: The complete PMID:17509950 original was unavailable; its abstract reports XPB-mutant patient-cell repair-factor recruitment and retention. Independent actual human motor-mutant/reconstitution experiments in PMID:17466626, Figures 3 and 5, and PMID:8663148 establish XPB repair function. Accept the same established pathway claim without pretending the inaccessible imaging assays were inspected. |
| GO:0006289 nucleotide-excision repair | IMP PMID:8692841 Isolation and characterization of two human transcription fa... | ACCEPT | Summary: The human XPB-containing TFIIH core supports nucleotide-excision repair. Reason: PMID:8692841, Figure 5, tests human TFIIH fractions in a damaged-DNA incision system with repair-deficient hamster extracts. XPB-containing TFIIH restores the missing activity; later human XPB mutant experiments directly identify its opening motor role. The species of the extract is distinguished from that of the supplied protein complex, and incision chemistry is not assigned to XPB. |
| GO:0006289 nucleotide-excision repair | NAS PMID:22572993 TFIIH: when transcription met DNA repair. | ACCEPT | Summary: Nucleotide-excision repair is an established XPB function. Reason: PMID:22572993 is a review and its full text was not recovered. Independent original human XPB experiments in PMID:17466626 and PMID:8663148 directly support its repair motor function. Retain the established process without treating the secondary source as a newly inspected experiment. |
| GO:0006366 transcription by RNA polymerase II | IDA PMID:9852112 Immunoaffinity purification and functional characterization ... | MODIFY | Summary: The broad Pol II transcription annotation can be refined to initiation. Reason: The complete PMID:9852112 original was unavailable; independent human reconstitution in PMID:8692841, Figure 4, and initiation structures in PMID:27193682 identify the XPB-containing TFIIH role in promoter opening/initiation. Refine to this supported phase without assigning RNA synthesis, promoter clearance or all elongation steps to XPB. This does not assert identical XPB dependence at every promoter. Proposed replacements: transcription initiation at RNA polymerase II promoter |
| GO:0006366 transcription by RNA polymerase II | IMP PMID:8663148 A 3' --> 5' XPB helicase defect in repair/transcription fact... | MODIFY | Summary: The broad Pol II transcription annotation can be refined to initiation. Reason: The actual PMID:8663148 Figure 3 transcription assay and independent human reconstitution in PMID:8692841, Figure 4, and initiation structures in PMID:27193682 identify the XPB-containing TFIIH role in promoter opening/initiation. Refine to this supported phase without assigning RNA synthesis, promoter clearance or all elongation steps to XPB. This does not assert identical XPB dependence at every promoter. Proposed replacements: transcription initiation at RNA polymerase II promoter |
| GO:0006366 transcription by RNA polymerase II | TAS Reactome:R-HSA-73857 | MODIFY | Summary: Refine the broad Pol II transcription pathway to the demonstrated initiation and promoter-clearance phases. Reason: The actual Reactome:R-HSA-73857 hierarchy includes promoter opening and escape, with ERCC3 entity 67439 explicitly identified as the active unit of TFIIH catalyst 109879. Human PIC structures and reconstituted transcription experiments support XPB participation (PMID:27193682, Figures 3 and 5 and Methods; PMID:17466626, Figures 1B and 5D). GO:0006367 captures initiation, while GO:0001111 captures the separate promoter-clearance transition also represented by the source-specific row 138. These terms are not ancestor and descendant. Refinement preserves the source hierarchy’s two supported phases without assigning RNA polymerization or every elongation step to XPB. Proposed replacements: transcription initiation at RNA polymerase II promoter RNA polymerase II promoter clearance |
| GO:0006367 transcription initiation at RNA polymerase II promoter | IBA GO_REF:0000033 | ACCEPT | Summary: The ancestral Pol II initiation assertion is supported by conserved TFIIH motor function. Reason: Human P19447 descends from the actual PTN000138598 IBD bearing this assertion. The human-source contribution is legitimate evidence, not circular propagation. Human PIC reconstructions establish downstream duplex engagement by XPB, while reconstituted transcription distinguishes XPB ATPase-dependent function (PMID:27193682 Figures 3/5; PMID:17466626 Figures 1B/5D). The yeast PIC donor original also places Ssl2 in the promoter assembly (PMID:22751016 Methods 97/102). Propagation Review Root cause: NO FAILURE CORE Sources checked: PANTHER:PTN000138598 SUPPORTS TRANSFER Actual PTHR11274 v19 tree places human P19447 leaf PTN002477849 below PTN000138598 (Eukaryota); current IBD line 32881 supports GO:0006367. No intervening NOT record was found; target MSA sequence matches canonical 782 aa. The target is inside the asserted clade and the human initiation role is independently supported. |
