ATM is a large phosphatidylinositol 3-kinase-related protein serine/threonine kinase that coordinates cellular responses to DNA double-strand breaks. Recruitment and activation linked to the MRE11-RAD50-NBN complex enable phosphorylation of checkpoint and repair proteins, including p53, H2AX and CHEK2, helping coordinate cell-cycle arrest, DNA repair and damage-induced cell fate decisions. ATM also regulates telomere maintenance and responds to oxidative and nitrosative stress. Its predominant nuclear activity is complemented by regulated extranuclear pools, including ATM associated with the cytosolic surface of peroxisomal membranes during ROS signaling.
| GO Term | Evidence | Action | Reason |
|---|---|---|---|
| GO:0000077 DNA damage checkpoint signaling | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported DNA damage checkpoint signaling. Reason: ATM directly transduces DNA damage through protein phosphorylation. PTN001673376 is the PAINT ancestral assertion; targetQ13315 in WITH/FROM is legitimate descendant evidence, not circularity. |
| GO:0000077 DNA damage checkpoint signaling | IDA PMID:30886146 UFL1 promotes histone H4 ufmylation and ATM activation. | ACCEPT | Summary: Retain supported DNA damage checkpoint signaling. Reason: The actual UFL1 study measures ATM/Chk2 activation, defective G2/M checkpoint and genetic epistasis in the DNA-damage response. ATM is an executing signaling kinase, not merely a downstream marker. Supporting Evidence: |
| GO:0000077 DNA damage checkpoint signaling | IEA GO_REF:0000117 | ACCEPT | Summary: Retain supported DNA damage checkpoint signaling. Reason: The ARBA checkpoint assertion agrees with ATM executing DNA-damage signaling through substrate phosphorylation. |
| GO:0000278 mitotic cell cycle | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported mitotic cell cycle. Reason: Checkpoint signaling is an executing component of mitotic cell-cycle control; the broad process does not assign ATM a spindle motor function. |
| GO:0000425 pexophagy | IDA PMID:26344566 ATM functions at the peroxisome to induce pexophagy in respo... | KEEP AS NON CORE | Summary: Retain pexophagy as a contextual function or association. Reason: Direct substrate-phosphorylation and localization-dependent mechanism supports ROS-induced pexophagy participation, rather than necessity alone. Retain as a experimentally established context of ATM stress signaling; it need not be a separate defining core. Supporting Evidence: |
| GO:0000723 telomere maintenance | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported telomere maintenance. Reason: Human ATM-dependent TRF1 regulation and telomerase recruitment support a conserved telomere-maintenance role. The phylogenetic assertion is compatible with target evidence. |
| GO:0000724 double-strand break repair via homologous recombination | IDA PMID:10802669 ATM-dependent phosphorylation of nibrin in response to radia... | ACCEPT | Summary: Retain supported double-strand break repair via homologous recombination. Reason: The cited nibrin work links ATM phosphorylation to DSB-response machinery; independent target MRE11 and RAD51 mechanisms corroborate actual participation in homologous recombination. The source-specific full repair assay was not replayed. |
| GO:0000724 double-strand break repair via homologous recombination | IEA GO_REF:0000117 | ACCEPT | Summary: Retain supported double-strand break repair via homologous recombination. Reason: ATM signaling and regulation of MRE11/resection and RAD51 pathways establish participation in homologous-recombination repair. |
| GO:0000729 DNA double-strand break processing | IDA PMID:10802669 ATM-dependent phosphorylation of nibrin in response to radia... | ACCEPT | Summary: Retain supported DNA double-strand break processing. Reason: ATM regulates DSB-end processing through MRN-associated phosphorylation. Retain the experimental annotation with independent MRE11 phosphosite/resection corroboration; ATM itself is not a nuclease. |
| GO:0000729 DNA double-strand break processing | IDA PMID:26240375 ATM-dependent phosphorylation of MRE11 controls extent of re... | ACCEPT | Summary: Retain supported DNA double-strand break processing. Reason: ATM phosphorylation of MRE11 prevents excessive end resection and supports appropriate DSB processing; mutant effects establish an executing regulatory step. Supporting Evidence: |
| GO:0000781 chromosome, telomeric region | IDA PMID:15149599 Telomere shortening triggers senescence of human cells throu... | ACCEPT | Summary: Retain supported chromosome, telomeric region. Reason: Telomeric damage signaling in the source is compatible with independently established human telomeric ATM. Retain the location without claiming a complete microscopy audit of the original paper. |
| GO:0002331 pre-B cell allelic exclusion | IEA GO_REF:0000107 | UNDECIDED | Summary: The source-specific pre-B cell allelic exclusion assertion remains unresolved. Reason: The precise pre-B-cell allelic-exclusion donor experiment and its human transfer were not inspected. The general immune phenotype of ATM deficiency is insufficient to resolve this specialized process. Supporting Evidence: GO_REF:0000107 |
| GO:0002331 pre-B cell allelic exclusion | ISS GO_REF:0000024 | UNDECIDED | Summary: The source-specific pre-B cell allelic exclusion assertion remains unresolved. Reason: The precise pre-B-cell allelic-exclusion donor experiment and its human transfer were not inspected. The general immune phenotype of ATM deficiency is insufficient to resolve this specialized process. Supporting Evidence: GO_REF:0000024 |
| GO:0004672 protein kinase activity | IEA GO_REF:0000107 | ACCEPT | Summary: Retain supported protein kinase activity. Reason: The broad kinase inference from mouse is compatible with independently demonstrated human ATM protein kinase activity; the core uses the precise serine/threonine term. |
| GO:0004674 protein serine/threonine kinase activity | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: Protein serine/threonine kinase activity is directly established on human ATM. The PAINT PTN000124197 placement is consistent with target-specific experiments; neither donor count nor the target among descendants is a weakness. |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:10611322 Rapid ATM-dependent phosphorylation of MDM2 precedes p53 acc... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM-dependent and direct in-vitro MDM2 phosphorylation precedes p53 accumulation in the damage response. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:10766245 ATM phosphorylates p95/nbs1 in an S-phase checkpoint pathway... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: Nibrin Ser343 phosphorylation and its checkpoint significance support ATM protein kinase activity. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:10802669 ATM-dependent phosphorylation of nibrin in response to radia... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The source reports ATM-dependent NBN phosphorylation, including in-vitro phosphorylation and functional S-phase/checkpoint rescue. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:10973490 Ataxia telangiectasia-mutated phosphorylates Chk2 in vivo an... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM phosphorylates CHK2 Thr68 in the ionizing-radiation pathway. UV/hydroxyurea responses are not treated as exclusively ATM dependent. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:11375976 Telomeric protein Pin2/TRF1 as an important ATM target in re... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: Original protein-substrate assays and the Ser219 mutant analysis establish ATM-mediated Pin2 phosphorylation. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:19412162 F-box protein FBXO31 mediates cyclin D1 degradation to induc... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: Actual Results identify FBXO31 Ser278 as an ATM substrate and connect phosphorylation to FBXO31 stabilization. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:20096447 USP10 regulates p53 localization and stability by deubiquiti... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The source identifies ATM phosphorylation of USP10 in the damage-response pathway, regulating localization/stability rather than making ATM a deubiquitinase. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:21757780 ATM protein-dependent phosphorylation of Rad50 protein regul... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: RAD50 Ser635 phosphorylation and phosphosite-mutant signaling/repair defects support the kinase role. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:24534091 Rad17 recruits the MRE11-RAD50-NBS1 complex to regulate the ... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: RAD17 Thr622 phosphorylation promotes NBS1 association and MRN/ATM positive feedback during DNA damage. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:26240375 ATM-dependent phosphorylation of MRE11 controls extent of re... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM phosphorylation of MRE11 Ser676/Ser678 restrains inappropriate resection; this is kinase activity, not ATM nuclease activity. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:26323318 NUCKS1 is a novel RAD51AP1 paralog important for homologous ... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The exact ATM assay in this NUCKS1-focused source was not inspected beyond its abstract. Retain the experimentally curated kinase function because independent human ATM enzymology establishes it; do not allege misattribution from the foregrounded protein. |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:26344566 ATM functions at the peroxisome to induce pexophagy in respo... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM kinase activity is a defining molecular function. This paper supports serine-directed PEX5 phosphorylation in cells and assays ATM activity against GST-p53; the broader serine/threonine term remains biologically sound. Do not describe a purified ATM-to-PEX5 reconstitution from the Methods read. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:26774286 FBXW7 Facilitates Nonhomologous End-Joining via K63-Linked P... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM-dependent FBXW7 phosphorylation recruits it to DNA breaks; the distinct DNA-PKcs/XRCC4 phosphorylation step is not assigned to ATM. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:27941124 A phosphorylation-deubiquitination cascade regulates the BRC... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM phosphorylation activates UCHL3 to regulate RAD51-dependent repair. UCHL3, not ATM, performs deubiquitination. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:30171069 The SCF(FBXO46) ubiquitin ligase complex mediates degradatio... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM-dependent phosphorylation regulates FBXO31 and FBXO46 stability in the damage response; their ubiquitin-ligase activity is not transferred to ATM. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:30612738 UBQLN4 Represses Homologous Recombination and Is Overexpress... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM phosphorylation regulates UBQLN4-dependent removal of MRE11 from chromatin. ATM is not thereby a proteasomal shuttle. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:30886146 UFL1 promotes histone H4 ufmylation and ATM activation. | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: Actual UFL1 Results show ATM-dependent Ser462 phosphorylation in a damage-response feedback mechanism. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:30952868 Pellino1 regulates reversible ATM activation via NBS1 ubiqui... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM phosphorylates Pellino1 in a feedback mechanism controlling NBS1 ubiquitination; Pellino1 remains the E3 enzyme. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:38128537 Metabolic regulation of homologous recombination repair by M... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM phosphorylation activates the CBP-dependent MRE11 lactylation pathway; ATM is the kinase, not the lactyltransferase. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IDA PMID:9733515 Activation of the ATM kinase by ionizing radiation and phosp... | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: ATM-dependent phosphorylation of p53 Ser15 after ionizing radiation directly supports the protein-kinase function. Supporting Evidence: |
