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References from Ubiquitin chain editing promotes p97/VCP-dependent removal of RPA from DNA. Local targets link to admitted publications; unresolved targets remain external evidence.
The DNA-damage response in human biology and disease
10.1038/nature08467 · 2009 · External reference
Targeting DNA damage response pathways in cancer
10.1038/s41568-022-00535-5 · 2023 · External reference
The DNA damage response: making it safe to play with knives
10.1016/j.molcel.2010.09.019 · 2010 · External reference
The central role of DNA damage in the ageing process
10.1038/s41586-021-03307-7 · 2021 · External reference
DNA repair defects in cancer and therapeutic opportunities
10.1101/gad.349431.122 · 2022 · External reference
A Genetic Map of the Response to DNA Damage in Human Cells
10.1016/j.cell.2020.05.040 · 2020 · External reference
Dynamic elements of replication protein A at the crossroads of DNA replication, recombination, and repair
10.1080/10409238.2020.1813070 · 2020 · External reference
Replication protein A: single-stranded DNA's first responder: dynamic DNA-interactions allow replication protein A to direct single-strand DNA intermediates into different pathways for synthesis or repair
10.1002/bies.201400107 · 2014 · External reference
RPA-coated single-stranded DNA as a platform for post-translational modifications in the DNA damage response
10.1038/cr.2014.147 · 2015 · External reference
Ubiquitylation at Stressed Replication Forks: Mechanisms and Functions
10.1016/j.tcb.2021.01.008 · 2021 · External reference
The ubiquitin code
10.1146/annurev-biochem-060310-170328 · 2012 · External reference
An expanded lexicon for the ubiquitin code
10.1038/s41580-022-00543-1 · 2023 · External reference
Regulation of PCNA-protein interactions for genome stability
10.1038/nrm3562 · 2013 · External reference
Structural insights of the p97/VCP AAA+ ATPase: How adapter interactions coordinate diverse cellular functionality
10.1016/j.jbc.2023.105182 · 2023 · External reference
Targeting of client proteins to the VCP/p97/Cdc48 unfolding machine
10.3389/fmolb.2023.1142989 · 2023 · External reference
Inhibitors of the ATPase p97/VCP: From basic research to clinical applications
10.1016/j.chembiol.2022.12.007 · 2023 · External reference
The AAA+ ATPase p97, a cellular multitool
10.1042/bcj20160783 · 2017 · External reference
VCP/p97-Mediated Unfolding as a Principle in Protein Homeostasis and Signaling
10.1016/j.molcel.2017.10.028 · 2018 · External reference
Cooperative assembly of p97 complexes involved in replication termination
10.1038/s41467-022-34210-y · 2022 · External reference
The role of ubiquitin-dependent segregase p97 (VCP or Cdc48) in chromatin dynamics after DNA double strand breaks
10.1098/rstb.2016.0282 · 2017 · External reference
Strategic role of the ubiquitin-dependent segregase p97 (VCP or Cdc48) in DNA replication
10.1007/s00412-016-0587-4 · 2017 · External reference
The p97–Ataxin 3 complex regulates homeostasis of the DNA damage response E3 ubiquitin ligase RNF8
10.15252/embj.2019102361 · 2019 · External reference
Substrate processing by the Cdc48 ATPase complex is initiated by ubiquitin unfolding
10.1126/science.aax1033 · 2019 · External reference
Translocation of polyubiquitinated protein substrates by the hexameric Cdc48 ATPase
10.1016/j.molcel.2021.11.033 · 2022 · External reference
Mechanisms and regulation of substrate degradation by the 26S proteasome
10.1038/s41580-024-00778-0 · 2025 · External reference
RFWD3-Dependent Ubiquitination of RPA Regulates Repair at Stalled Replication Forks
10.1016/j.molcel.2015.09.011 · 2015 · External reference
RFWD3-Mediated Ubiquitination Promotes Timely Removal of Both RPA and RAD51 from DNA Damage Sites to Facilitate Homologous Recombination
10.1016/j.molcel.2017.04.022 · 2017 · External reference
RPA-Mediated Recruitment of the E3 Ligase RFWD3 Is Vital for Interstrand Crosslink Repair and Human Health
10.1016/j.molcel.2017.04.021 · 2017 · External reference
Discovery and Characterization of ZUFSP/ZUP1, a Distinct Deubiquitinase Class Important for Genome Stability
10.1016/j.molcel.2018.02.023 · 2018 · External reference
Reactive-site-centric chemoproteomics identifies a distinct class of deubiquitinase enzymes
10.1038/s41467-018-03511-6 · 2018 · External reference
A family of unconventional deubiquitinases with modular chain specificity determinants
10.1038/s41467-018-03148-5 · 2018 · External reference
ZUFSP Deubiquitylates K63-Linked Polyubiquitin Chains to Promote Genome Stability