| GO:0006367 transcription initiation at RNA polymerase II promoter | IDA PMID:8692841 Isolation and characterization of two human transcription fa... | ACCEPT | Summary: Human XPB-containing TFIIH supports Pol II transcription initiation. Reason: PMID:8692841, Figure 4 and reconstitution Methods, tests human TFIIH fractions in a defined Pol II transcription system. Independent human PIC structures locate XPB at downstream promoter DNA (PMID:27193682). The evidence supports initiation, while CAK kinase and RNA polymerization remain activities of other components. |
| GO:0006367 transcription initiation at RNA polymerase II promoter | IEA GO_REF:0000002 | ACCEPT | Summary: The target XPB family match supports Pol II transcription initiation. Reason: IPR001161 maps initiation to an actual P19447 sequence match. Human PIC structures place XPB at the downstream promoter DNA, using HeLa-derived TFIIH and Pol II with recombinant general factors (PMID:27193682 Results 7/22–23/34–42, Methods 50–51). These are structures on defined scaffolds; the inferred displacement between static states is not presented as real-time motor stepping. |
| GO:0006367 transcription initiation at RNA polymerase II promoter | NAS PMID:22572993 TFIIH: when transcription met DNA repair. | ACCEPT | Summary: Pol II transcription initiation is an established XPB-associated process. Reason: PMID:22572993 is a secondary review whose complete text was unavailable. Actual human transcription reconstitution in PMID:8692841, Figure 4, and the XPB-containing initiation assemblies of PMID:27193682 independently support this process. Retain the claim without inferring universal promoter dependence or treating the review as a direct assay. |
| GO:0006368 transcription elongation by RNA polymerase II | TAS Reactome:R-HSA-73776 | MODIFY | Summary: Refine the Reactome promoter-escape context to RNA polymerase II promoter clearance. Reason: Reactome 73776 describes the transition after initial phosphodiester-bond formation, including ERCC3-dependent early-transcript DNA transitions through catalyst 109879/activeUnit 67439. Current GO:0006368 denotes extension after promoter clearance; GO:0006367 and its initiation parent explicitly treat clearance as a separate step. GO:0001111 therefore matches this source-specific transition more accurately. This refinement does not assert that XPB catalyses nucleotide addition or exclude other transcriptional roles. Proposed replacements: RNA polymerase II promoter clearance |
| GO:0006915 apoptotic process | IMP PMID:8675009 The XPB and XPD DNA helicases are components of the p53-medi... | KEEP AS NON CORE | Summary: XPB influences p53-induced apoptosis in the tested human fibroblasts. Reason: PMID:8675009, Results pp. 1221–1223 and Figure 4B, shows delayed/reduced p53-induced apoptosis in XPB patient fibroblasts and rescue by wild-type XPB coinjection, with preserved p21 induction and eventual apoptosis in mutant cells. Retain the contextual process contribution, not an apoptosis-executioner activity or an absolute requirement across cell types. |
| GO:0006979 response to oxidative stress | IMP PMID:17614221 Genetic susceptibility of newborn daughters to oxidative str... | UNDECIDED | Summary: The oxidative-stress response claim remains source-specific and unresolved. Reason: The complete experimental original of PMID:17614221 was not recovered. Its abstract describes hydrogen-peroxide responses and genetic context in human cells, but does not provide enough operative XPB-specific perturbation and control detail to adjudicate this annotation. General repair chemistry or disease association is not a substitute for the missing source-specific stress-response evidence. |
| GO:0008104 intracellular protein localization | IMP PMID:17509950 Influence of XPB helicase on recruitment and redistribution ... | UNDECIDED | Summary: The precise intracellular protein-localization role requires the original recruitment experiments. Reason: PMID:17509950 has a positive abstract describing altered repair-factor recruitment and retention in XPB-mutant cells, but the complete operative original was unavailable. GO:0008104 includes transport or maintenance at a specific location, so a motor-mediated recruitment/stabilization contribution is not excluded in principle. The identities, controls and causal scope needed to distinguish XPB localization from its role in localizing other proteins remain unresolved. |