| GO:0004674 protein serine/threonine kinase activity | IEA GO_REF:0000120 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The combined domain/EC/ARBA mapping is compatible with directly measured human ATM protein serine/threonine kinase activity. |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-3371567 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving DBC1 Thr454 in stress-linked DBC1βSIRT1 regulation; ATM/ATR dependence is retained. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-3371567 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-349444 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving COP1 Ser387 after DNA damage. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-349444 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-349455 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving MDM4 Ser403; downstream ubiquitination remains MDM2 activity. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-349455 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5682598 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving HERC2 Thr4827; possible ATR/DNA-PK contributions are explicit. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5682598 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5682983 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving WHSC1 Ser102 and its MDC1-dependent retention. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5682983 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5683425 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving TP53BP1 multisite phosphorylation and damage-site retention. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5683425 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5683964 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving EYA3 Ser266; the summary explicitly says EYA1/2/4 phosphorylation was not tested. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5683964 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5684140 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving RBBP8/CtIP ATM sites after CDK2 priming. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5684140 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5686578 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving ABL1 Ser456 activation. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5686578 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5686704 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving DCLRE1C Ser645 in NHEJ. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5686704 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5693536 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving MDC1 phosphosites supporting dimerization/RNF8 recruitment. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5693536 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5693549 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving H2AX Ser139, distinct from Tyr142 phosphorylation/dephosphorylation. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5693549 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5693551 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving BRCA1 and BARD1 sites with ATM/ATR overlap. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5693551 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5693598 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving NBN Ser343 and checkpoint activation. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5693598 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-5693609 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving p53 Ser15 and downstream stabilization. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-5693609 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-6798372 | ACCEPT | Summary: Retain source-supported protein serine/threonine kinase activity. Reason: The recovered exact event describes ATM phosphorylation of DYRK2. The official event identifies ATM as the protein serine/threonine kinase catalyst. Retain this defining protein-kinase activity; activities of the substrate and downstream effectors are not assigned to ATM. Supporting Evidence: Reactome:R-HSA-6798372 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-6799097 | ACCEPT | Summary: Retain source-supported protein serine/threonine kinase activity. Reason: The recovered exact event describes ATM phosphorylation of ZNF420. The official event identifies ATM as the protein serine/threonine kinase catalyst. Retain this defining protein-kinase activity; activities of the substrate and downstream effectors are not assigned to ATM. Supporting Evidence: Reactome:R-HSA-6799097 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-6800490 | ACCEPT | Summary: Retain source-supported protein serine/threonine kinase activity. Reason: The recovered exact event describes ATM phosphorylation of PIDD1. The official event identifies ATM as the protein serine/threonine kinase catalyst. Retain this defining protein-kinase activity; activities of the substrate and downstream effectors are not assigned to ATM. Supporting Evidence: Reactome:R-HSA-6800490 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-6804276 | ACCEPT | Summary: Retain source-supported protein serine/threonine kinase activity. Reason: The recovered exact event describes ATM phosphorylation of TTC5. The official event identifies ATM as the protein serine/threonine kinase catalyst. Retain this defining protein-kinase activity; activities of the substrate and downstream effectors are not assigned to ATM. Supporting Evidence: Reactome:R-HSA-6804276 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-6804955 | ACCEPT | Summary: Retain source-supported protein serine/threonine kinase activity. Reason: The recovered exact event describes ATM phosphorylation of MDM2. The official event identifies ATM as the protein serine/threonine kinase catalyst. Retain this defining protein-kinase activity; activities of the substrate and downstream effectors are not assigned to ATM. Supporting Evidence: Reactome:R-HSA-6804955 |
| GO:0004674 protein serine/threonine kinase activity | TAS Reactome:R-HSA-69891 | ACCEPT | Summary: Retain supported protein serine/threonine kinase activity. Reason: The complete event summary supports ATM protein phosphorylation involving CHK2 Thr68 and subsequent dimerization. This supports the enzymatic core without transferring downstream partner catalytic functions to ATM. Supporting Evidence: Reactome:R-HSA-69891 |
| GO:0004677 DNA-dependent protein kinase activity | IDA PMID:15790808 ATM activation by DNA double-strand breaks through the Mre11... | ACCEPT | Summary: Retain supported DNA-dependent protein kinase activity. Reason: The original abstract establishes activation of ATM by damaged DNA and MRN with phosphorylation of p53/CHK2. DNA dependence is a biochemical context; the label does not restrict this assertion to PRKDC. |
| GO:0005515 protein binding | IPI PMID:11375976 Telomeric protein Pin2/TRF1 as an important ATM target in re... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The original Results explicitly show ATMβc-Abl co-immunoprecipitation in the human-cell experiment. Retain the association as signaling context, without a purified binary-binding claim. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:11375976 Telomeric protein Pin2/TRF1 as an important ATM target in re... | KEEP AS NON CORE | Summary: Retain the Pin2/TRF1 association as context; its kinase activity is already annotated. Reason: The Pin2/TRF1 interaction is supported, and the same paper already supplies an accepted GO:0004674 IDA annotation. Withdraw the duplicate proposed kinase replacement. Retain the generic association as non-core context under the project action definitions; this does not add another activity or claim that the interaction is incorrect. Supporting Evidence: PMID:11375976 directly phosphorylated Pin2/TRF1 preferentially on the conserved Ser(219)-Gln |
| GO:0005515 protein binding | IPI PMID:11375976 Telomeric protein Pin2/TRF1 as an important ATM target in re... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The abstract discusses Pin2/TRF1, but the accession-specific TRF1-1 construct and binding result have not been resolved. Preserve this source entity separately. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:11375976 Telomeric protein Pin2/TRF1 as an important ATM target in re... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The abstract discusses Pin2/TRF1, but the accession-specific TRF1-2 construct and binding result have not been resolved. Preserve this source entity separately. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:12607005 MDC1 is a mediator of the mammalian DNA damage checkpoint. | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: MDC1-dependent checkpoint organization is established in the abstract, but an exact ATMβMDC1 binding assay from this source was not read. Do not infer a binary pair from common pathway membership. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:15314656 The telomeric protein TRF2 binds the ATM kinase and can inhi... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The actual TRF2-focused paper also tested TRF1: purified baculovirus-derived TRF1 bound a different GSTβATM fragment from TRF2. Its title is not evidence of misattribution. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:15314656 The telomeric protein TRF2 binds the ATM kinase and can inhi... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: Endogenous ATMβTRF2 co-IP in primary human IMR90 cells, A-T controls, and purified TRF2 binding to ATM fragments support the association. This is regulatory context, not a separate core MF. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:16452482 ATM activation by ionizing radiation requires BRCA1-associat... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The abstract explicitly identifies BAAT1/BRAT1 binding to ATM and its effect on ATM activation. Keep the verified association contextual. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:17157788 Che-1 phosphorylation by ATM/ATR and Chk2 kinases activates ... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The complete abstract reports interaction of Che-1/AATF with ATM/ATR/CHK2 and phosphorylation in the damage response. Retain the source-supported association without assigning ATM a transcription-factor activity. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:17525732 ATMIN defines an NBS1-independent pathway of ATM signalling. | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: ATMIN interaction through a C-terminal motif and stimulus-dependent ATM/ATMIN complex behavior are explicit. The ATMIN and NBS1 pathways must not be conflated. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:18160036 Tel2 regulates the stability of PI3K-related protein kinases... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The abstract reports PIKK association with Tel2 and in-vitro Tel2 binding to ATM HEAT repeats. This is a chaperone-client context and does not make ATM a chaperone. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:18449195 Single-stranded DNA-binding protein hSSB1 is critical for ge... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The abstract supports ATM phosphorylation of hSSB1/NABP2, but the exact source binding experiment was not inspected. Functional kinase dependence alone is not treated as a complete pair-validation read. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:18583959 Induction of a pro-apoptotic ATM-NF-kappaB pathway and its r... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The complete recovered abstract explicitly reports altered ATM-NEMO association after ATR perturbation during replication stress. Retain the association as non-core; the abstract does not establish purified direct binding or turn ATR activity into ATM activity. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:18667510 The DNA damage sensors ataxia-telangiectasia mutated kinase ... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The HCV source abstract reports ATM associations with viral proteins, but the exact processed accession P27958-PRO_0000037577 has not been mapped to the tested construct. No negative biological claim follows. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:18710941 A role for DEAD box 1 at DNA double-strand breaks. | MODIFY | Summary: Replace generic binding with the protein kinase activity supported by the same source. Reason: Selected original Results and kinase Methods show endogenous ATM immunoprecipitates from HeLa cells phosphorylating recombinant DDX1 with radiolabeled ATP, with ATM-proficient versus deficient cell controls. This supports ATM protein kinase activity more informatively than the co-IP association. This is an immunoprecipitate assay, not a purified binary-binding or completely purified enzyme preparation. Preserve the original IPI source record and use the kinase experiment when implementing the replacement. Proposed replacements: protein serine/threonine kinase activity Supporting Evidence: PMID:18710941 recombinant DDX1 was phosphorylated by ATM immunoprecipitates derived from BT cells but not those from L3 cells. |
| GO:0005515 protein binding | IPI PMID:19015526 ATM-mediated serine 72 phosphorylation stabilizes ribonucleo... | MODIFY | Summary: Replace generic binding with the protein kinase activity supported by the same source. Reason: The complete normal abstract explicitly reports ATM phosphorylation of p53R2/RRM2B Ser72 after genotoxic stress, associated with substrate stabilization. Replace the generic association with the supported protein serine/threonine kinase activity; do not transfer ribonucleotide-reductase or ubiquitin-ligase activity to ATM. Detailed original Methods were not newly read, so no purified reconstitution claim is made. The original IPI row remains unchanged outside its review. Proposed replacements: protein serine/threonine kinase activity Supporting Evidence: PMID:19015526 becomes rapidly phosphorylated at Ser(72) by ataxia telangiectasia mutated (ATM) |
