TRIM5

gene
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Also known as RNF88TRIM5alpha

Summary

TRIM5 (tripartite motif containing 5, HGNC:16276) is a protein-coding gene on chromosome 11p15.4, encoding Tripartite motif-containing protein 5 (Q9C035). Capsid-specific restriction factor that prevents infection from non-host-adapted retroviruses.

The protein encoded by this gene is a member of the tripartite motif (TRIM) family. The TRIM motif includes three zinc-binding domains, a RING, a B-box type 1 and a B-box type 2, and a coiled-coil region. The protein forms homo-oligomers via the coilel-coil region and localizes to cytoplasmic bodies. It appears to function as a E3 ubiquitin-ligase and ubiqutinates itself to regulate its subcellular localization. It may play a role in retroviral restriction. Multiple alternatively spliced transcript variants encoding different isoforms have been described for this gene.

Source: NCBI Gene 85363 — RefSeq curated summary.

At a glance

  • GWAS associations: 38
  • Clinical variants (ClinVar): 122 total
  • MANE Select transcript: NM_033034

Identifiers

Gene identifiers

FieldValue
HGNC IDHGNC:16276
Approved symbolTRIM5
Nametripartite motif containing 5
Location11p15.4
Locus typegene with protein product
StatusApproved
AliasesRNF88, TRIM5alpha
Ensembl geneENSG00000132256
Ensembl biotypeprotein_coding
OMIM608487
Entrez85363

Gene structure

Transcript identifiers

Ensembl transcripts: 16 — 10 protein_coding, 3 protein_coding_CDS_not_defined, 2 retained_intron, 1 nonsense_mediated_decay

ENST00000380027, ENST00000380034, ENST00000396847, ENST00000412903, ENST00000419850, ENST00000433961, ENST00000438025, ENST00000465634, ENST00000483835, ENST00000487241, ENST00000492086, ENST00000682968, ENST00000684417, ENST00000684655, ENST00000957480, ENST00000957481

RefSeq mRNA: 4 — MANE Select: NM_033034 NM_001410958, NM_033034, NM_033092, NM_033093

CCDS: CCDS31392, CCDS31393, CCDS31394, CCDS91425

Canonical transcript exons

ENST00000380034 — 8 exons

ExonStartEnd
ENSE0000090326256797615680238
ENSE0000134272656848685685074
ENSE0000181141756631955665395
ENSE0000349641656782045678434
ENSE0000349902856676895667711
ENSE0000359552856656565665682
ENSE0000361314656659815666081
ENSE0000364369156790745679169

Expression profiles

Bgee: expression breadth ubiquitous, 235 present calls, max score 92.15.

FANTOM5 (CAGE): breadth ubiquitous, TPM avg 14.6154 / max 390.4914, expressed in 1764 samples.

FANTOM5 promoters (4 alternative TSS)

Promoter IDTPM avgSamples expressed
11838313.06941759
1183811.1310472
1183820.3267118
1183870.088432

Top tissues by expression

272 total, by Bgee expression score (0-100, higher = more expressed):

TissueAnatomy IDExpression scoreQuality
sural nerveUBERON:001548892.15gold quality
germinal epithelium of ovaryUBERON:000130491.11gold quality
palpebral conjunctivaUBERON:000181289.31gold quality
stromal cell of endometriumCL:000225588.69gold quality
body of pancreasUBERON:000115088.52gold quality
endometriumUBERON:000129587.58gold quality
seminal vesicleUBERON:000099887.51gold quality
monocyteCL:000057686.93gold quality
descending thoracic aortaUBERON:000234586.74gold quality
mononuclear cellCL:000084286.59gold quality
visceral pleuraUBERON:000240186.57silver quality
blood vessel layerUBERON:000479786.55gold quality
leukocyteCL:000073886.48gold quality
bloodUBERON:000017886.16gold quality
pancreasUBERON:000126486.16gold quality
thoracic aortaUBERON:000151586.05gold quality
ascending aortaUBERON:000149686.02gold quality
right adrenal gland cortexUBERON:003582785.91gold quality
colonic epitheliumUBERON:000039785.68gold quality
right lobe of liverUBERON:000111485.51gold quality
right adrenal glandUBERON:000123385.30gold quality
mucosa of paranasal sinusUBERON:000503085.28silver quality
ectocervixUBERON:001224985.13gold quality
parietal pleuraUBERON:000240085.06silver quality
left adrenal glandUBERON:000123485.03gold quality
pleuraUBERON:000097785.02silver quality
right lobe of thyroid glandUBERON:000111984.63gold quality
left adrenal gland cortexUBERON:003582584.61gold quality
left ovaryUBERON:000211984.60gold quality
upper lobe of left lungUBERON:000895284.53gold quality