| GO:0009411 response to UV | IMP PMID:17509950 Influence of XPB helicase on recruitment and redistribution ... | KEEP AS NON CORE | Summary: XPB contributes to the cellular response to UV through nucleotide-excision repair. Reason: The complete PMID:17509950 original was unavailable, so its precise recruitment kinetics were not verified. Independent actual PMID:2167179 human patient-cell repair complementation and PMID:17466626 Figure 5F human-XPB rescue in UV-damaged reporter assays support the UV response through repair. Retain this broader response as non-core beside the more informative repair motor and pathway annotations, preserving species/construct distinctions. |
| GO:0016787 hydrolase activity | IEA GO_REF:0000002 | MODIFY | Summary: Refine broad hydrolase activity to directly measured ATP hydrolysis. Reason: The IPR006935 mapping correctly identifies hydrolytic chemistry but is unnecessarily broad for this target. Recombinant human XPB assays measure phosphate release from ATP, with p52-dependent stimulation and Walker-A mutant controls (PMID:17466626 Figures 3–5 and ATPase Methods 254). GO:0016887 retains this measured chemistry separately from the coupled DNA-translocation function. Proposed replacements: ATP hydrolysis activity |
| GO:0016887 ATP hydrolysis activity | EXP PMID:8663148 A 3' --> 5' XPB helicase defect in repair/transcription fact... | ACCEPT | Summary: Recombinant human XPB directly hydrolyzes ATP. Reason: PMID:8663148, Figure 4 and protein-assay Methods, separately measures DNA-dependent ATP hydrolysis and unwinding with E. coli-expressed GST-XPB. This is not inferred solely from the total TFIIH ATPase measurements in Figure 2. Preserve the independently measured hydrolysis chemistry alongside motor activity; patient C-terminal mutant and recombinant-folding limitations do not erase the wild-type reaction. |
| GO:0016887 ATP hydrolysis activity | IDA PMID:17466626 Distinct roles for the XPB/p52 and XPD/p44 subcomplexes of T... | ACCEPT | Summary: Human XPB ATP hydrolysis is directly assayed and separable from unwinding. Reason: PMID:17466626, Figures 3 and 5, measures ATPase with recombinant human XPB/TFIIH preparations and tests p52 stimulation and motor mutants. T469A/Q638A retain ATPase despite reduced helicase capacity, whereas K346R loses ATPase-dependent function. Retain the specific hydrolysis MF rather than replacing separately measured chemistry with a translocase label. |
| GO:0016887 ATP hydrolysis activity | IEA GO_REF:0000120 | ACCEPT | Summary: ATP hydrolysis is directly established for human XPB. Reason: The combined electronic row includes mouse ortholog evidence and RHEA13065, which denotes ATP plus water yielding ADP and phosphate. The cited mouse source PMID:23562818 contains human HeLa inhibitor/XPB-ChIP experiments as well as mouse ES studies; it is not a purified mouse ATPase assay. The exact human catalytic claim is independently resolved by recombinant XPB phosphate-release assays (PMID:17466626 Figures 3–5 and Methods 254) and differential human Core7 ATPase mutants (PMID:41673165 Figure 5). ATP hydrolysis is retained as its own measured activity. |
| GO:0035315 hair cell differentiation | IBA GO_REF:0000033 | UNDECIDED | Summary: The hair-cell IBA has verified ancestry, but the differentiation claim remains unresolved. Reason: P19447 is correctly below the Theria IBD PTN000138606, and its own experimental annotation is a legitimate descendant source. The tree and MSA therefore do not undermine propagation. PMID:11335038 is a review whose verified abstract discusses human XPB/XPD-associated hair dysplasia and proposes tissue/time-dependent transcription impairment; the full original review was not recovered. Current GO:0035315 is not restricted to inner-ear sensory cells. The unresolved issue is differentiation versus hair-shaft synthesis or mature-cell function, not a label-based lineage mismatch, wrong gene, or self-WITH objection. Propagation Review Root cause: UNRESOLVED Sources checked: PANTHER:PTN000138606 UNRESOLVED Actual PTHR11274 v19 tree places human P19447 leaf PTN002477849 below PTN000138606 (Theria); current IBD line 38940 supports GO:0035315. No intervening NOT record was found; target MSA sequence matches canonical 782 aa. Tree placement is verified; the inaccessible review and positive abstract do not settle differentiation versus hair-shaft or mature-cell effects. |