| GO:0005515 protein binding | IPI PMID:19412162 F-box protein FBXO31 mediates cyclin D1 degradation to induc... | KEEP AS NON CORE | Summary: Retain the FBXO31 association as context; its kinase activity is already annotated. Reason: The FBXO31 interaction is supported, and the same paper already supplies an accepted GO:0004674 IDA annotation. Withdraw the duplicate proposed kinase replacement. Retain the generic association as non-core context under the project action definitions; this does not add another activity or claim that the interaction is incorrect. Supporting Evidence: PMID:19412162 following Ξ³-irradiation ATM directly phosphorylates FBXO31 |
| GO:0005515 protein binding | IPI PMID:20801936 Tel2 structure and function in the Hsp90-dependent maturatio... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The abstract explicitly reports preferential Tel2 binding to newly synthesized ATM. Retain as a maturation interaction without reversing client and cochaperone roles. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:20810650 A genetic screen identifies the Triple T complex required fo... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The abstract reports TTI1/TTI2 in a large complex with TEL2 and PIKKs including ATM. The evidence supports a physical complex context, not a separately demonstrated purified binary ATMβTTI1 interaction. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:20864032 CK2 phospho-dependent binding of R2TP complex to TEL2 is ess... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The abstract states TEL2βPIKK association generally but foregrounds mTOR/SMG1 and TEL2βR2TP assays. The exact ATM pair experiment was not inspected in this source. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:22621922 Vaccinia-related kinase 1 (VRK1) is an upstream nucleosomal ... | MODIFY | Summary: Replace generic binding with the protein kinase activity supported by the same source. Reason: The previously unread cached Results explicitly compare ATM and VRK1 on the N-terminal 53BP1 fragment and detect Ser25/Ser29 phosphorylation. The ATM plasmid, kinase-assay and immunoprecipitation Methods were read. This supplies a protein serine/threonine kinase replacement without transferring the separate VRK1β53BP1 co-IP to ATM. The original IPI record is preserved; the proposed activity should be implemented using the kinase-assay evidence. Proposed replacements: protein serine/threonine kinase activity Supporting Evidence: PMID:22621922 both kinases independently phosphorylated these residues |
| GO:0005515 protein binding | IPI PMID:22977523 Functional interaction of BRCA1/ATM-associated BAAT1 with th... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The complete abstract focuses on newly tested BAAT1βDNA-PKcs/SMC1 interactions and cites prior ATM work. The exact ATMβBRAT1 experiment in this source remains unread; earlier BRAT1 evidence does not substitute for this source row. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:24657168 Inositol pyrophosphates mediate the DNA-PK/ATM-p53 cell deat... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: TTT stabilization of ATM is described, but the exact ATMβTTI1 pair and relevant control context were not read. Preserve source-specific uncertainty. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:24657168 Inositol pyrophosphates mediate the DNA-PK/ATM-p53 cell deat... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: TTT stabilization of ATM is described, but the exact ATMβTELO2 pair and relevant control context were not read. Preserve source-specific uncertainty. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:25640309 Systematic identification of molecular links between core an... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: A global interaction-network abstract does not establish the exact ATMβNAT2 row, construct or validation. The pair table was not inspected. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:25640309 Systematic identification of molecular links between core an... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: A global interaction-network abstract does not establish the exact ATMβIL24 row, construct or validation. The pair table was not inspected. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:25640309 Systematic identification of molecular links between core an... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: A global interaction-network abstract does not establish the exact ATMβNSD3 row, construct or validation. The pair table was not inspected. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:25895060 Notch is a direct negative regulator of the DNA-damage respo... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The paper explicitly establishes NOTCH1βATM binding, but that does not independently verify the separate NBN pair recorded here. The exact NBN assay from this source remains unread. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:25895060 Notch is a direct negative regulator of the DNA-damage respo... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The abstract explicitly reports NOTCH1 binding to the ATM FATC region and inhibition of ATM signaling. Retain as a contextual regulatory interaction with species/model limits. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:29656893 DNA Repair Network Analysis Reveals Shieldin as a Key Regula... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The actual normal cache contains the abstract, Introduction and Discussion, but omits the Results/Methods and pair tables despite full_text_available being true. The read Introduction/Discussion identifies APEX proximity labeling of endogenous 53BP1, BRCA1 and MDC1 and explicitly allows indirect neighborhood associations. The exact ATMβTP53BP1 pair and its validation remain uninspected, so retain UNDECIDED without claiming that a positive curator-recorded interaction is false. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:29656893 DNA Repair Network Analysis Reveals Shieldin as a Key Regula... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The actual normal cache contains the abstract, Introduction and Discussion, but omits the Results/Methods and pair tables despite full_text_available being true. The read Introduction/Discussion identifies APEX proximity labeling of endogenous DDR baits and distinguishes proximity from direct binding. The exact ATMβMDC1 pair and its validation remain uninspected, so retain source-specific uncertainty. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:30886146 UFL1 promotes histone H4 ufmylation and ATM activation. | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The selected cached Results, Figure 6 caption and immunoprecipitation Methods establish ATM-dependent cellular UFL1 Ser462 phosphorylation, with ATM inhibition, knockout and phosphosite-mutant controls. They explicitly demonstrate NBS1βUFL1 recognition. These experiments support the ATMβUFL1 signaling relationship but do not settle this distinct ATMβUFL1 physical-association row; no purified ATMβUFL1 binding or kinase assay is claimed. Retain UNDECIDED for the original IPI assertion. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:30944854 SIRT7-mediated ATM deacetylation is essential for its deacti... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: Endogenous ATMβSIRT7 co-IP in human HCT116 cells and domain pulldowns support a regulatory association/deacetylation context. Lysate-based pulldown is not represented as purified binary reconstitution. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:32296183 A reference map of the human binary protein interactome. | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: Selected cached HuRI Results, assay-validation descriptions and Discussion were read beyond the abstract. They describe binary Y2H screening and explicitly note one tested isoform per gene. The exact ATMβESRRG-3 pair, ORF/isoform mapping and pair-level validation are in uninspected data; full_text_available does not mean those data are present in the cache. Preserve the specific isoform entity and UNDECIDED. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:35512704 Systematic discovery of mutation-directed neo-protein-protei... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: The normal cache includes Introduction and Discussion but no Results/Methods or pair tables despite its full_text_available flag. These sections describe WT-versus-mutant BRET screening and orthogonal validation of a separate BRAFβKEAP1 pair. They do not resolve the ATMβAKT1 genotype/construct and validation. Retain UNDECIDED for this source-specific IPI assertion without generalizing another pairβs validation. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:9168117 Interaction between ATM protein and c-Abl in response to DNA... | KEEP AS NON CORE | Summary: Retain protein binding as a contextual function or association. Reason: The abstract explicitly reports constitutive ATMβABL association and an ATM proline-rich motif binding the ABL SH3 domain, together with radiation-responsive ABL activation. Supporting Evidence: |
| GO:0005515 protein binding | IPI PMID:9733515 Activation of the ATM kinase by ionizing radiation and phosp... | UNDECIDED | Summary: The source-specific protein binding assertion remains unresolved. Reason: Direct ATM-dependent p53 Ser15 phosphorylation is established, but the exact source-specific protein-binding assertion was not independently inspected beyond the kinase/substrate relationship. Supporting Evidence: |
| GO:0005634 nucleus | EXP PMID:9050866 The ataxia-telangiectasia gene product, a constitutively exp... | ACCEPT | Summary: Retain supported nucleus. Reason: The human ATM fractionation/localization study supports a major nuclear pool while also documenting extranuclear material. Supporting Evidence: |
| GO:0005634 nucleus | EXP PMID:9150358 Cellular localisation of the ataxia-telangiectasia (ATM) gen... | ACCEPT | Summary: Retain supported nucleus. Reason: The human-cell localization observations support nuclear ATM and distinguish extranuclear vesicular signal. Supporting Evidence: |
| GO:0005634 nucleus | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported nucleus. Reason: Nuclear ATM signaling is well established and compatible with the PTN000124197 inherited location. Broader nuclear localization does not exclude documented cytoplasmic/peroxisomal pools. |
| GO:0005634 nucleus | IDA PMID:26323318 NUCKS1 is a novel RAD51AP1 paralog important for homologous ... | ACCEPT | Summary: Retain supported nucleus. Reason: The exact source microscopy was not inspected beyond the NUCKS1-focused abstract. Nuclear ATM is independently established; defer to the experimental curator rather than claim wrong-gene attribution. |
| GO:0005634 nucleus | IEA GO_REF:0000120 | ACCEPT | Summary: Retain supported nucleus. Reason: The combined nuclear-location mapping is supported by independent human ATM localization, without excluding extranuclear pools. |