Single-cell (SCXA)

Detected in 3 experiment(s), a significant marker in 2.

ExperimentMarker?Max mean expression
E-ANND-3yes9.39
E-ENAD-27yes6.19
E-GEOD-100618no199.63

Regulation

Is transcription factor: yes

Downstream targets (CollecTRI)

1 targets.

TargetRegulation
JUNActivation

Upstream regulators (CollecTRI, top): HR, NR2C2

miRNA regulators (miRDB)

96 targeting TRIM5, top 30 by miRDB confidence (max_score; target_count = how many genes the miRNA targets in total — lower means more specific):

miRNAMax scoreAvg scoremiRNA target_count
HSA-MIR-3613-3P100.0076.367965
HSA-MIR-5011-5P100.0083.465820
HSA-MIR-4668-3P100.0068.742635
HSA-MIR-188-3P100.0068.761240
HSA-MIR-190A-3P100.0080.355520
HSA-MIR-3163100.0077.238605
HSA-MIR-1277-5P100.0073.955056
HSA-MIR-371B-5P99.9975.344759
HSA-MIR-366299.9973.825684
HSA-MIR-511-3P99.9968.851467
HSA-MIR-373-5P99.9875.364753
HSA-MIR-616-5P99.9875.584775
HSA-MIR-60799.9773.625593
HSA-MIR-365899.9673.874379
HSA-MIR-590-3P99.9674.346478
HSA-MIR-211099.9666.681930
HSA-MIR-146A-5P99.9668.93988
HSA-MIR-146B-5P99.9669.13977
HSA-MIR-1250-3P99.9670.044038
HSA-MIR-185-3P99.9567.011743
HSA-MIR-7153-5P99.9468.891006
HSA-MIR-568099.9169.833421
HSA-MIR-6809-3P99.9171.453814
HSA-MIR-367199.9073.043897
HSA-MIR-95-5P99.8972.173973
HSA-MIR-430299.8967.941187
HSA-MIR-153-5P99.8973.866317
HSA-MIR-6780A-5P99.8866.692776
HSA-MIR-605-3P99.8869.221833
HSA-MIR-612499.8769.783551

Literature-anchored findings (GeneRIF, showing 40)