10.1016/j.molcel.2018.02.024 · 2018 · External reference
Deubiquitinases: From mechanisms to their inhibition by small molecules
10.1016/j.molcel.2021.10.027 · 2022 · External reference
Structural characterization of human RPA70N association with DNA damage response proteins
10.7554/elife.81639 · 2023 · External reference
Replication protein A: a multifunctional protein with roles in DNA replication, repair and beyond
10.1093/narcan/zcaa022 · 2020 · External reference
Replication protein A: a heterotrimeric, single-stranded DNA-binding protein required for eukaryotic DNA metabolism
10.1146/annurev.biochem.66.1.61 · 1997 · External reference
The BioGRID database: A comprehensive biomedical resource of curated protein, genetic, and chemical interactions
10.1002/pro.3978 · 2021 · External reference
VCP/p97-associated proteins are binders and debranching enzymes of K48–K63-branched ubiquitin chains
10.1038/s41594-024-01354-y · 2024 · External reference
Structure and Catalytic Regulatory Function of Ubiquitin Specific Protease 11 N-Terminal and Ubiquitin-like Domains
10.1021/bi500116x · 2014 · External reference
PrimPol-mediated repriming facilitates replication traverse of DNA interstrand crosslinks
10.15252/embj.2020106355 · 2021 · External reference
Mechanisms of Vertebrate DNA Interstrand Cross-Link Repair
10.1146/annurev-biochem-080320-112510 · 2021 · External reference
The DNA translocase FANCM/MHF promotes replication traverse of DNA interstrand crosslinks
10.1016/j.molcel.2013.09.021 · 2013 · External reference
Repair of genomic interstrand crosslinks
10.1016/j.dnarep.2024.103739 · 2024 · External reference
ATR prohibits replication catastrophe by preventing global exhaustion of RPA
10.1016/j.cell.2013.10.043 · 2013 · External reference
Ubiquitin-SUMO circuitry controls activated fanconi anemia ID complex dosage in response to DNA damage
10.1016/j.molcel.2014.12.001 · 2015 · External reference
Replication Fork Reversal during DNA Interstrand Crosslink Repair Requires CMG Unloading
10.1016/j.celrep.2018.05.061 · 2018 · External reference
TopBP1 activates the ATR-ATRIP complex
10.1016/j.cell.2005.12.041 · 2006 · External reference
Activation of the ATR kinase by the RPA-binding protein ETAA1
10.1038/ncb3422 · 2016 · External reference
ETAA1 acts at stalled replication forks to maintain genome integrity
10.1038/ncb3415 · 2016 · External reference
Structure and Function of the AAA+ ATPase p97, a Key Player in Protein Homeostasis
2019 · External reference
The accessory adapters FAF1, FAF2, and UBXN7 accelerate proteasomal degradation by increasing prior p97-mediated substrate unfolding
10.1126/sciadv.aea7381 · 2026 · External reference
Chromatin-associated degradation is defined by UBXN-3/FAF1 to safeguard DNA replication fork progression
2016 · External reference
Assembly and disassembly of branched ubiquitin chains
10.3389/fmolb.2023.1197272 · 2023 · External reference
Enhanced protein degradation by branched ubiquitin chains
10.1016/j.cell.2014.03.037 · 2014 · External reference
Assembly and Function of Heterotypic Ubiquitin Chains in Cell-Cycle and Protein Quality Control
10.1016/j.cell.2017.09.040 · 2017 · External reference
K48- and K63-linked ubiquitin chain interactome reveals branch- and length-specific ubiquitin interactors
10.26508/lsa.202402740 · 2024 · External reference
Assembly and function of branched ubiquitin chains
10.1016/j.tibs.2022.04.003 · 2022 · External reference
The deubiquitinating enzyme Otu1 releases substrates from the conserved initiation complex of the Cdc48/p97 ATPase for proteasomal degradation
2026 · External reference
The ubiquitin-dependent ATPase p97 removes cytotoxic trapped PARP1 from chromatin
10.1038/s41556-021-00807-6 · 2022 · External reference
RPA and XPA interaction with DNA structures mimicking intermediates of the late stages in nucleotide excision repair
10.1371/journal.pone.0190782 · 2018 · External reference
Recombinant replication protein A: expression, complex formation, and functional characterization
10.1016/s0021-9258(19)78100-9 · 1994 · External reference
Assembly and specific recognition of k29- and k33-linked polyubiquitin
10.1016/j.molcel.2015.01.042 · 2015 · External reference
AP-SWATH Reveals Direct Involvement of VCP/p97 in Integrated Stress Response Signaling Through Facilitating CReP/PPP1R15B Degradation
10.1074/mcp.ra117.000471 · 2018 · External reference
Genome engineering using the CRISPR-Cas9 system
10.1038/nprot.2013.143 · 2013 · External reference