| GO:0005654 nucleoplasm | IDA GO_REF:0000052 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: Nucleoplasm is consistent with direct human nuclear ATM evidence and damage-response chromatin recruitment. The HPA source image/subcellular scoring was not independently replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-3371567 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, DBC1 is phosphorylated by ATM/ART, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-349444 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Phosphorylation of COP1 at Ser-387 by ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-349455 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Phosphorylation of MDM4 by ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682018 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, MRN complex bound to shortened telomeres recruits ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682026 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, MRN bound to shortened telomeres activates ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The event describes an ATM activation/dimer-to-monomer model; later active-dimer evidence prevents making monomerization universal. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682044 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, KAT5 acetylates ATM at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682586 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, HERC2 and PIAS4 are recruited to DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682588 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RNF8 binds phosphorylated MDC1 at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682598 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates HERC2, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682607 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, PIAS4 SUMOylates HERC2 with SUMO1 at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682629 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, HERC2 facilitates UBE2N:UBE2V2 binding to RNF8, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682858 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RNF8 and RNF168 ubiquitinate H2AFX, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682863 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RNF168 binds DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682965 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, WHSC1 dimethylates histone H4 on lysine K21 at DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682967 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, WHSC1 binds DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682983 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates WHSC1, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5682992 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, KDM4A,B bind H4K20Me2, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683077 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RNF8 and RNF168 ubiquitinate KDM4A,B, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683384 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, UIMC1 and FAM175A bind DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683385 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Formation of BRCA1-A complex at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683405 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, PPP5C dephosphorylates TP53BP1, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683425 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates TP53BP1 at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683735 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, CHEK2 is recruited to DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683801 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, CHEK2 phosphorylates BRCA1, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683964 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates EYA1-4, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. EYA3 phosphorylation is experimentally specified, whereas EYA1/2/4 phosphorylation is explicitly untested; this location assertion does not extend substrate specificity. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683967 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, EYA1-4 dephosphorylates tyrosine Y142 of H2AFX, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5683986 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, APBB1 and MAPK8 bind diphosphorylated H2AFX, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684052 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, PIAS4 SUMOylates MDC1, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684071 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RNF4 ubiquitinates MDC1, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684081 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, MRN complex binds CDK2 and RBBP8, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684096 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, CDK2 phosphorylates RBBP8, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684108 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, BRCA1 binds phosphorylated RBBP8, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684140 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates RBBP8, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684875 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Binding of ATR:ATRIP to RPA at resected DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684882 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, CHEK1 is recruited to resected DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5684887 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Activation of CHEK1 at resected DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5685011 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATR activation at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5685156 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATR phosphorylates RPA2, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5685341 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, BCDX2 complex stabilizes RAD51 filament, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5685838 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, CX3 complex binds D-loop structures, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5685985 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, EXO1 or DNA2 in complex with BLM or WRN binds initially resected DNA DSBs along with BRIP1 recruitment, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5685994 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Long-range resection of DNA DSBs by EXO1 or DNA2, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686410 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, BLM mediates dissolution of double Holliday junction, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686440 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, MUS81:EME1,EME2 cleaves D-loop, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686469 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Resolution of D-loops cleaved by MUS81:EME1 or MUS81:EME2, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686483 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Resolution of Holliday junctions cleaved by GEN1 or SLX1A:SLX4:MUS81:EME1,(MUS81:EME2), is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686578 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Activated ATM phosphorylates ABL1, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686642 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RAD52 promotes single strand annealing at resected DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686657 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ERCC1:XPF cleaves flaps generated by SSA, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686663 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Completion of SSA, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686685 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RIF1 and PAX1IP bind TP53BP1 at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686704 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Activated ATM phosphorylates DCLRE1C, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5686900 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, TP53BP1 recruits DCLRE1C to ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693536 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates MDC1, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693539 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Ligation of DNA and formation of Holliday structures following repair synthesis, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693540 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, MRN activates ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The historical active-ATM monomer representation is not adopted as an exclusive activation mechanism. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693542 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Association of RPA complexes with ssDNA at resected DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693549 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates histone H2AFX on S139 at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693551 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Phosphorylation of BRCA1-A complex at multiple sites by ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693561 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, RAD51 binds BRCA2 at resected DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693564 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Association of RAD51 with RAD52:DNA double-strand break ends, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693566 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, TP53BP1 associates with H4K20Me2 at DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693580 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Association of RAD52 with the RPA complex at resected DNA DSBs, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693583 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, MDC1 associates with gamma-H2AFX at nuclear foci, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693584 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Cleavage of Holliday junctions by GEN1 or SLX1A:SLX4:MUS81:EME1,(MUS81:EME2), is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693589 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, D-loop dissociation and strand annealing, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693593 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, D-loop extension by DNA polymerases, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693598 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates NBN, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693599 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Association of Ku heterodimer with ends of DNA double-strand break, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693602 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. ATM-containing complexes recognize H2AFX nucleosomes near DNA breaks. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-5693602 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693608 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Initial resection of double-strand break ends, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693609 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATM phosphorylates TP53 at S15, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693612 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. MRN-bound DNA ends recruit ATM-containing complexes. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-5693612 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-5693620 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, D-loop formation mediated by PALB2, BRCA2 and RAD51, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6792712 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. The event places the ATM-KAT5 complex at shortened telomeres. Its summary explicitly labels the telomere activation mechanism as inferred by analogy with DNA breaks; KAT5 performs acetylation. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-6792712 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6798372 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. The event places ATM-catalyzed phosphorylation of DYRK2 in this compartment. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-6798372 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6799097 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. The event places ATM-catalyzed phosphorylation of ZNF420 in this compartment. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-6799097 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6799332 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ATR phosphorylates TP53, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6800490 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. The event places ATM-catalyzed phosphorylation of PIDD1 in this compartment. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-6800490 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6804276 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. The event places ATM-catalyzed phosphorylation of TTC5 in this compartment. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-6804276 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-6804955 | ACCEPT | Summary: Retain source-supported nucleoplasm. Reason: The recovered event summary and the official event compartment/participant fields support ATM in the nucleoplasm. The event places ATM-catalyzed phosphorylation of MDM2 in this compartment. Retain the curated location; this assessment does not independently replay every nested physical-entity object or linked primary experiment. Supporting Evidence: Reactome:R-HSA-6804955 |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-69891 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Phosphorylation and activation of CHEK2 by ATM, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9701199 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Defective D-loop formation mediated by PALB2, BRCA2 and RAD51 due to loss-of-function of BRCA1 in PALB2 binding, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The variant pathway foregrounds BRCA1, not an ATM variant. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9704330 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Defective D-loop formation mediated by PALB2, BRCA2 and RAD51 due to loss-of-function of PALB2 in BRCA1 binding, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The variant pathway foregrounds PALB2 variants defective in BRCA1 binding, not an ATM variant. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9704408 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Defective D-loop formation mediated by PALB2, BRCA2 and RAD51 due to loss-of-function of PALB2 in binding to BRCA2/RAD51/RAD51C, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The variant pathway foregrounds PALB2, not an ATM variant. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9709571 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, BRCA2 mutants with BRC defects or a defect in the C-terminal RAD51 binding site do not bind RAD51, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The variant pathway foregrounds BRCA2 variants defective in RAD51 binding, not an ATM variant. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9709601 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, Defective recruitment of BRCA2 and RAD51 due to loss of BRCA2 function in PALB2 binding, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The variant pathway foregrounds PALB2/BRCA-related repair components, not an ATM variant. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9853389 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, FIGNL1 binds RAD51, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9980006 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, ERCC1:XPF binds DNA DSBs with annealed 3' ssDNA overhangs and displaced flaps generated by SSA, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005654 nucleoplasm | TAS Reactome:R-HSA-9980021 | ACCEPT | Summary: Retain supported nucleoplasm. Reason: The exact event summary, LIG1 binds SSA sites, is compatible with ATM nuclear damage-response context. Retain the broad nucleoplasmic location with independent human nuclear localization; do not assign ATM the catalytic activity of every event participant. The source-specific nested ATM physical-entity/compartment object was not separately replayed. |