  • TRIM5delta colocalized with BTBD1/2 and appeared to serve as a scaffold for the assembly of endogenous BTBD1/2 proteins (PMID:12878161)
  • HIV-1 infection is restricted more efficiently by rhesus monkey TRIM5alpha than by human TRIM5alpha (PMID:14985764)
  • Human TRIM5alpha interacts with HIV-1 p2 capsid protein to partially block HIV infection. Rhesus macaque TRIM5alpha AAS48505.1 provides stronger block to HIV-1. (PMID:14985764)
  • Data show that lentivirus susceptibility factor 1 and Ref1 are species-specific variants of tripartite interaction motif 5alpha (TRIM5alpha), a cytoplasmic body component that can block infection by widely divergent retroviruses. (PMID:15249685)
  • Data show that the human and African green monkey (AGM) TRIM5alpha genes encode Ref1 and Lv1 antiretroviral activities, respectively. (PMID:15249687)
  • human, rhesus, and African green monkey Trim5alpha can restrict N-tropic murine leukemia virus (PMID:15249690)
  • TRIM5alpha is both necessary and sufficient for the restriction of N-MLV in human cells; B-MLV was resistant to TRIM5alpha-mediated restriction; species-specific variation in TRIM5alpha governs its ability to block infection by diverse retroviruses (PMID:15280539)
  • The Trim5alpha SPRY domain was found to be responsible for targeting HIV-1 restriction. (PMID:15649369)
  • the major determinant of anti-HIV-1 potency is the B30.2(SPRY) domain (PMID:15709033)
  • TRIM5alpha, potently restricted infection by N-tropic murine leukemia virus (N-MLV) and moderately restricted human immunodeficiency virus type 1 (HIV-1) infection (PMID:15767395)
  • heterologous expression of TRIM5alpha(rh) or TRIMCyp interferes with the anti-N-MLV activity of endogenous TRIM5alpha; data show TRIM5 orthologues form heteromultimers & C-terminal extensions alter virus recognition by multimers of these proteins (PMID:15919943)
  • The SPRY domain of TRIM5alpha, showed higher nonsynonymous/synonymous substitution ratios than the non-SPRY domain, indicating that the adaptive evolution of TRIM5alpha in primates might be an innate strategy developed in defending retrovirus infection (PMID:16226405)
  • results indicate that the transcription and protein synthesis of TRIM5alpha could be modulated by IFN, suggesting that TRIM5alpha may play a role in an IFN-induced antiviral state against retrovirus infection (PMID:16289103)
  • An SNP at the human TRIM5 locus was found to have a functional consequence on in vitro retroviral infection of B cells. (PMID:16401428)
  • TRIM5alpha levels are maintained by continuous synthesis and rapid proteasome-mediated degradation, imbalances in which result in the formation of pre-aggresomal cytoplasmic bodies; turnover of TRIM5alpha is not required for its antiretroviral activity (PMID:16472833)
  • concluded that Fv1 and TRIM5 can both recognize retroviral particles early after cell entry and before reverse transcription (PMID:16474118)
  • observed no effect of individual TRIM5alpha nonsynonymous mutations on the in vitro HIV-1 susceptibility of CD4(+) T cells (PMID:16474153)
  • promotes HIV-1 infectivity completely independent of cyclophilin A (PMID:16501094)
  • Mechanism of HIV-1 restriction by TRIM5 alpha involves engagement of the viral capsid by the restriction factor prior to completion of uncoating. (PMID:16624363)
  • the positive effects of Cyp A-CA binding on HIV-1 infectivity do not depend on human TRIM5alpha (PMID:16643975)
  • polymorphism in human TRIM5 may influence susceptibility to HIV-1 infection (PMID:16887163)
  • This study revealed the importance of all three variable regions of TIRM5alpha B30.2 domain for determining retrovirus restriction specificity. (PMID:16912305)
  • diverse TRIM5 proteins inhibit retroviral infection in multiple ways (PMID:16973579)
  • TRIM5alpha-mediated HIV-1 restriction is related to selective degradation of cytosolic capsid normally associated with productive viral entry (PMID:17028189)
  • results show that even a moderate over expression of wild-type TRIM5alpha in human cells (2 fold as determined by quantitative RT-PCR) confers substantial restriction to infection for HIV-1 but only a weaker restriction to infection for HIV-2 (PMID:17087820)
  • The expression of TRIM5alpha, but not Fv-1, specifically promoted the premature conversion of particulate N-MLV capsids within infected cells to soluble capsid proteins. (PMID:17135314)
  • investigation of properties & antiviral activities of six TRIM family members, including those closely related to TRIM5alpha; only TRIM5alpha exhibited potent antiretroviral activity; also TRIM5alpha was unique in other biochemical & genetic properties (PMID:17156811)
  • Data suggest that TRIM5 alpha cytoplasmic bodies are dynamic structures more consistent with a role in function or regulation rather than protein aggregates or inclusion bodies that represent dead-end static structures. (PMID:17392513)
  • H43Y has a very minor effect on anti-HIV-1 activity of TRIM5alpha, suggesting that this allele is immaterial, at least in HIV-1-infected Europeans and Asians. (PMID:17406861)
  • Some alterations in the TRIM5alpha B-box 2 domain apparently affect the orientation or conformation of the B30.2(SPRY) domain, influencing capsid recognition. (PMID:17543365)
  • TRIM5 alpha may have protected early humans from invasion by Pan troglodytes endogenous retrovirus (PMID:17588933)
  • TRIM5alpha plays an essential role in controlling both the initial retroviral exposure and the subsequent viral dissemination in vivo. (PMID:17609277)
  • TRIM5alpha-mediated retroviral restriction results from the direct binding of the antiviral PRYSPRY domain to the viral capsid in murine leukemia virus infection (PMID:18166079)
  • Polymorphisms in the Trim5 gene may influence the clinical course of HIV-1 infection underscoring the antiviral effect of Trim5alpha on HIV-1 in vivo. (PMID:18248091)
  • TRIM5alpha functions as a RING-finger-type E3 ubiquitin ligase both in vitro and in vivo and ubiquitinates itself in cooperation with E2 ubiquitin-conjugating enzyme UbcH5B. (PMID:18312418)
  • Engagement of a restriction-sensitive retrovirus core results in TRIM5alpha degradation by a proteasome-dependent mechanism. (PMID:18497858)
  • TRIM5alpha variants lacking the SPRY domain are useful for silencing TRIM5alpha activity. (PMID:18524394)
  • Thus, the range of retroviruses restricted by human TRIM5alpha can be increased by changes in the B30.2/SPRY domain, which also result in the ability to cause premature uncoating of the restricted retroviral capsid. (PMID:18586294)
  • TRIM5 alpha is implicated in IFN-induced anti-retroviral response in primate cells. (PMID:18613956)
  • The TRIM5alpha B-box 2 domain promotes cooperative binding to the retroviral capsid by mediating higher-order self-association. (PMID:18799578)