| GO:0035315 hair cell differentiation | IMP PMID:11335038 Trichothiodystrophy, a transcription syndrome. | UNDECIDED | Summary: The source does not yet resolve the specific hair-cell differentiation assertion. Reason: The complete PMID:11335038 review was not recovered. Current GO:0035315 is a general hair-cell differentiation term with both epidermal and neuronal differentiation ancestry; it cannot simply be interpreted as inner-ear sensory-cell differentiation. The accessible source does not establish the relevant experimental species, cell lineage or XPB-dependent differentiation step, so retain uncertainty without a title-based or anatomical exclusion. |
| GO:0043065 positive regulation of apoptotic process | IDA PMID:16914395 The role of XPB in cell apoptosis and viability and its rela... | KEEP AS NON CORE | Summary: XPB can positively modulate apoptosis in particular cellular contexts. Reason: The complete PMID:16914395 HepG2 overexpression study was unavailable; its abstract reports apoptosis-related outcomes but does not resolve all controls. Independently, PMID:8675009, Figure 4B, shows restoration of p53-induced apoptosis by wild-type XPB in deficient human fibroblasts. This supports a contextual positive regulatory contribution, not universal apoptosis induction or XPB executioner activity, and does not independently verify the HepG2 assay. |
| GO:0043138 3'-5' DNA helicase activity | IBA GO_REF:0000033 | KEEP AS NON CORE | Summary: Retain the directly measured 3′–5′ helicase capacity as a secondary activity. Reason: The eukaryotic IBD at PTN000138598 validly inherits human-supported XPB 3′–5′ unwinding capacity. Human recombinant XPB immunopurified from Sf9 cells releases the directional M13 probe in PMID:17466626 Figure 5B; its helicase-impaired mutants retain ATPase and NER function (Figures 5C/E/F). Thus the capacity is supported while the central duplex-translocase role is represented separately. Current GO:0043138 has a label/definition polarity inconsistency confirmed in QuickGO and OLS; imported ID/label are preserved and direction is taken from the experiment, not the conflicting definition. Propagation Review Root cause: NO FAILURE NON CORE Sources checked: PANTHER:PTN000138598 SUPPORTS TRANSFER Actual PTHR11274 v19 tree places human P19447 leaf PTN002477849 below PTN000138598 (Eukaryota); current IBD line 5254 supports GO:0043138. No intervening NOT record was found; target MSA sequence matches canonical 782 aa. The target itself supplies valid experimental descendant evidence; measured capacity is retained as secondary. |
| GO:0043138 3'-5' DNA helicase activity | IDA PMID:17466626 Distinct roles for the XPB/p52 and XPD/p44 subcomplexes of T... | KEEP AS NON CORE | Summary: Human XPB has experimentally measured 3′–5′ unwinding capacity. Reason: PMID:17466626, Figure 5B and helicase Methods, directly tests a bidirectional M13 substrate with recombinant human XPB. Figures 5C/E separate reduced helicase capacity from retained ATPase-dependent repair, so this capacity is retained as non-core beside the principal DNA-translocation mechanism. The imported GO:0043138 identifier is preserved despite the current ontology definition string contradicting its directional label; the assay, not that inconsistent string, supports the direction. |
| GO:0043138 3'-5' DNA helicase activity | IEA GO_REF:0000003 | KEEP AS NON CORE | Summary: Retain the directly measured 3′–5′ helicase capacity as a secondary activity. Reason: EC5.6.2.4 is the actual 3′–5′ DNA-helicase mapping used by this electronic row. Human recombinant XPB immunopurified from Sf9 cells releases the directional M13 probe in PMID:17466626 Figure 5B; its helicase-impaired mutants retain ATPase and NER function (Figures 5C/E/F). Thus the capacity is supported while the central duplex-translocase role is represented separately. Current GO:0043138 has a label/definition polarity inconsistency confirmed in QuickGO and OLS; imported ID/label are preserved and direction is taken from the experiment, not the conflicting definition. |
| GO:0043138 3'-5' DNA helicase activity | IMP PMID:8663148 A 3' --> 5' XPB helicase defect in repair/transcription fact... | KEEP AS NON CORE | Summary: The source directly measures XPB-associated 3′–5′ DNA unwinding. Reason: PMID:8663148, Figures 2 and 4, measures directional unwinding in human patient/control TFIIH and recombinant human GST-XPB. The patient comparator is heterozygous maternal material and recombinant folding is a stated limitation. Independent human assays in PMID:17466626 confirm the capacity while separating it from the principal repair-opening motor requirement. Retain this measured capacity as non-core rather than declare the historical helicase experiment invalid. |