| GO:0005694 chromosome | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported chromosome. Reason: ATM recruitment to damaged chromatin and telomeres supports the broad chromosome location; this is not a constitutive structural chromosome-protein claim. |
| GO:0005730 nucleolus | IDA PMID:27829214 PICT-1 is a key nucleolar sensor in DNA damage response sign... | KEEP AS NON CORE | Summary: Retain nucleolus as a contextual function or association. Reason: The source explicitly describes ATM nucleolar colocalization/association with PICT1. Retain this stress-associated pool without defining ATM primarily as a nucleolar or ribosome-biogenesis protein. Supporting Evidence: |
| GO:0005737 cytoplasm | IBA GO_REF:0000033 | KEEP AS NON CORE | Summary: Retain cytoplasm as a contextual function or association. Reason: A documented extranuclear ATM pool is compatible with the inherited cytoplasmic location; retain this contextual pool alongside the dominant nuclear damage-response function. |
| GO:0005737 cytoplasm | IEA GO_REF:0000107 | KEEP AS NON CORE | Summary: Retain cytoplasm as a contextual function or association. Reason: The mouse-transfer cytoplasm assertion agrees with documented human extranuclear ATM; retain as a contextual location, not a target-specific loss claim. |
| GO:0005737 cytoplasm | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: Retain cytoplasm as a contextual function or association. Reason: The ISS cytoplasm assertion is biologically corroborated in human cells, while the particular mouse donor experiment was not replayed. |
| GO:0005782 peroxisomal matrix | IDA PMID:26344566 ATM functions at the peroxisome to induce pexophagy in respo... | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. Proposed replacements: peroxisomal membrane Supporting Evidence: |
| GO:0005782 peroxisomal matrix | IEA GO_REF:0000044 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. SL-0202 faithfully propagates the current UniProt matrix assertion, whose cited 26344566 topology evidence disagrees; this is a biological source-placement issue, not a broken deterministic mapping. Propagation Review Root cause: SOURCE BAD Failure modes: COMPARTMENT OR COMPLEX MISMATCH Sources checked: UniProtKB-SubCell:SL-0202 SOURCE BAD SL-0202 faithfully maps the current UniProt matrix placement; the cited proteinase-K topology experiment instead supports peroxisomal membrane association. The deterministic mapping is not alleged to be broken. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664855 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664862 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664879 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664880 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664881 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664883 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664888 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9664892 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9674127 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005782 peroxisomal matrix | TAS Reactome:R-HSA-9674131 | MODIFY | Summary: Retain peroxisomal association with membrane rather than matrix placement. Reason: The measured peroxisomal association is retained, but matrix is inconsistent with the explicit proteinase-K accessibility result versus protected catalase. Use peroxisomal membrane, with cytosol-facing peripheral association in prose; no integral-membrane or intraperoxisomal-face claim. The complete cached event summary was read; several explicitly say membrane. Exact Reactome physical-entity compartment objects and other cited primary papers were not independently replayed. The proposed correction concerns the common compartment, not every modeled complex or downstream activity. Proposed replacements: peroxisomal membrane |
| GO:0005813 centrosome | IEA GO_REF:0000120 | UNDECIDED | Summary: The source-specific centrosome assertion remains unresolved. Reason: The centrosomal pool is plausible and recorded by similarity, but the actual donor localization/construct assay has not been inspected. Preserve uncertainty rather than assert a localization error. Supporting Evidence: GO_REF:0000120 |
| GO:0005813 centrosome | ISS GO_REF:0000024 | UNDECIDED | Summary: The source-specific centrosome assertion remains unresolved. Reason: The centrosomal pool is plausible and recorded by similarity, but the actual donor localization/construct assay has not been inspected. Preserve uncertainty rather than assert a localization error. Supporting Evidence: GO_REF:0000024 |
| GO:0005819 spindle | IEA GO_REF:0000107 | UNDECIDED | Summary: The source-specific spindle assertion remains unresolved. Reason: The exact mouse spindle-localization experiment and its transfer to human ATM remain unread; checkpoint function alone does not establish spindle residence. Supporting Evidence: GO_REF:0000107 |
| GO:0005829 cytosol | TAS Reactome:R-HSA-9664850 | KEEP AS NON CORE | Summary: Retain cytosol as a contextual function or association. Reason: Cytosolic ATM/PEX5 association and recruitment to peroxisomes are consistent with the read pathway summaries and paper. Retain this context without inferring matrix import or ATM catalysis of ubiquitination/deubiquitination. |
| GO:0005829 cytosol | TAS Reactome:R-HSA-9664883 | KEEP AS NON CORE | Summary: Retain cytosol as a contextual function or association. Reason: Cytosolic ATM/PEX5 association and recruitment to peroxisomes are consistent with the read pathway summaries and paper. Retain this context without inferring matrix import or ATM catalysis of ubiquitination/deubiquitination. |
| GO:0006281 DNA repair | IEA GO_REF:0000002 | ACCEPT | Summary: Retain supported DNA repair. Reason: The domain inference agrees with ATM executing kinase-dependent DNA-repair signaling, rather than solely being necessary for viability. |
| GO:0006302 double-strand break repair | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported double-strand break repair. Reason: ATM performs signaling steps that enable double-strand-break repair. PTN001673310 is consistent with actual target-specific phosphorylation/repair evidence; no argument from self-inclusion or donor number is warranted. |
| GO:0006302 double-strand break repair | IDA PMID:26240375 ATM-dependent phosphorylation of MRE11 controls extent of re... | ACCEPT | Summary: Retain supported double-strand break repair. Reason: MRE11 phosphorylation and resection control establish ATM participation in double-strand-break repair rather than a mere repair-associated expression change. Supporting Evidence: |
| GO:0006302 double-strand break repair | TAS Reactome:R-HSA-5693606 | ACCEPT | Summary: Retain supported double-strand break repair. Reason: The complete DSB-response summary explicitly places ATM downstream of MRN and assigns it phosphorylation steps in checkpoint/repair signaling. Supporting Evidence: Reactome:R-HSA-5693606 |
| GO:0006303 double-strand break repair via nonhomologous end joining | TAS Reactome:R-HSA-5693571 | ACCEPT | Summary: Retain supported double-strand break repair via nonhomologous end joining. Reason: The NHEJ summary identifies ATM-mediated phosphorylation/recruitment steps, including Artemis regulation. ATM performs signaling work; PRKDC, nucleases, polymerases and LIG4 retain their own catalytic steps. Supporting Evidence: Reactome:R-HSA-5693571 |
| GO:0006338 chromatin remodeling | IEA GO_REF:0000108 | ACCEPT | Summary: Retain supported chromatin remodeling. Reason: GO0006338 includes chromatin reorganization enabling repair and is not restricted by its definition to an ATPase motor. The H2AX Ser139 phosphorylation mapping is compatible with ATM organizing damage-associated chromatin. Do not assign ATP-dependent nucleosome-sliding activity to ATM. Supporting Evidence: GO_REF:0000108 Reactome:R-HSA-5693549 |
| GO:0006974 DNA damage response | IDA PMID:10611322 Rapid ATM-dependent phosphorylation of MDM2 precedes p53 acc... | ACCEPT | Summary: Retain supported DNA damage response. Reason: ATM-dependent MDM2 phosphorylation connects the kinase to p53 accumulation after DNA damage. Supporting Evidence: |
| GO:0006974 DNA damage response | IDA PMID:16213212 Regulation of p53 translation and induction after DNA damage... | ACCEPT | Summary: Retain supported DNA damage response. Reason: The exact ATM experiment in this RPL26/nucleolin-focused source was not inspected; independent direct ATM damage-signaling evidence supports retaining the experimental annotation. |
| GO:0006974 DNA damage response | IDA PMID:19412162 F-box protein FBXO31 mediates cyclin D1 degradation to induc... | ACCEPT | Summary: Retain supported DNA damage response. Reason: ATM-dependent FBXO31 phosphorylation/stabilization connects ATM to the measured DNA-damage response. Supporting Evidence: |
| GO:0006974 DNA damage response | IDA PMID:24534091 Rad17 recruits the MRE11-RAD50-NBS1 complex to regulate the ... | ACCEPT | Summary: Retain supported DNA damage response. Reason: ATM phosphorylation of RAD17 contributes to MRN recruitment and damage-response positive feedback. Supporting Evidence: |
| GO:0006974 DNA damage response | IDA PMID:30171069 The SCF(FBXO46) ubiquitin ligase complex mediates degradatio... | ACCEPT | Summary: Retain supported DNA damage response. Reason: ATM-dependent regulation of FBXO31/FBXO46 supplies a specific phosphorylation-based DNA-damage response mechanism. Supporting Evidence: |
| GO:0006974 DNA damage response | IDA PMID:30952868 Pellino1 regulates reversible ATM activation via NBS1 ubiqui... | ACCEPT | Summary: Retain supported DNA damage response. Reason: ATM-dependent Pellino1 activation and NBS1 feedback support DNA-damage response participation while keeping the E3 activity with Pellino1. Supporting Evidence: |
| GO:0006974 DNA damage response | IDA PMID:38128537 Metabolic regulation of homologous recombination repair by M... | ACCEPT | Summary: Retain supported DNA damage response. Reason: ATM phosphorylation of CBP initiates the MRE11 lactylation/repair pathway; ATM executes the upstream kinase step. Supporting Evidence: |
| GO:0006974 DNA damage response | IDA PMID:9733515 Activation of the ATM kinase by ionizing radiation and phosp... | ACCEPT | Summary: Retain supported DNA damage response. Reason: ATM-dependent p53 Ser15 phosphorylation after ionizing radiation is direct damage-response signaling. Supporting Evidence: |
| GO:0006974 DNA damage response | IEA GO_REF:0000002 | ACCEPT | Summary: Retain supported DNA damage response. Reason: The ATM domain-based damage-response assignment is supported by direct target phosphorylation/checkpoint experiments. |
| GO:0006974 DNA damage response | IMP PMID:17875758 ATM, CTLA4, MNDA, and HEM1 in high versus low CD38 expressin... | ACCEPT | Summary: Retain supported DNA damage response. Reason: The CLL/HEM1 abstract does not resolve this source-specific ATM perturbation, but the broad damage-response function is independently secure. Retain with experimental curator deference; the more specialized B-cell/apoptosis rows remain uncertain. |
| GO:0006974 DNA damage response | IMP PMID:24550317 PARP1-dependent recruitment of KDM4D histone demethylase to ... | ACCEPT | Summary: Retain supported DNA damage response. Reason: KDM4D-dependent ATM chromatin recruitment/activation in the source is compatible with ATM executing the downstream damage-response kinase pathway. Supporting Evidence: |