Cross-species orthologs

10 orthologs

OrganismSymbolGene ID
mus_musculusTrim30aENSMUSG00000030921
mus_musculusTrim30bENSMUSG00000052749
mus_musculusTrim12cENSMUSG00000057143
mus_musculusTrim30dENSMUSG00000057596
mus_musculusTrim5ENSMUSG00000060441
mus_musculusTrim12aENSMUSG00000066258
mus_musculusTrim30cENSMUSG00000078616
rattus_norvegicusTrim5ENSRNOG00000017191
rattus_norvegicusTrim30cENSRNOG00000031202
rattus_norvegicusENSRNOG00000071278

Paralogs (80): MID2 (ENSG00000080561), TRIM9 (ENSG00000100505), MID1 (ENSG00000101871), MEFV (ENSG00000103313), TRIM35 (ENSG00000104228), TRIM14 (ENSG00000106785), TRIM37 (ENSG00000108395), TRIM2 (ENSG00000109654), TRIM3 (ENSG00000110171), TRIM38 (ENSG00000112343), TRIM62 (ENSG00000116525), TRIM67 (ENSG00000119283), TRIM32 (ENSG00000119401), BSPRY (ENSG00000119411), TRIM25 (ENSG00000121060), TRIM6 (ENSG00000121236), TRIM24 (ENSG00000122779), TRIM51 (ENSG00000124900), TRIM28 (ENSG00000130726), TRIM21 (ENSG00000132109), TRIM22 (ENSG00000132274), TRIM47 (ENSG00000132481), TRIM45 (ENSG00000134253), TRIM29 (ENSG00000137699), TRIM54 (ENSG00000138100), PML (ENSG00000140464), TRIM65 (ENSG00000141569), TRIM43B (ENSG00000144010), TRIM43 (ENSG00000144015), TRIM7 (ENSG00000146054), TRIM41 (ENSG00000146063), TRIM50 (ENSG00000146755), TRIM4 (ENSG00000146833), TRIM55 (ENSG00000147573), TRIM48 (ENSG00000150244), TRIM36 (ENSG00000152503), TRIM11 (ENSG00000154370), TRIM74 (ENSG00000155428), TRIM42 (ENSG00000155890), TRIM63 (ENSG00000158022)

Protein

Protein identifiers

Tripartite motif-containing protein 5Q9C035 (reviewed: Q9C035)

Alternative names: RING finger protein 88, RING-type E3 ubiquitin transferase TRIM5

