| 2019 |
TRAIP is an E3 ubiquitin ligase that ubiquitylates the CMG replicative helicase (CDC45-MCM2-7-GINS) when two replisomes converge at a DNA interstrand crosslink (ICL). Short ubiquitin chains on CMG recruit NEIL3 glycosylase (which can directly cleave the crosslink), whereas longer ubiquitin chains trigger CMG unloading by the p97 ATPase, enabling the Fanconi anaemia pathway. TRAIP thereby controls the choice between the two known pathways of replication-coupled ICL repair. |
Xenopus egg extract reconstitution; biochemical fractionation; ubiquitin chain-length analysis; NEIL3 binding assays; p97 inhibition; epistasis with Fanconi anaemia pathway mutants |
Nature |
High |
30842657
|
| 2019 |
TRAIP ubiquitin ligase drives replisome disassembly in response to incomplete DNA replication in mitosis (mitotic replisome disassembly), providing access to replication forks for other factors; TRAIP is also essential for mitotic DNA repair synthesis (MiDAS) in human cells, and its loss causes mitotic segregation errors. |
C. elegans embryo genetics; human cell knockdown; epistasis analysis; live imaging of chromosome segregation errors |
eLife |
High |
31545170
|
| 2019 |
In Xenopus egg extracts, mitotic replisome disassembly depends on TRAIP-mediated formation of K6- and K63-linked ubiquitin chains on MCM7, followed by p97/VCP-dependent extraction. This pathway does not require SUMO modifications (unlike lower eukaryotes) and can remove all replisomes from mitotic chromatin, including stalled ones. |
Xenopus egg extract; ubiquitin linkage-specific analysis; p97 inhibition; SUMO pathway manipulation |
Life science alliance |
High |
30979826
|
| 2015 |
TRAIP directly interacts with PCNA via a conserved PIP box motif and localizes to active and stressed replication forks. TRAIP promotes ATR-dependent checkpoint signaling by facilitating RPA-bound single-stranded DNA generation upon replication stress; this requires both E3 ligase activity and the PIP box. Loss of TRAIP leads to chromosomal instability and reduced cell survival after replication stress. |
Co-immunoprecipitation; PIP box mutagenesis; RPA-ssDNA accumulation assays; ATR signaling readouts (Chk1 phosphorylation); clonogenic survival; chromosomal instability analysis |
The Journal of cell biology |
High |
26711499
|
| 2015 |
TRAIP (encoding an E3 RING ubiquitin ligase) relocalizes to sites of DNA damage during S-phase and is required for optimal phosphorylation of H2AX and RPA2 in response to UV irradiation, as well as for replication fork progression through UV-induced lesions. Mutations in TRAIP cause microcephalic primordial dwarfism. |
Patient genetic analysis; laser microirradiation/foci formation; H2AX and RPA2 phosphorylation assays; DNA fiber assays for fork progression; siRNA knockdown |
Nature genetics |
High |
26595769
|
| 2016 |
TRAIP is required for recruitment of RAP80 to DNA lesions; TRAIP acts upstream of RAP80 and downstream factors including BRCA1. The N-terminus of TRAIP mediates RAP80 interaction, while the C-terminus of TRAIP mediates localization to DNA damage sites through direct interaction with RNF20-RNF40. TRAIP thereby promotes homologous recombination. |
Co-immunoprecipitation; domain deletion analysis; laser microirradiation foci recruitment assays; siRNA knockdown; HR reporter assays |
Nature communications |
High |
26781088
|
| 2016 |
TRAIP encodes a nucleolar protein that migrates to stalled replication forks by targeting PCNA via an evolutionarily conserved PIP box on its C-terminus. Inactivation of TRAIP or disruption of the TRAIP-PCNA interaction compromises replication fork recovery and progression and causes chromosome instability. |
GFP-TRAIP live imaging; PIP box mutagenesis; PCNA interaction assays; DNA fiber assays; chromosomal instability analysis |
Cell discovery |
Medium |
27462463
|
| 2021 |
In mouse embryonic stem cells, TRAIP ubiquitin ligase mediates a second (mitotic) pathway of CMG helicase disassembly in addition to the S-phase CUL2LRR1-dependent pathway. Both CUL2LRR1 and TRAIP target CMG for ubiquitylation and p97-dependent disassembly, establishing that metazoan replisome disassembly is controlled by a conserved pair of ubiquitin ligases. |
Mouse embryonic stem cell genetic knockouts; chromatin fractionation; ubiquitylation assays; cell cycle staging |
EMBO reports |
High |
33590678
|
| 2014 |