| GO:0006979 response to oxidative stress | IC PMID:37943659 ATM-CHK2-TRIM32 axis regulates ATG7 ubiquitination to initia... | KEEP AS NON CORE | Summary: Retain response to oxidative stress as a contextual function or association. Reason: The source reports ROS-driven ATM/CHK2/TRIM32/ATG7 signaling. Retain the oxidative-stress context without making ATM an autophagy E3 enzyme. Supporting Evidence: |
| GO:0007094 mitotic spindle assembly checkpoint signaling | IMP PMID:11943150 Involvement of the telomeric protein Pin2/TRF1 in the regula... | UNDECIDED | Summary: The source-specific mitotic spindle assembly checkpoint signaling assertion remains unresolved. Reason: The Pin2 work links mitotic entry and A-T radiation sensitivity, but the exact spindle-assembly checkpoint assay and distinction from the DNA-damage G2/M checkpoint remain unread. Supporting Evidence: |
| GO:0007095 mitotic G2 DNA damage checkpoint signaling | IMP PMID:15149599 Telomere shortening triggers senescence of human cells throu... | ACCEPT | Summary: Accept ATM participation in the mitotic G2 DNA-damage checkpoint, while preserving the source-specific reading limit. Reason: Defer to the experimental curator for this established ATM checkpoint function, corroborated by the existing Che-1/ATMβATRβCHK2 checkpoint source. The complete PMID:15149599 abstract foregrounds ATM-dependent G1 arrest and compensatory ATR-dependent G2 arrest after ATM loss; its detailed G2 experiments remain unread. That limited abstract is not evidence against ATM G2 checkpoint signaling and should not make the well-supported gene-level function uncertain. This does not generalize to the separate spindle-assembly-checkpoint annotation. Supporting Evidence: PMID:17157788 the maintenance of the G2/M checkpoint induced by DNA damage. |
| GO:0007127 meiosis I | IEA GO_REF:0000117 | UNDECIDED | Summary: The source-specific meiosis I assertion remains unresolved. Reason: The precise meiotic-I experimental or rule evidence remains uninspected. Conserved DDR function is not a substitute for reviewing this specialized meiotic context. Supporting Evidence: GO_REF:0000117 |
| GO:0007131 reciprocal meiotic recombination | TAS PMID:7792600 A single ataxia telangiectasia gene with a product similar t... | UNDECIDED | Summary: The source-specific reciprocal meiotic recombination assertion remains unresolved. Reason: The cloning-paper abstract and family homology do not resolve the original target reciprocal-meiotic-recombination evidence. No claim of misattribution is made from the title or abstract. Supporting Evidence: |
| GO:0007165 signal transduction | TAS PMID:7792600 A single ataxia telangiectasia gene with a product similar t... | ACCEPT | Summary: Retain supported signal transduction. Reason: ATM executes protein-phosphorylation signaling, independently corroborating the broad signal-transduction assertion in the cloning-paper context. |
| GO:0008630 intrinsic apoptotic signaling pathway in response to DNA damage | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported intrinsic apoptotic signaling pathway in response to DNA damage. Reason: ATM phosphorylates damage-response substrates including p53 and executes signaling that can lead to intrinsic apoptosis. This inherited DNA-damage context is compatible with the target mechanism; it is not an inference from lethality alone. |
| GO:0010212 response to ionizing radiation | IDA PMID:11375976 Telomeric protein Pin2/TRF1 as an important ATM target in re... | ACCEPT | Summary: Retain supported response to ionizing radiation. Reason: The original human-cell kinase/Ser219 experiments and irradiation-dependent phosphorylation directly support an ionizing-radiation response. Supporting Evidence: |
| GO:0010212 response to ionizing radiation | IDA PMID:9733515 Activation of the ATM kinase by ionizing radiation and phosp... | ACCEPT | Summary: Retain supported response to ionizing radiation. Reason: ATM-dependent p53 phosphorylation after ionizing radiation directly supports the response annotation. Supporting Evidence: |
| GO:0010212 response to ionizing radiation | IEA GO_REF:0000117 | ACCEPT | Summary: Retain supported response to ionizing radiation. Reason: Ionizing-radiation signaling is a directly established target function consistent with the electronic assertion. |
| GO:0010468 regulation of gene expression | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: Retain regulation of gene expression as a contextual function or association. Reason: ATM regulates downstream gene expression through signaling substrates and cofactors; this is contextual regulation, not sequence-specific transcription-factor activity. |
| GO:0010506 regulation of autophagy | IEA GO_REF:0000120 | KEEP AS NON CORE | Summary: Retain regulation of autophagy as a contextual function or association. Reason: ATM participates in stress-regulated autophagy pathways through substrate signaling. Retain this biological context without a separate autophagy core. |
| GO:0010506 regulation of autophagy | IMP PMID:23878245 Reactive nitrogen species regulate autophagy through ATM-AMP... | KEEP AS NON CORE | Summary: Retain regulation of autophagy as a contextual function or association. Reason: NO activates the ATM/LKB1/AMPK/TSC2 pathway and suppresses TORC1 to regulate autophagy. The signaling mechanism supports participation, while the stress context remains non-core. Supporting Evidence: |
| GO:0010628 positive regulation of gene expression | IMP PMID:28344092 The over expression of long non-coding RNA ANRIL promotes ep... | UNDECIDED | Summary: The source-specific positive regulation of gene expression assertion remains unresolved. Reason: The pancreatic-cell/animal study abstract does not resolve the exact human ATM construct, perturbation and gene-expression endpoint. Keep the source/model boundary explicit. Supporting Evidence: |
| GO:0016301 kinase activity | IEA GO_REF:0000002 | ACCEPT | Summary: Retain supported kinase activity. Reason: The generic kinase-domain assignment is correct in light of direct protein-kinase assays; the precise enzymatic core is serine/threonine kinase, not lipid kinase. |
| GO:0016303 1-phosphatidylinositol-3-kinase activity | IMP PMID:11375976 Telomeric protein Pin2/TRF1 as an important ATM target in re... | REMOVE | Summary: The lipid-substrate assertion is contradicted by the inspected assay chemistry. Reason: The original experiment measures radiolabel transfer to GST-Pin2/p53 protein substrates, with kinase-dead ATM controls. Wortmannin sensitivity does not establish lipid catalysis. GO0016303 instead requires phosphorylation of phosphatidylinositol; an independent ATM-IP study found no detectable lipid-kinase activity under its assay conditions. This is an assay-chemistry mismatch, not a title-based override. |
| GO:0030330 DNA damage response, signal transduction by p53 class mediator | TAS Reactome:R-HSA-69563 | ACCEPT | Summary: Retain supported DNA damage response, signal transduction by p53 class mediator. Reason: ATM-mediated p53 signaling is a core damage-response branch, consistent with the pathway summary and direct p53 Ser15 experiments. |
| GO:0030335 positive regulation of cell migration | IMP PMID:28344092 The over expression of long non-coding RNA ANRIL promotes ep... | UNDECIDED | Summary: The source-specific positive regulation of cell migration assertion remains unresolved. Reason: The pancreatic-cell migration context requires the exact ATM intervention and species/construct read before a confident target-specific assessment; the abstract alone does not settle these details. Supporting Evidence: |
| GO:0030889 negative regulation of B cell proliferation | IMP PMID:17875758 ATM, CTLA4, MNDA, and HEM1 in high versus low CD38 expressin... | UNDECIDED | Summary: The source-specific negative regulation of B cell proliferation assertion remains unresolved. Reason: The abstract is a CLL gene-expression/HEM1 perturbation study. It does not resolve the exact ATM intervention supporting negative B-cell proliferation. This is an access/assay limitation, not proof of wrong-gene curation. Supporting Evidence: |
| GO:0031410 cytoplasmic vesicle | EXP PMID:9050866 The ataxia-telangiectasia gene product, a constitutively exp... | KEEP AS NON CORE | Summary: Retain cytoplasmic vesicle as a contextual function or association. Reason: Retain the experimentally curated vesicular pool with corroborating human vesicular localization; the source fractionation abstract alone is not a full vesicle morphology assay read. |
| GO:0031410 cytoplasmic vesicle | EXP PMID:9150358 Cellular localisation of the ataxia-telangiectasia (ATM) gen... | KEEP AS NON CORE | Summary: Retain cytoplasmic vesicle as a contextual function or association. Reason: The source describes human cytoplasmic vesicular ATM; retain as a contextual localization alongside nuclear function. Supporting Evidence: |
| GO:0031410 cytoplasmic vesicle | IEA GO_REF:0000120 | KEEP AS NON CORE | Summary: Retain cytoplasmic vesicle as a contextual function or association. Reason: The mapped vesicular location is compatible with human-cell vesicular ATM observations; it is contextual rather than the dominant DDR location. |
| GO:0032210 regulation of telomere maintenance via telomerase | IEA GO_REF:0000117 | ACCEPT | Summary: Retain supported regulation of telomere maintenance via telomerase. Reason: The electronic telomerase-regulation assertion is consistent with human ATM-dependent telomerase recruitment and elongation experiments. |
| GO:0032210 regulation of telomere maintenance via telomerase | IGI PMID:26586433 ATM and ATR Signaling Regulate the Recruitment of Human Telo... | ACCEPT | Summary: Retain supported regulation of telomere maintenance via telomerase. Reason: The target study connects ATM/ATR signaling to telomerase recruitment and telomere maintenance. Retain the genetic-interaction annotation without assigning telomerase catalysis to ATM. Supporting Evidence: |
| GO:0032212 positive regulation of telomere maintenance via telomerase | IEA GO_REF:0000107 | ACCEPT | Summary: Retain supported positive regulation of telomere maintenance via telomerase. Reason: The mouse-transfer assertion is corroborated by human telomerase experiments; donor-specific details are not claimed independently read. |
| GO:0032212 positive regulation of telomere maintenance via telomerase | ISS GO_REF:0000024 | ACCEPT | Summary: Retain supported positive regulation of telomere maintenance via telomerase. Reason: The ISS assertion agrees with human telomerase recruitment/elongation findings, while retaining its distinct original evidence and donor. |
| GO:0033554 cellular response to stress | IDA PMID:37943659 ATM-CHK2-TRIM32 axis regulates ATG7 ubiquitination to initia... | KEEP AS NON CORE | Summary: Retain cellular response to stress as a contextual function or association. Reason: The ATM/CHK2/TRIM32/ATG7 pathway provides a specific oxidative-stress/autophagy context for this broad cellular-stress response. Supporting Evidence: |
| GO:0034614 cellular response to reactive oxygen species | IDA PMID:26344566 ATM functions at the peroxisome to induce pexophagy in respo... | KEEP AS NON CORE | Summary: Retain cellular response to reactive oxygen species as a contextual function or association. Reason: ATM-mediated PEX5 phosphorylation and peroxisomal recruitment give a mechanistic ROS-response role. Retain this oxidative-stress context without treating ATM as the ubiquitin ligase or asserting all panels are human. Supporting Evidence: |
| GO:0035861 site of double-strand break | IDA PMID:26240375 ATM-dependent phosphorylation of MRE11 controls extent of re... | ACCEPT | Summary: Retain supported site of double-strand break. Reason: The target MRE11/resection study supports recruitment/function at DNA double-strand-break sites. The location is not inferred solely from a generic repair phenotype. Supporting Evidence: |
| GO:0035979 histone H2AXS139 kinase activity | IEA GO_REF:0000107 | ACCEPT | Summary: Retain supported histone H2AXS139 kinase activity. Reason: ATM phosphorylation of H2AX Ser139 is a central damage-chromatin signaling activity. The human Reactome reaction corroborates the transferred biochemical assertion. Supporting Evidence: GO_REF:0000107 Reactome:R-HSA-5693549 |
| GO:0035979 histone H2AXS139 kinase activity | ISS GO_REF:0000024 | ACCEPT | Summary: Retain supported histone H2AXS139 kinase activity. Reason: The ISS H2AX Ser139 kinase assertion agrees with the curated human ATM reaction; this does not assign ATM the separate H2AX Tyr142 phosphatase step. Supporting Evidence: GO_REF:0000024 Reactome:R-HSA-5693549 |
| GO:0036092 phosphatidylinositol-3-phosphate biosynthetic process | IEA GO_REF:0000108 | REMOVE | Summary: The lipid-substrate assertion is contradicted by the inspected assay chemistry. Reason: This GO0108 inference explicitly depends on GO0016303. Its deterministic propagation is faithful, but the underlying lipid-kinase assignment fails the original substrate-chemistry check; PI3P synthesis should not be retained on that basis. Propagation Review Root cause: SOURCE BAD Sources checked: GO:0016303 SOURCE BAD The original WITH/FROM explicitly supplies GO:0016303. Its lipid substrate assignment fails the original protein-substrate assay check; GO0108 faithfully propagates that unsupported source chemistry. |