All UniProt accessions (5): Q9C035, A0A804HHS7, C9JWN8, E7EQQ5, H7C134

UniProt curated annotations — full annotation on UniProt →

Function. Capsid-specific restriction factor that prevents infection from non-host-adapted retroviruses. Blocks viral replication early in the life cycle, after viral entry but before reverse transcription. In addition to acting as a capsid-specific restriction factor, also acts as a pattern recognition receptor that activates innate immune signaling in response to the retroviral capsid lattice. Binding to the viral capsid triggers its E3 ubiquitin ligase activity, and in concert with the heterodimeric ubiquitin conjugating enzyme complex UBE2V1-UBE2N (also known as UBC13-UEV1A complex) generates ‘Lys-63’-linked polyubiquitin chains, which in turn are catalysts in the autophosphorylation of the MAP3K7/TAK1 complex (includes TAK1, TAB2, and TAB3). Activation of the MAP3K7/TAK1 complex by autophosphorylation results in the induction and expression of NF-kappa-B and MAPK-responsive inflammatory genes, thereby leading to an innate immune response in the infected cell. Restricts infection by N-tropic murine leukemia virus (N-MLV), equine infectious anemia virus (EIAV), simian immunodeficiency virus of macaques (SIVmac), feline immunodeficiency virus (FIV), and bovine immunodeficiency virus (BIV). Plays a role in regulating autophagy through activation of autophagy regulator BECN1 by causing its dissociation from its inhibitors BCL2 and TAB2. Also plays a role in autophagy by acting as a selective autophagy receptor which recognizes and targets HIV-1 capsid protein p24 for autophagic destruction.

Subunit / interactions. Can form homodimers and homotrimers. In addition to lower-order dimerization, also exhibits a higher-order multimerization and both low- and high-order multimerizations are essential for its restriction activity. Isoform Delta interacts with BTBD1 and BTBD2. Interacts with PSMC4, PSMC5, PSMD7 and HSPA8/HSC70. Interacts (via B30.2/SPRY domain) with HSPA1A/B. Interacts with PSMC2, MAP3K7/TAK1, TAB2 and TAB3. Interacts with SQSTM1. Interacts with TRIM6 and TRIM34. Interacts with ULK1 (phosphorylated form), GABARAP, GABARAPL1, GABARAPL2, MAP1LC3A, MAP1LC3C and BECN1.

Subcellular location. Cytoplasm. Nucleus.

Post-translational modifications. Degraded in a proteasome-independent fashion in the absence of viral infection but in a proteasome-dependent fashion following exposure to restriction sensitive virus. Autoubiquitinated in a RING finger- and UBE2D2-dependent manner. Monoubiquitinated by TRIM21. Deubiquitinated by Yersinia YopJ. Ubiquitination may not lead to proteasomal degradation.

Domain organisation. The B box-type zinc finger domain and the coiled-coil domain contribute to the higher and low order multimerization respectively which is essential for restriction activity. The coiled coil domain is important for higher order multimerization by promoting the initial dimerization. The B30.2/SPRY domain acts as a capsid recognition domain. Polymorphisms in this domain explain the observed species-specific differences among orthologs. The RING-type zinc finger domain confers E3 ubiquitin ligase activity and is essential for retrovirus restriction activity, autoubiquitination and higher-order multimerization.

Pathway. Protein modification; protein ubiquitination.

Miscellaneous. Probable artifact. Has dominant-negative activity against TRIM5alpha. Does not inhibit HIV-1 replication.

Similarity. Belongs to the TRIM/RBCC family.

Isoforms (6)

UniProt IDNamesCanonical?
Q9C035-1Alphayes
Q9C035-2Beta
Q9C035-3Gamma
Q9C035-4Delta
Q9C035-5Epsilon, Kappa
Q9C035-6Iota

RefSeq proteins (4): NP_001397887, NP_149023, NP_149083, NP_149084 (=MANE)

Domains & families (InterPro)

IDNameType
IPR000315Znf_B-boxDomain
IPR001841Znf_RINGDomain
IPR001870B30.2/SPRYDomain
IPR003877SPRY_domDomain
IPR003879Butyrophylin_SPRYDomain
IPR013083Znf_RING/FYVE/PHDHomologous_superfamily
IPR013320ConA-like_dom_sfHomologous_superfamily
IPR017907Znf_RING_CSConserved_site
IPR027370Znf-RING_eukDomain
IPR043136B30.2/SPRY_sfHomologous_superfamily
IPR050143TRIM/RBCCFamily

Pfam: PF00622, PF00643, PF13445

Enzyme classification (BRENDA):

  • EC 2.3.2.27 — RING-type E3 ubiquitin transferase (BRENDA: 28 organisms, 138 substrates, 10 inhibitors, 1 Km, 1 kcat entries)

Substrate kinetics (BRENDA)

1 substrates with measured Km, best-characterized 1. Km ranges are aggregated across organisms/conditions.