TRAIP localizes near mitotic chromosomes and its knockdown decreases early mitosis progression time and increases chromosome alignment defects and lagging chromosomes. TRAIP-depleted cells bypass taxol-induced mitotic arrest and show reduced kinetochore MAD2 levels, indicating that TRAIP E3 ubiquitin ligase activity is required for spindle assembly checkpoint control. |
RNAi knockdown in HeLa cells; live-cell imaging; flow cytometry; kinetochore immunofluorescence (MAD2); taxol/nocodazole treatment; rescue with wild-type vs. ubiquitin-ligase-dead TRAIP |
Journal of cell science |
Medium |
25335891
|
| 2016 |
TRAIP is post-translationally modified by SUMOylation at five sites; SUMOylation is required for nuclear retention and protein stability of TRAIP. SUMOylation-deficient TRAIP fails to be retained in the nucleus and exhibits reduced protein stability. |
SUMOylation site mutagenesis; subcellular fractionation; immunofluorescence; protein stability assays (cycloheximide chase) |
Biochemical and biophysical research communications |
Medium |
26820530
|
| 2018 |
PRRRSV non-structural protein 1α (nsp1α) interacts with TRAIP at K205, decreases TRAIP SUMOylation and K48-linked ubiquitination, causing redistribution of TRAIP from nucleus to cytoplasm. Cytoplasmic TRAIP then promotes K48-linked ubiquitination and degradation of TBK1, antagonizing TBK1-IRF3-IFN signaling. |
Co-immunoprecipitation; site-directed mutagenesis (K205); subcellular fractionation; TBK1 ubiquitination assays; IFN signaling reporter assays |
Frontiers in immunology |
Medium |
30619364
|
| 2018 |
The TRAIP coiled-coil domain interacts with the TRAF-N domain of TRAF2 (but not TRAF1) to inhibit NF-κB signaling. The coiled-coil domain alters stoichiometry between dimer and trimer in a concentration-dependent manner, and the RING domain induces higher-ordered assembly required for TRAF2 interaction. |
In vitro binding/biochemical characterization; domain deletion and mutagenesis; size-exclusion chromatography; pull-down assays |
International journal of molecular sciences |
Medium |
30127245
|
| 2018 |
TRAIP nucleolar residence is coupled to active ribosomal DNA transcription: RNA polymerase I inhibition or rDNA damage causes TRAIP to diffuse into the nucleoplasm. PCNA binding is dispensable for nucleolus-to-nucleoplasm shuttling after UV. Pre-treatment with DNase/RNase releases TRAIP from nucleoli, suggesting sequestration via nucleic acid structures. |
RNA polymerase I inhibition (CX-5461); I-PpoI-induced rDNA damage; DNase/RNase pre-treatment; live-cell imaging; PCNA PIP-box mutant analysis; ATM/ATR inhibition |
Nucleic acids research |
Medium |
30165463
|
| 2015 |
TRAIP forms homodimers through its coiled-coil (CC) domain; expression of a CC-domain-deleted mutant that cannot homodimerize increases mitotic index and promotes mitotic progression, indicating that homodimerization is required for proper mitotic regulation. |
Co-immunoprecipitation with TRAIP deletion mutants; mitotic index measurements; flow cytometry |
Biochemical and biophysical research communications |
Medium |
26093298
|
| 2019 |
TRAIP promotes ionizing radiation-induced H2B monoubiquitination at K120; deletion of the RING domain or C-terminus of TRAIP abolishes this activity, establishing a role for TRAIP in regulating this histone mark in the DNA damage response. |
siRNA knockdown; TRAIP deletion mutants; Western blot for H2B-K120 ubiquitination after IR |
Oncology reports |
Low |
30942468
|
| 2023 |
TRAIP resolves replication-transcription conflicts specifically during S-phase; rapid TRAIP degradation in S-phase causes DNA damage at transcription start sites, G2 arrest, and cellular senescence. TRAIP's S-phase function in preventing replication-transcription conflicts is essential for cell proliferation. |
Auxin-induced degron system for rapid TRAIP degradation; cell cycle-specific depletion; γH2AX foci at transcription start sites; cell cycle analysis; senescence assays |
Nature communications |
High |
37604812
|
| 2021 |
TRAIP promotes KANK1 polyubiquitination and subsequent proteasomal degradation, which downregulates IGFBP3 and activates AKT signaling in osteosarcoma cells. |
Co-immunoprecipitation; ubiquitination assays; Western blot for KANK1, IGFBP3, and AKT pathway; siRNA knockdown and overexpression |
Cell death & disease |
Low |
34349117
|
| 2023 |
TRAIP directly interacts with MYC and promotes K48-linked polyubiquitination at MYC K428 and K430, leading to proteasome-dependent MYC degradation and suppression of MYC transcriptional activity in bladder cancer cells. MYC in turn binds the TRAIP promoter, establishing a negative feedback loop. |