| GO:0036289 peptidyl-serine autophosphorylation | IMP PMID:24550317 PARP1-dependent recruitment of KDM4D histone demethylase to ... | ACCEPT | Summary: Retain supported peptidyl-serine autophosphorylation. Reason: Retain ATM serine autophosphorylation with independent direct autophosphosite evidence; the exact source-specific KDM4D assay was read only at abstract level. |
| GO:0042594 response to starvation | IC PMID:37943659 ATM-CHK2-TRIM32 axis regulates ATG7 ubiquitination to initia... | UNDECIDED | Summary: The source-specific response to starvation assertion remains unresolved. Reason: The actual cached abstract establishes ROS-driven ATM/CHK2/TRIM32/ATG7 signaling and autophagy, but does not resolve the starvation-specific condition. The IC source-specific stimulus requires further original-text inspection. Supporting Evidence: |
| GO:0042770 signal transduction in response to DNA damage | IDA PMID:26774286 FBXW7 Facilitates Nonhomologous End-Joining via K63-Linked P... | ACCEPT | Summary: Retain supported signal transduction in response to DNA damage. Reason: ATM phosphorylation-dependent FBXW7 recruitment provides a specific damage-signaling step. Supporting Evidence: |
| GO:0042770 signal transduction in response to DNA damage | IMP PMID:27664052 Molecular and Functional Characterization of a Cohort of Spa... | ACCEPT | Summary: Retain supported signal transduction in response to DNA damage. Reason: The target mutation/functional study supports loss of ATM damage signaling. Independent substrate experiments establish that ATM performs signaling rather than merely marking damage. |
| GO:0042802 identical protein binding | IPI PMID:15790808 ATM activation by DNA double-strand breaks through the Mre11... | KEEP AS NON CORE | Summary: Retain identical protein binding as a contextual function or association. Reason: The source addresses ATM self-association/activation. Retain the physical self-association as regulatory context; later active-dimer data preclude a universal active-monomer simplification. |
| GO:0042981 regulation of apoptotic process | TAS Reactome:R-HSA-5633008 | KEEP AS NON CORE | Summary: Retain regulation of apoptotic process as a contextual function or association. Reason: The pathway summary concerns p53-regulated cell death. Retain ATM upstream signaling as contextual apoptosis regulation; it does not make ATM a transcription factor or death-receptor protease. |
| GO:0043065 positive regulation of apoptotic process | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: Retain positive regulation of apoptotic process as a contextual function or association. Reason: ATM-dependent stress signaling can promote apoptosis, but the broad outcome is retained as context of the kinase rather than a second molecular-function core. |
| GO:0043065 positive regulation of apoptotic process | IMP PMID:17875758 ATM, CTLA4, MNDA, and HEM1 in high versus low CD38 expressin... | UNDECIDED | Summary: The source-specific positive regulation of apoptotic process assertion remains unresolved. Reason: The cached CLL/HEM1 abstract does not resolve the ATM-specific apoptotic perturbation supporting this row. Keep the experimental assertion uncertain without alleging a gene-name error. Supporting Evidence: |
| GO:0043517 positive regulation of DNA damage response, signal transduction by p53 class mediator | IMP PMID:9733515 Activation of the ATM kinase by ionizing radiation and phosp... | ACCEPT | Summary: Retain supported positive regulation of DNA damage response, signal transduction by p53 class mediator. Reason: ATM phosphorylation of p53 Ser15 promotes the DNA-damage p53 pathway. This is direct signaling upstream of p53, not ATM sequence-specific DNA binding. Supporting Evidence: |
| GO:0044877 protein-containing complex binding | IDA PMID:15790808 ATM activation by DNA double-strand breaks through the Mre11... | KEEP AS NON CORE | Summary: Retain protein-containing complex binding as a contextual function or association. Reason: MRN association/activation supplies a meaningful complex-interaction context for ATM. The generic complex-binding term is retained non-core rather than converted into an unsupported new molecular function. Supporting Evidence: |
| GO:0045785 positive regulation of cell adhesion | IEA GO_REF:0000107 | UNDECIDED | Summary: The source-specific positive regulation of cell adhesion assertion remains unresolved. Reason: The specific cell-adhesion donor experiment and its target applicability remain unread; retain source uncertainty rather than infer the phenotype from general ATM signaling. Supporting Evidence: GO_REF:0000107 |
| GO:0045785 positive regulation of cell adhesion | ISS GO_REF:0000024 | UNDECIDED | Summary: The source-specific positive regulation of cell adhesion assertion remains unresolved. Reason: The specific cell-adhesion donor experiment and its target applicability remain unread; retain source uncertainty rather than infer the phenotype from general ATM signaling. Supporting Evidence: GO_REF:0000024 |
| GO:0045944 positive regulation of transcription by RNA polymerase II | IEA GO_REF:0000107 | KEEP AS NON CORE | Summary: Retain positive regulation of transcription by RNA polymerase II as a contextual function or association. Reason: ATM can enhance p53-linked transcription through protein phosphorylation and cofactor regulation; this does not make ATM a DNA-binding transcription factor. |
| GO:0045944 positive regulation of transcription by RNA polymerase II | ISS GO_REF:0000024 | KEEP AS NON CORE | Summary: Retain positive regulation of transcription by RNA polymerase II as a contextual function or association. Reason: The ISS transcription-regulation assertion has compatible human signaling/cofactor evidence; the specific mouse donor assay is not claimed read. |
| GO:0046777 protein autophosphorylation | IMP PMID:27664052 Molecular and Functional Characterization of a Cohort of Spa... | ACCEPT | Summary: Retain supported protein autophosphorylation. Reason: Retain the target experimental autophosphorylation assertion with corroboration from direct ATM autophosphosite/mutant work. |
| GO:0050821 protein stabilization | IDA PMID:19412162 F-box protein FBXO31 mediates cyclin D1 degradation to induc... | KEEP AS NON CORE | Summary: Retain protein stabilization as a contextual function or association. Reason: ATM phosphorylation stabilizes FBXO31 in the damage-response context. Retain this specific regulatory effect rather than a generic protein-stabilizer core. Supporting Evidence: |
| GO:0051726 regulation of cell cycle | IMP PMID:15149599 Telomere shortening triggers senescence of human cells throu... | ACCEPT | Summary: Retain supported regulation of cell cycle. Reason: The fibroblast study establishes persistent ATM-dependent damage signaling associated with cell-cycle arrest. This supports cell-cycle regulation while leaving its separately annotated G2 checkpoint mechanism uncertain. Supporting Evidence: |
| GO:0071044 histone mRNA catabolic process | IDA PMID:16086026 Regulated degradation of replication-dependent histone mRNAs... | UNDECIDED | Summary: The source-specific histone mRNA catabolic process assertion remains unresolved. Reason: The abstract foregrounds ATR and UPF1 in histone-mRNA decay, but this is not evidence that ATM was absent from the full study. The actual ATM assay remains unverified. Supporting Evidence: |
| GO:0071300 cellular response to retinoic acid | IEA GO_REF:0000107 | UNDECIDED | Summary: The source-specific cellular response to retinoic acid assertion remains unresolved. Reason: The retinoic-acid donor assay and its human transfer remain unread. General stress-response evidence does not settle this stimulus-specific annotation. Supporting Evidence: GO_REF:0000107 |
| GO:0071300 cellular response to retinoic acid | ISS GO_REF:0000024 | UNDECIDED | Summary: The source-specific cellular response to retinoic acid assertion remains unresolved. Reason: The retinoic-acid donor assay and its human transfer remain unread. General stress-response evidence does not settle this stimulus-specific annotation. Supporting Evidence: GO_REF:0000024 |
| GO:0071480 cellular response to gamma radiation | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported cellular response to gamma radiation. Reason: Human ATM-dependent response to irradiation is directly established and agrees with PTN001673310. The short donor list containing targetQ13315 is expected descendant grounding, not a circular transfer. |
| GO:0071480 cellular response to gamma radiation | IDA PMID:16213212 Regulation of p53 translation and induction after DNA damage... | ACCEPT | Summary: Retain supported cellular response to gamma radiation. Reason: Human ATM gamma-radiation signaling is independently directly established. Defer to the experimental curator for the unread exact assay in the RPL26/nucleolin-focused source. |
| GO:0071480 cellular response to gamma radiation | IDA PMID:9925639 A role for ATR in the DNA damage-induced phosphorylation of ... | ACCEPT | Summary: Retain supported cellular response to gamma radiation. Reason: Human ATM gamma-radiation signaling is independently established. An ATR-focused title/abstract is not evidence that the ATM experiment was misattributed; retain with explicit source-assay limits. |
| GO:0071481 cellular response to X-ray | IDA PMID:26323318 NUCKS1 is a novel RAD51AP1 paralog important for homologous ... | ACCEPT | Summary: Accept the experimentally supported ATM-dependent response to X-rays. Reason: The cached Results and Figure 2C caption explicitly report ATM-dependent NUCKS1 Ser54 phosphorylation in human HeLa cells after 4 Gy X-rays. The inhibitor Methods distinguish ATM inhibitor KU60019 from DNA-PK inhibitor NU7026. This is direct cellular evidence for ATM participation in the X-ray response, despite the NUCKS1-focused title; no purified ATM-to-NUCKS1 assay is inferred. Supporting Evidence: PMID:26323318 phosphorylation of NUCKS1 at Ser54 was dependent on ATM, independent of DNA-PK |
| GO:0071500 cellular response to nitrosative stress | IDA PMID:23878245 Reactive nitrogen species regulate autophagy through ATM-AMP... | KEEP AS NON CORE | Summary: Retain cellular response to nitrosative stress as a contextual function or association. Reason: The NO-triggered ATM/LKB1/AMPK/TSC2 pathway supports a mechanistic nitrosative-stress response, retained as context of the kinase. Supporting Evidence: |
| GO:0080135 regulation of cellular response to stress | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: Retain regulation of cellular response to stress as a contextual function or association. Reason: The broad stress-regulation assertion is supported by oxidative/nitrosative ATM signaling but adds contextual scope rather than a separate core. |
| GO:0090398 cellular senescence | TAS Reactome:R-HSA-2559583 | KEEP AS NON CORE | Summary: Retain cellular senescence as a contextual function or association. Reason: The summary describes damage/telomere-associated senescence. Target fibroblast ATM signaling supports the contextual cell-state outcome, not a separate molecular-function core. |
| GO:0090399 replicative senescence | IMP PMID:15149599 Telomere shortening triggers senescence of human cells throu... | KEEP AS NON CORE | Summary: Retain replicative senescence as a contextual function or association. Reason: Persistent ATM-dependent signaling from damaged/short telomeres contributes to replicative senescence; this cell-state outcome is contextual, not a separate enzymatic core. Supporting Evidence: |
| GO:0097694 establishment of RNA localization to telomere | IMP PMID:26586433 ATM and ATR Signaling Regulate the Recruitment of Human Telo... | KEEP AS NON CORE | Summary: Retain establishment of RNA localization to telomere as a contextual function or association. Reason: ATM/ATR-dependent telomerase-RNA recruitment to telomeres is supported in the source. Retain the localization-regulatory consequence without assigning ATM an RNA transport motor activity. Supporting Evidence: |
| GO:0097695 establishment of protein-containing complex localization to telomere | IMP PMID:26586433 ATM and ATR Signaling Regulate the Recruitment of Human Telo... | KEEP AS NON CORE | Summary: Retain establishment of protein-containing complex localization to telomere as a contextual function or association. Reason: The telomerase recruitment study supports a context-specific role in complex localization; ATM is an upstream signaling kinase, not a constitutive telomerase subunit. Supporting Evidence: |
| GO:0098850 extrinsic component of synaptic vesicle membrane | IEA GO_REF:0000107 | UNDECIDED | Summary: The source-specific extrinsic component of synaptic vesicle membrane assertion remains unresolved. Reason: The exact neuronal/synaptic-vesicle donor localization and topology assay remain unread; generic cytoplasmic vesicles do not establish this specialized compartment. Supporting Evidence: GO_REF:0000107 |