SubstrateKm (mM)Measurements
[UBE2W]-S-UBIQUITINYL-L-CYSTEINE0.30141

UniProt features (53 total): splice variant 10, sequence variant 10, turn 6, strand 6, binding site 4, mutagenesis site 4, modified residue 2, zinc finger region 2, sequence conflict 2, helix 2, initiator methionine 1, chain 1, domain 1, region of interest 1, coiled-coil region 1

Structure

Experimental structures (PDB)

2 structures.

PDBMethodResolution (Å)
2ECVSOLUTION NMR
2YRGSOLUTION NMR

Predicted structure (AlphaFold)

ModelpLDDTFraction very-high
AF-Q9C035-F186.180.59

Functional residue map

Curated UniProt residues grouped by drug-discovery relevance — catalytic, ligand-binding, modification, and mutation-validated positions. Source: UniProtKB sequence features.

Ligand- & substrate-binding residues (4): 123; 95; 98; 117

Post-translational modifications (2): 2, 86

Mutagenesis-validated functional residues (4):

PositionPhenotype
15abolishes e3 ligase activity.
332increases strongly cell restriction against hiv-1 and sivmac infection.
332increases strongly cell restriction against hiv-1 infection.
332no effect on hiv-1 and sivmac infection.

Function

Pathways and Gene Ontology

Reactome pathways

1 pathways

IDPathway
R-HSA-877300Interferon gamma signaling

MSigDB gene sets: 283 (showing top): REACTOME_CYTOKINE_SIGNALING_IN_IMMUNE_SYSTEM, GOBP_CELLULAR_RESPONSE_TO_LIPID, GOBP_CELLULAR_RESPONSE_TO_BIOTIC_STIMULUS, GRAESSMANN_APOPTOSIS_BY_SERUM_DEPRIVATION_UP, GOBP_CANONICAL_NF_KAPPAB_SIGNAL_TRANSDUCTION, GRAESSMANN_RESPONSE_TO_MC_AND_SERUM_DEPRIVATION_UP, GRAESSMANN_APOPTOSIS_BY_DOXORUBICIN_UP, GOBP_POSITIVE_REGULATION_OF_MAPK_CASCADE, GOBP_MODULATION_OF_PROCESS_OF_ANOTHER_ORGANISM, GOBP_CELLULAR_RESPONSE_TO_OXYGEN_CONTAINING_COMPOUND, GOBP_POSITIVE_REGULATION_OF_RESPONSE_TO_EXTERNAL_STIMULUS, GOBP_REGULATION_OF_IMMUNE_RESPONSE, GOBP_POSITIVE_REGULATION_OF_MOLECULAR_FUNCTION, GOBP_DEFENSE_RESPONSE_TO_OTHER_ORGANISM, GOBP_REGULATION_OF_BIOLOGICAL_PROCESS_INVOLVED_IN_SYMBIOTIC_INTERACTION

GO Biological Process (18): activation of innate immune response (GO:0002218), autophagy (GO:0006914), regulation of gene expression (GO:0010468), regulation of lipopolysaccharide-mediated signaling pathway (GO:0031664), regulation of protein localization (GO:0032880), positive regulation of canonical NF-kappaB signal transduction (GO:0043123), positive regulation of MAPK cascade (GO:0043410), suppression of viral release by host (GO:0044790), innate immune response (GO:0045087), regulation of viral entry into host cell (GO:0046596), host-mediated suppression of symbiont invasion (GO:0046597), obsolete positive regulation of NF-kappaB transcription factor activity (GO:0051092), defense response to virus (GO:0051607), protein K63-linked ubiquitination (GO:0070534), immune system process (GO:0002376), protein ubiquitination (GO:0016567), positive regulation of DNA-templated transcription (GO:0045893), regulation of primary metabolic process (GO:0080090)