| GO:0043138 3'-5' DNA helicase activity | TAS Reactome:R-HSA-75949 | KEEP AS NON CORE | Summary: Retain the directly measured 3′–5′ helicase capacity as a secondary activity. Reason: Reactome:R-HSA-75949 uses catalyst 109879, whose explicit activeUnit is ERCC3 entity 67439/P19447 rather than XPD. Human recombinant XPB immunopurified from Sf9 cells releases the directional M13 probe in PMID:17466626 Figure 5B; its helicase-impaired mutants retain ATPase and NER function (Figures 5C/E/F). Thus the capacity is supported while the central duplex-translocase role is represented separately. Current GO:0043138 has a label/definition polarity inconsistency confirmed in QuickGO and OLS; imported ID/label are preserved and direction is taken from the experiment, not the conflicting definition. The Reactome promoter-transition model does not independently demonstrate that conventional strand-unwinding is the dominant motor mechanism in that transition. |
| GO:0043138 3'-5' DNA helicase activity | TAS Reactome:R-HSA-9613494 | KEEP AS NON CORE | Summary: Retain the directly measured 3′–5′ helicase capacity as a secondary activity. Reason: Reactome:R-HSA-9613494 uses catalyst 109879, whose explicit activeUnit is ERCC3 entity 67439/P19447 rather than XPD. Human recombinant XPB immunopurified from Sf9 cells releases the directional M13 probe in PMID:17466626 Figure 5B; its helicase-impaired mutants retain ATPase and NER function (Figures 5C/E/F). Thus the capacity is supported while the central duplex-translocase role is represented separately. Current GO:0043138 has a label/definition polarity inconsistency confirmed in QuickGO and OLS; imported ID/label are preserved and direction is taken from the experiment, not the conflicting definition. The Reactome promoter-transition model does not independently demonstrate that conventional strand-unwinding is the dominant motor mechanism in that transition. |
| GO:0043138 3'-5' DNA helicase activity | TAS Reactome:R-HSA-9613497 | KEEP AS NON CORE | Summary: Retain the directly measured 3′–5′ helicase capacity as a secondary activity. Reason: Reactome:R-HSA-9613497 uses catalyst 109879, whose explicit activeUnit is ERCC3 entity 67439/P19447 rather than XPD. Human recombinant XPB immunopurified from Sf9 cells releases the directional M13 probe in PMID:17466626 Figure 5B; its helicase-impaired mutants retain ATPase and NER function (Figures 5C/E/F). Thus the capacity is supported while the central duplex-translocase role is represented separately. Current GO:0043138 has a label/definition polarity inconsistency confirmed in QuickGO and OLS; imported ID/label are preserved and direction is taken from the experiment, not the conflicting definition. The Reactome promoter-transition model does not independently demonstrate that conventional strand-unwinding is the dominant motor mechanism in that transition. |
| GO:0043138 3'-5' DNA helicase activity | TAS Reactome:R-HSA-9684118 | KEEP AS NON CORE | Summary: Retain the directly measured 3′–5′ helicase capacity as a secondary activity. Reason: Reactome:R-HSA-9684118 uses catalyst 9684122, whose explicit activeUnit is ERCC3 entity 67439/P19447 rather than XPD. Human recombinant XPB immunopurified from Sf9 cells releases the directional M13 probe in PMID:17466626 Figure 5B; its helicase-impaired mutants retain ATPase and NER function (Figures 5C/E/F). Thus the capacity is supported while the central duplex-translocase role is represented separately. Current GO:0043138 has a label/definition polarity inconsistency confirmed in QuickGO and OLS; imported ID/label are preserved and direction is taken from the experiment, not the conflicting definition. The source discussion analogizes bacterial UvrD backtracking; this is not treated as a directly measured human XPB backtracking reaction. |
| GO:0048568 embryonic organ development | IBA GO_REF:0000033 | MARK AS OVER ANNOTATED | Summary: Developmental expression does not establish the propagated organ-development role. Reason: The tree is correct: human P19447 and rat Ercc3 lie below Eutheria PTN000138607. Its current donor RGD1307139/Q4G005 carries IEP evidence from PMID:11425516. The actual article reprint, Methods 62–68 and Results 69–76/Figures 2.2–2.6, measures NER transcript/protein levels in rat embryos/yolk sacs during GD10–12 and after teratogen exposure. These observations establish developmental expression, but identify no XPB-specific organ-building or regulatory step. The concern is source evidential scope, not orthology, donor count or an assertion that ERCC3 can never influence development. Propagation Review Root cause: SOURCE WEAK OR INFERRED Failure modes: SOURCE EVIDENCE WEAK Sources checked: PANTHER:PTN000138607 SOURCE WEAK OR INFERRED Actual PTHR11274 v19 tree places human P19447 leaf PTN002477849 below PTN000138607 (Eutheria); current IBD line 14360 supports GO:0048568. No intervening NOT record was found; target MSA sequence matches canonical 782 aa. Rat IEP original measures developmental expression rather than a demonstrated XPB organ-development contribution. |