| GO:0106310 protein serine kinase activity | EXP PMID:15448695 A new effector pathway links ATM kinase with the DNA damage ... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: ATM phosphorylation regulates nuclear accumulation/stability of STRAP/TTC5 in p53 signaling. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:15790808 ATM activation by DNA double-strand breaks through the Mre11... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: MRN and damaged DNA activate ATM-dependent phosphorylation of protein substrates; activation conditions do not change the protein-substrate chemistry. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:16858402 Involvement of novel autophosphorylation sites in ATM activa... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: ATM autophosphorylation sites and mutant functional defects support serine-directed protein kinase activity. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:26240375 ATM-dependent phosphorylation of MRE11 controls extent of re... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: MRE11 serine-site phosphorylation supports the serine-specific component of the broader ATM protein kinase activity. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:26344566 ATM functions at the peroxisome to induce pexophagy in respo... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: ATM kinase activity is a defining molecular function. This paper supports serine-directed PEX5 phosphorylation in cells and assays ATM activity against GST-p53; the broader serine/threonine term remains biologically sound. Do not describe a purified ATM-to-PEX5 reconstitution from the Methods read. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:28508083 Structures of closed and open conformations of dimeric human... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: Purified human ATM phosphorylates full-length human p53 in a controlled kinase assay. Active dimeric ATM is observed; do not claim that every active ATM must be monomeric. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:30171069 The SCF(FBXO46) ubiquitin ligase complex mediates degradatio... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: FBXO31/FBXO46 serine-site phosphorylation supports the serine-specific component of ATM kinase activity. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:30886146 UFL1 promotes histone H4 ufmylation and ATM activation. | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: ATM-dependent UFL1 Ser462 phosphorylation supports serine kinase activity; selected actual Results were read. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:30952868 Pellino1 regulates reversible ATM activation via NBS1 ubiqui... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: Pellino1 phosphorylation supports ATM serine kinase activity in a signaling feedback loop. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:38128537 Metabolic regulation of homologous recombination repair by M... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: CBP phosphorylation in the damage-induced MRE11 lactylation pathway supports ATM serine kinase activity. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:8988033 ATM gene product phosphorylates I kappa B-alpha. | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: ATM immunoprecipitates phosphorylate I-kappa-B-alpha in the reported assay; broader protein-serine kinase support is consistent with the experimental annotation. The paper does not support a lipid-kinase core. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | EXP PMID:9843217 ATM associates with and phosphorylates p53: mapping the regi... | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: The source establishes p53 Ser15 phosphorylation and ATM restoration in A-T cells, supporting protein serine kinase activity. Supporting Evidence: |
| GO:0106310 protein serine kinase activity | IEA GO_REF:0000120 | ACCEPT | Summary: Retain supported protein serine kinase activity. Reason: The RHEA/ARBA inference is consistent with directly observed protein-serine phosphorylation by ATM. |
| GO:1900034 regulation of cellular response to heat | TAS Reactome:R-HSA-3371453 | UNDECIDED | Summary: The source-specific regulation of cellular response to heat assertion remains unresolved. Reason: The available summary describes HSF1 regulation but does not resolve the precise ATM reaction or heat-response experiment. Do not assign an unread participant role from pathway proximity. Supporting Evidence: Reactome:R-HSA-3371453 |
| GO:1901701 cellular response to oxygen-containing compound | IEA GO_REF:0000117 | KEEP AS NON CORE | Summary: Retain cellular response to oxygen-containing compound as a contextual function or association. Reason: ROS and nitric-oxide signaling substantiate this broad oxygen-containing-compound response as a stress context. |
| GO:1901796 regulation of signal transduction by p53 class mediator | TAS Reactome:R-HSA-6804756 | ACCEPT | Summary: Retain supported regulation of signal transduction by p53 class mediator. Reason: The complete summary explicitly assigns ATM p53 Ser15 phosphorylation after DSBs; keep other kinase sites and stimuli separate. |
| GO:1901796 regulation of signal transduction by p53 class mediator | TAS Reactome:R-HSA-6804760 | ACCEPT | Summary: Retain supported regulation of signal transduction by p53 class mediator. Reason: The summary places ATM upstream of a TTC5/JMY/EP300/PRMT5 complex that regulates p53. Retain signaling regulation without assigning ATM PRMT5 methyltransferase activity. |
| GO:1901796 regulation of signal transduction by p53 class mediator | TAS Reactome:R-HSA-6806003 | ACCEPT | Summary: Retain supported regulation of signal transduction by p53 class mediator. Reason: The summary describes phosphorylation-dependent p53 stabilization. ATM participates through kinase signaling; MDM2 and other partners retain ubiquitin-ligase/deubiquitinase activities. |
| GO:1904262 negative regulation of TORC1 signaling | IBA GO_REF:0000033 | KEEP AS NON CORE | Summary: Retain negative regulation of TORC1 signaling as a contextual function or association. Reason: ATM participates in the stress-induced LKB1/AMPK/TSC2 pathway that suppresses TORC1. Retain this context without assigning ATM direct TORC1 catalysis or a separate defining core. |
| GO:1904262 negative regulation of TORC1 signaling | IEA GO_REF:0000120 | KEEP AS NON CORE | Summary: Retain negative regulation of TORC1 signaling as a contextual function or association. Reason: Target ATM/LKB1/AMPK/TSC2 signaling supports stress-dependent inhibition of TORC1, not direct ATM inhibition by binding TORC1. |
| GO:1904262 negative regulation of TORC1 signaling | IMP PMID:23878245 Reactive nitrogen species regulate autophagy through ATM-AMP... | KEEP AS NON CORE | Summary: Retain negative regulation of TORC1 signaling as a contextual function or association. Reason: The measured ATM/LKB1/AMPK/TSC2 response suppresses TORC1 during nitrosative stress. Retain the mechanism as non-core signaling context. Supporting Evidence: |
| GO:1904354 negative regulation of telomere capping | IMP PMID:17694070 MRE11-RAD50-NBS1 and ATM function as co-mediators of TRF1 in... | UNDECIDED | Summary: The source-specific negative regulation of telomere capping assertion remains unresolved. Reason: The source abstract establishes TRF1 phosphorylation/release and telomerase access. The exact end-protection/capping assay and its distinction from telomerase access remain unread; the official negative-capping definition does not equate the two. Supporting Evidence: |
| GO:1904358 positive regulation of telomere maintenance via telomere lengthening | IBA GO_REF:0000033 | ACCEPT | Summary: Retain supported positive regulation of telomere maintenance via telomere lengthening. Reason: Target human telomere/telomerase experiments support the inherited positive telomere-lengthening role. Target Q13315 in the descendant evidence is legitimate, not circular. |
| GO:1904358 positive regulation of telomere maintenance via telomere lengthening | IEA GO_REF:0000117 | ACCEPT | Summary: Retain supported positive regulation of telomere maintenance via telomere lengthening. Reason: The electronic elongation assertion agrees with target telomere/telomerase experiments. |
| GO:1904358 positive regulation of telomere maintenance via telomere lengthening | IMP PMID:17694070 MRE11-RAD50-NBS1 and ATM function as co-mediators of TRF1 in... | ACCEPT | Summary: Retain supported positive regulation of telomere maintenance via telomere lengthening. Reason: ATM-mediated TRF1 regulation at human telomeres supports positive telomere elongation in the source; ATM does not catalyze telomeric DNA synthesis. Supporting Evidence: |
| GO:1904358 positive regulation of telomere maintenance via telomere lengthening | IMP PMID:26586427 ATM Kinase Is Required for Telomere Elongation in Mouse and ... | ACCEPT | Summary: Retain supported positive regulation of telomere maintenance via telomere lengthening. Reason: The source distinguishes its mouse ADDIT assay from human telomere elongation experiments and supports ATM-dependent lengthening in both contexts. Retain the human annotation without conflating assay species. Supporting Evidence: |
| GO:1904884 positive regulation of telomerase catalytic core complex assembly | IMP PMID:26586433 ATM and ATR Signaling Regulate the Recruitment of Human Telo... | KEEP AS NON CORE | Summary: Retain positive regulation of telomerase catalytic core complex assembly as a contextual function or association. Reason: ATM/ATR signaling promotes telomerase complex assembly/recruitment in the source. Retain the regulatory context without treating ATM as the catalytic telomerase component. Supporting Evidence: |
| GO:1905168 positive regulation of double-strand break repair via homologous recombination | IDA PMID:27941124 A phosphorylation-deubiquitination cascade regulates the BRC... | ACCEPT | Summary: Retain supported positive regulation of double-strand break repair via homologous recombination. Reason: ATM activates UCHL3-dependent RAD51 regulation, supplying a biochemical regulatory step in homologous-recombination repair. The deubiquitinase activity belongs to UCHL3. Supporting Evidence: |
| GO:1990391 DNA repair complex | IDA PMID:24217620 The histone demethylase LSD1/KDM1A promotes the DNA damage r... | ACCEPT | Summary: Accept the curated DNA-repair-complex assignment with damage-site recruitment evidence. Reason: Retain the curator-assigned DNA repair complex annotation by explicit curator deference and the established ATM repair context. Cached Results corroborate ATM recruitment to I-PpoI-induced rDNA breaks by ChIP, with a negative IgG control. This recruitment assay alone does not establish complex composition or a constitutive ATM-LSD1 complex; no such stronger claim is made. The paper separately finds LSD1 recruitment independent of ATM signaling. Supporting Evidence: PMID:24217620 I-PpoIβinduced DSBs also recruited ATM to rDNA repeats |
| GO:2000781 positive regulation of double-strand break repair | IMP PMID:15790808 ATM activation by DNA double-strand breaks through the Mre11... | ACCEPT | Summary: Retain supported positive regulation of double-strand break repair. Reason: MRN/DNA-dependent ATM activation and downstream substrate phosphorylation supply an executing signaling contribution that promotes DSB repair. Supporting Evidence: |
| GO:2000785 regulation of autophagosome assembly | IC PMID:37943659 ATM-CHK2-TRIM32 axis regulates ATG7 ubiquitination to initia... | KEEP AS NON CORE | Summary: Retain regulation of autophagosome assembly as a contextual function or association. Reason: The ATM/CHK2/TRIM32/ATG7 signaling mechanism supports regulation of autophagosome assembly as an oxidative-stress context, not an independent ATM membrane-assembly activity. Supporting Evidence: |
| GO:2000786 positive regulation of autophagosome assembly | IDA PMID:37943659 ATM-CHK2-TRIM32 axis regulates ATG7 ubiquitination to initia... | KEEP AS NON CORE | Summary: Retain positive regulation of autophagosome assembly as a contextual function or association. Reason: The source supports the positive autophagosome-assembly consequence of the ATM/CHK2/TRIM32/ATG7 axis. Retain the specific experimentally annotated context without proposing new process coverage. Supporting Evidence: |
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Download this section (compressed HTML)Q: Which exact source experiments resolve the remaining ATM interaction pairs, constructs and genotypes, rather than only corroborating a known interaction elsewhere?
Q: Can the proteinase-accessible peroxisomal surface localization be reconciled with the current UniProt SL-0202 and Reactome matrix placements?
Q: What original evidence led to the lipid-kinase assignment from PMID:11375976, given its protein substrates and the dependent GO0108 PI3P inference?
Q: Which specialized donor or source assays support centrosome, spindle, synaptic-vesicle topology, meiotic and B-cell annotations that remain uncertain?
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