A CRISPR Dropout Screen Identifies Genetic Vulnerabilities and Therapeutic Targets in Acute Myeloid Leukemia
10.1016/j.celrep.2016.09.079 · 2016 · External reference
Improved vectors and genome-wide libraries for CRISPR screening
10.1038/nmeth.3047 · 2014 · External reference
Evaluation and Design of Genome-Wide CRISPR/SpCas9 Knockout Screens
10.1534/g3.117.041277 · 2017 · External reference
Fiji: an open-source platform for biological-image analysis
10.1038/nmeth.2019 · 2012 · External reference
OpenCFU, a New Free and Open-Source Software to Count Cell Colonies and Other Circular Objects
10.1371/journal.pone.0054072 · 2013 · External reference
Cutadapt removes adapter sequences from high-throughput sequencing reads
10.14806/ej.17.1.200 · 2011 · External reference
MAGeCK enables robust identification of essential genes from genome-scale CRISPR/Cas9 knockout screens
10.1186/s13059-014-0554-4 · 2014 · External reference
Identifying chemogenetic interactions from CRISPR screens with drugZ
10.1186/s13073-019-0665-3 · 2019 · External reference
MaxQuant enables high peptide identification rates, individualized p.p.b.-range mass accuracies and proteome-wide protein quantification
10.1038/nbt.1511 · 2008 · External reference
The Perseus computational platform for comprehensive analysis of (prote)omics data
10.1038/nmeth.3901 · 2016 · External reference
A high-speed search engine pLink 2 with systematic evaluation for proteome-scale identification of cross-linked peptides
10.1038/s41467-019-11337-z · 2019 · External reference
xVis: a web server for the schematic visualization and interpretation of crosslink-derived spatial restraints
10.1093/nar/gkv463 · 2015 · External reference
UCSF ChimeraX: Structure visualization for researchers, educators, and developers
10.1002/pro.3943 · 2021 · External reference
AlphaFold Protein Structure Database: massively expanding the structural coverage of protein-sequence space with high-accuracy models
10.1093/nar/gkab1061 · 2022 · External reference
Highly accurate protein structure prediction with AlphaFold
10.1038/s41586-021-03819-2 · 2021 · External reference
ColabFold: making protein folding accessible to all
10.1038/s41592-022-01488-1 · 2022 · External reference
Accurate structure prediction of biomolecular interactions with AlphaFold 3
10.1038/s41586-024-07487-w · 2024 · External reference
CHOPCHOP v3: expanding the CRISPR web toolbox beyond genome editing
10.1093/nar/gkz365 · 2019 · External reference
CRISPOR: intuitive guide selection for CRISPR/Cas9 genome editing experiments and screens
10.1093/nar/gky354 · 2018 · External reference
Optimized sgRNA design to maximize activity and minimize off-target effects of CRISPR-Cas9
10.1038/nbt.3437 · 2016 · External reference
HPF1/C4orf27 Is a PARP-1-Interacting Protein that Regulates PARP-1 ADP-Ribosylation Activity
10.1016/j.molcel.2016.03.008 · 2016 · External reference
Genome-scale chemogenomic CRISPR screens in human cells using the TKOv3 library
10.1016/j.xpro.2021.100321 · 2021 · External reference
Enzymatic Assembly of Ubiquitin Chains
10.1007/978-1-4939-8706-1_6 · 2018 · External reference
Deubiquitinase-based analysis of ubiquitin chain architecture using Ubiquitin Chain Restriction (UbiCRest)
10.1038/nprot.2015.018 · 2015 · External reference
Quantifying Protein-Protein Interactions by Molecular Counting with Mass Photometry
10.1002/anie.202001578 · 2020 · External reference
Evaluating enzyme activities and structures of DUBs
10.1016/bs.mie.2019.01.001 · 2019 · External reference
UCSF ChimeraX: Tools for structure building and analysis
10.1002/pro.4792 · 2023 · External reference
Modelling protein complexes with crosslinking mass spectrometry and deep learning
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Accurate proteome-wide missense variant effect prediction with AlphaMissense
10.1126/science.adg7492 · 2023 · External reference
Database resources of the National Center for Biotechnology Information
10.1093/nar/gkad1044 · 2024 · External reference
Fast and accurate protein structure search with Foldseek
10.1038/s41587-023-01773-0 · 2024 · External reference
Jalview Version 2—a multiple sequence alignment editor and analysis workbench
10.1093/bioinformatics/btp033 · 2009 · External reference
Deciphering key features in protein structures with the new ENDscript server
10.1093/nar/gku316 · 2014 · External reference
SCAI promotes error-free repair of DNA interstrand crosslinks via the Fanconi anemia pathway
10.15252/embr.202153639 · 2022 · External reference