| GO:0097550 transcription preinitiation complex | IBA GO_REF:0000033 | ACCEPT | Summary: The conserved XPB/Ssl2 subunit participates in the transcription preinitiation complex. Reason: The actual PTN000138598 IBD inherits the yeast Ssl2 PIC annotation. PMID:22751016 directly maps Ssl2 in promoter-bound yeast PICs using FeBABE/Bpa and crosslinking (Results 54–69, Methods 97/102). Human HeLa-derived TFIIH PIC structures independently contain XPB engaged with downstream DNA (PMID:27193682 Results 7/22–23 and Methods 50–51). This supports the conserved complex membership rather than transferring a detailed yeast translocation model as if measured in human. Propagation Review Root cause: NO FAILURE CORE Sources checked: PANTHER:PTN000138598 SUPPORTS TRANSFER Actual PTHR11274 v19 tree places human P19447 leaf PTN002477849 below PTN000138598 (Eukaryota); current IBD line 38328 supports GO:0097550. No intervening NOT record was found; target MSA sequence matches canonical 782 aa. Actual yeast PIC original and independent human PIC structure support the node assertion. |
| GO:1901990 regulation of mitotic cell cycle phase transition | IMP PMID:17088560 DNA nucleotide excision repair-dependent signaling to checkp... | KEEP AS NON CORE | Summary: XPB mutations alter UV-induced checkpoint signaling in a cell-state-dependent manner. Reason: PMID:17088560, Results and UV signaling experiments, includes two human XPB patient fibroblast lines. After UV exposure, Chk1/p53 phosphorylation is attenuated in nonproliferating TFIIH-mutant cells, with different behavior in proliferating S/G2 cells. Retain the contextual checkpoint-regulatory contribution without assigning kinase activity to XPB or claiming direct timing measurements of every mitotic transition. |
| GO:1990841 promoter-specific chromatin binding | IEA GO_REF:0000107 | ACCEPT | Summary: Promoter-associated chromatin binding is supported by the traced ortholog experiment. Reason: The mouse P49135/Ercc3 donor has IDA PMID:22323595. Actual mouse liver XPB ChIP at Igf1, GhR, Dio1 and PrlR promoters, with nonpromoter and inactive-gene controls, supports this term (Results/Figure 2B–C, including inspected pixels). The term requires association with promoter chromatin, not purified base-sequence recognition. Human XPB promoter-DNA engagement in TFIIH PIC structures independently corroborates the conserved role (PMID:27193682 Figures 3f/5, Methods 50–51). The mouse disease/developmental setting and crosslinked-complex nature of ChIP are retained. Propagation Review Root cause: NO FAILURE CORE Sources checked: UniProtKB:P49135 · Ercc3 SUPPORTS TRANSFER Mouse IDA22323595 directly measures XPB promoter occupancy; human PIC evidence corroborates transfer. ChIP does not establish isolated sequence-specific recognition. |
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Download this section (compressed HTML)Q: Which experiments directly distinguish damage-selective binding by human XPB from its general duplex-DNA contact within a lesion-recognition or repair complex?
Q: How do physiological TFIIH partners couple XPB ATP hydrolysis to duplex translocation, and under which conditions does the separately measured 3′–5′ unwinding capacity contribute materially?
Q: Which promoter features determine dependence on XPB motor activity, and how do complete acute loss, residual protein after depletion, catalytic inhibition and structural disruption differ?
Q: Which cell lineage and primary experiment underlie the hair-cell differentiation assertion from PMID:11335038, separately from hair-shaft synthesis or mature-cell function?
Q: Which original clone or historical accession mapping reconciles the imported ADAMTSL4 Q6UY14-3 interaction context with Q6UY14-1 in the available HuRI record?
Q: Which human XPB interfaces and original controls establish the p53 and XPG interactions, and do selective interface perturbations separate repair, transcription and contextual apoptosis responses?
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