Co-immunoprecipitation; ubiquitination assays with K428/K430 mutagenesis; proteasome inhibition; MYC transcriptional activity reporter; ChIP for MYC at TRAIP promoter; rescue experiments |
Oncogene |
Medium |
38123820
|
| 2023 |
ZNF212 is a direct binding partner of TRAIP; mutual recruitment of TRAIP and ZNF212 to DNA damage sites is interdependent. ZNF212 depletion causes DDR and HR repair defects epistatic to TRAIP. In mESCs, Zfp212 acts upstream of both the NEIL3 and Fanconi anaemia ICL repair pathways. ZNF212 also directly interacts with NEIL3 and promotes its recruitment to ICL lesions. |
Co-immunoprecipitation (direct interaction); laser microirradiation foci recruitment; epistasis analysis in mESCs; ICL repair assays; NEIL3 recruitment assays |
Nucleic acids research |
Medium |
36594163
|
| 2025 |
CDK phosphorylation of TRAIP in mitosis is essential for mitotic replisome unloading and MiDAS. TRAIP interacts with terminated replisomes in S-phase without ubiquitylating them; CDK phosphorylation specifically activates TRAIP's autoubiquitylation and ubiquitylation of replisomes isolated from mitotic chromatin. CDK-driven phosphorylation alone is not sufficient to activate replisome unloading during S-phase. |
Auxin-induced degron; CDK inhibition; phospho-mimetic/non-phosphorylatable TRAIP mutants; in vitro ubiquitylation assays with mitotic chromatin; MiDAS assays in human cells |
Nucleic acids research |
High |
40637231
|
| 2025 |
USP37 deubiquitylase binds CMG helicase (via CDC45 contact) and counteracts TRAIP-dependent CMG ubiquitylation and premature replisome disassembly. In Xenopus extracts depleted of USP37, TRAIP promotes premature CMG ubiquitylation and disassembly when converging replisomes stall. TRAIP loss suppresses the hypersensitivity of USP37 knockout cells to topoisomerase inhibitors. |
Xenopus egg extract depletion; Usp37 knockout cells; genetic epistasis (TRAIP mutation suppressing USP37 KO phenotype); CMG ubiquitylation assays; structure-guided CDC45-binding mutations |
Nature communications |
High |
40411782 40533495
|
| 2024 |
TRAIP phosphorylation by mitotic Cyclin B-CDK1 enables formation of a complex with TTF2 (a SWI/SNF ATPase) and DNA polymerase ε. TTF2 tethers TRAIP to replisomes via an N-terminal zinc finger that binds phosphorylated TRAIP and an adjacent peptide that contacts the CMG-associated leading strand DNA polymerase ε (Pol2/POLE2). This TRAIP-TTF2-Pol ε bridge is essential for CMG unloading and stalled fork breakage in mitosis, independently of TTF2 ATPase activity. |
Xenopus egg extract; AlphaFold-Multimer-guided mutagenesis; biochemical reconstitution; TTF2 zinc finger binding assays; CDK1 phosphorylation of TRAIP; CMG unloading assays; MiDAS assays |
bioRxivpreprint |
High |
bio_10.1101_2024.11.30.626186 bio_10.1101_2024.12.01.626218
|
| 2025 |
TRAIP depletion causes retention of PCNA on chromatin during mitosis; TRAIP-depleted cells entering G1 with chromatin-bound PCNA display reduced Cdt1 levels and impaired S-phase entry, and show delayed S-phase progression. TRAIP functions independently of ATAD5-RFC in PCNA unloading from chromatin. |
Auxin-induced degron for TRAIP depletion; chromatin fractionation; PCNA immunofluorescence; Cdt1 Western blot; S-phase entry assays; comparison with ATAD5-RFC-depleted cells |
Genes to cells |
Medium |
39956965
|
| 2021 |
In vitro, the TRAIP coiled-coil domain (residues 64-166) specifically forms a complex with the RAP80 zinc finger motif (residues 490-584); larger TRAIP fragments (CCLZ or RINGCC) fail to interact with the RAP80 zinc finger under the same conditions. |
In vitro protein-protein interaction assay; SDS-PAGE; co-elution |
Saudi journal of biological sciences |
Low |
34867056
|
| 2026 |
TRAIP functions as an E3 ubiquitin ligase that mediates K48-linked polyubiquitination and proteasomal degradation of PLSCR4 in breast cancer cells. |
Co-immunoprecipitation; K48-linked ubiquitination assays; rescue experiments with PLSCR4 knockdown |
Journal of biochemical and molecular toxicology |
Low |
41942828
|
| 2026 |
SOX9 transcription factor directly binds the TRAIP promoter to drive its transcriptional upregulation. TRAIP then acts as the specific E3 ligase for CPEB3, mediating its poly-ubiquitylation and proteasomal degradation, which relieves CPEB3-mediated translational repression and hyperactivates mTORC1 signaling in gastric cancer cells. |
ChIP for SOX9 at TRAIP promoter; luciferase reporter assay; Co-immunoprecipitation; ubiquitylation assays; epistatic rescue experiments |
World journal of surgical oncology |
Low |
41832516
|