GO Molecular Function (12): transcription coactivator activity (GO:0003713), ubiquitin-protein transferase activity (GO:0004842), zinc ion binding (GO:0008270), protein kinase binding (GO:0019901), protein-macromolecule adaptor activity (GO:0030674), pattern recognition receptor activity (GO:0038187), identical protein binding (GO:0042802), protein homodimerization activity (GO:0042803), ubiquitin protein ligase activity (GO:0061630), protein binding (GO:0005515), transferase activity (GO:0016740), metal ion binding (GO:0046872)

GO Cellular Component (5): P-body (GO:0000932), nucleus (GO:0005634), cytoplasm (GO:0005737), cytosol (GO:0005829), omegasome (GO:1990462)

Reactome top-level categories

Rollup of top-1 pathways:

CategoryPathways
Interferon Signaling1

GO top-level categories

Rollup of top GO terms by namespace:

CategoryTerms
positive regulation of intracellular signal transduction2
protein binding2
intracellular membrane-bounded organelle2
cellular anatomical structure2
activation of immune response1
positive regulation of innate immune response1
catabolic process1
transmembrane transport1
process utilizing autophagic mechanism1
gene expression1
regulation of macromolecule biosynthetic process1
regulation of response to biotic stimulus1
regulation of signal transduction1
lipopolysaccharide-mediated signaling pathway1
regulation of response to external stimulus1
intracellular protein localization1
regulation of localization1
canonical NF-kappaB signal transduction1
regulation of canonical NF-kappaB signal transduction1
MAPK cascade1
regulation of MAPK cascade1
defense response to virus1
immune response1
defense response to symbiont1
symbiont entry into host cell1
modulation by symbiont of entry into host1
regulation of viral life cycle1
innate immune response1
host-mediated perturbation of symbiont process1
defense response1
response to virus1
protein polyubiquitination1
biological_process1
protein modification by small protein conjugation1
DNA-templated transcription1
regulation of DNA-templated transcription1
positive regulation of RNA biosynthetic process1
regulation of metabolic process1
primary metabolic process1
transcription coregulator activity1

Protein interactions and networks

STRING

1261 interactions, top by confidence (×1000):

Protein AProtein BPartner UniProtScore
TRIM5TRAT1Q6PIZ9947
TRIM5BTBD2Q9BX70942
TRIM5APOBEC3GQ9HC16920
TRIM5BTBD1Q9H0C5903
TRIM5PPIAP05092899
TRIM5SAMHD1Q9Y3Z3884
TRIM5BBOX1O75936854
TRIM5BST2Q10589842
TRIM5ATG16L1Q676U5803
TRIM5UBE2NP61088795
TRIM5AMBRA1Q9C0C7773
TRIM5TMLHEQ9NVH6772
TRIM5TNPO3Q9Y5L0768
TRIM5BECN1Q14457744
TRIM5CCR5P51681734

IntAct

42 interactions, top by confidence:

ABTypeScore
CFTRESYT2psi-mi:“MI:0914”(association)0.710
FAM9CNDC80psi-mi:“MI:0914”(association)0.670
TRIM5TRIM5psi-mi:“MI:0915”(physical association)0.630
CFTRTRIM5psi-mi:“MI:0915”(physical association)0.550
TRIM5TRIM34psi-mi:“MI:0915”(physical association)0.550
TRIM5TRIM32psi-mi:“MI:0915”(physical association)0.510
ZWINTpsi-mi:“MI:0915”(physical association)0.400
TRIM5SNAI1psi-mi:“MI:0915”(physical association)0.400
SNAI1TRIM5psi-mi:“MI:0915”(physical association)0.400
HIP2TRIM5psi-mi:“MI:0915”(physical association)0.370
TRIM5UBE2D1psi-mi:“MI:0915”(physical association)0.370
UBE2D3TRIM5psi-mi:“MI:0915”(physical association)0.370
UBE2HTRIM5psi-mi:“MI:0915”(physical association)0.370
TRIM5UBE2Npsi-mi:“MI:0915”(physical association)0.370
TRIM5UBE2V1psi-mi:“MI:0915”(physical association)0.370
TRIM5UBE2V2psi-mi:“MI:0915”(physical association)0.370
TRIM5UBE2D4psi-mi:“MI:0915”(physical association)0.370
TRIM5UBE2Upsi-mi:“MI:0915”(physical association)0.370
EWSR1TRIM5psi-mi:“MI:0915”(physical association)0.370
PCBD1TRIM5psi-mi:“MI:0915”(physical association)0.370
LZTR1TRIM5psi-mi:“MI:0915”(physical association)0.370
TRIM5MNAT1psi-mi:“MI:0915”(physical association)0.370
MKRN3TRIM5psi-mi:“MI:0915”(physical association)0.370
Ppp2caDKFZP586J0619psi-mi:“MI:0914”(association)0.350
Xpo1IFT56psi-mi:“MI:0914”(association)0.350

BioGRID (161): TRIM5 (Biochemical Activity), UBE2D2 (Reconstituted Complex), TRIM5 (Biochemical Activity), UBE2D3 (Reconstituted Complex), TRIM5 (Affinity Capture-MS), TRIM5 (Affinity Capture-MS), UL123 (Affinity Capture-Western), TRIM5 (Biochemical Activity), UBE2N (Reconstituted Complex), UBE2D3 (Reconstituted Complex), TRIM5 (Reconstituted Complex), TRIM5 (Co-crystal Structure), SUMO1 (Co-localization), TRIM5 (Biochemical Activity), CUEDC1 (Affinity Capture-MS)

ESM2 similar proteins: A0A3B3IT33, A6NCK2, A6NDI0, A6NGJ6, A6NI03, A6NLI5, C9J1S8, I1YAP6, K7N6K2, P0CI25, P0CI26, P15533, Q0PF16, Q1ACD5, Q1ACD6, Q1ACD7, Q1ACD8, Q2YEM8, Q2YEM9, Q2YEN0, Q2YEN2, Q3ZEE5, Q587N6, Q587N7, Q5BN31, Q5C8T6, Q5C8T8, Q5C8U1, Q5C8U3, Q5C8U4, Q5D7H7, Q5D7H8, Q5D7I0, Q5D7I1, Q5D7I2, Q5D7I3, Q5D7I5, Q5D7I6, Q5D7I9, Q5D7J0

Diamond homologs: A0JN74, A6NCK2, A6NDI0, A6NGJ6, A6NI03, A6NK02, A6NLI5, B1H278, C9J1S8, K7N6K2, O00635, O15553, O19085, O77666, P0CI25, P0CI26, P14373, P15533, P18892, P19474, Q02084, Q0PF16, Q12899, Q13410, Q1ACD5, Q1ACD6, Q1ACD7, Q1ACD8, Q1XHU0, Q2T9Z0, Q2YEM8, Q2YEM9, Q2YEN0, Q2YEN2, Q3UWZ0, Q3ZEE5, Q495X7, Q587N6, Q587N7, Q58DK8

SIGNOR signaling

4 interactions.

AEffectBMechanism
Ub:E2“up-regulates activity”TRIM5ubiquitination
UBE2D2“up-regulates activity”TRIM5binding
TRIM5“up-regulates quantity”TRIM5monoubiquitination
TRIM21“up-regulates quantity”TRIM5monoubiquitination

Enriched among interaction partners

Reactome pathways and GO biological processes over-represented among this gene’s 37 IntAct physical interaction partners (hypergeometric vs the genome-wide background, BH-FDR, gene-set size 15–500, ranked by fold). A functional readout of the neighbourhood — distinct from this gene’s own memberships above, and biased toward well-studied / hub proteins, so read it as themes rather than proof.

Reactome pathways:

PathwayPartnersFoldFDR
Antigen processing: Ubiquitination & Proteasome degradation914.6×7e-07

GO biological processes:

GO termPartnersFoldFDR
protein K63-linked ubiquitination546.1×7e-06
protein polyubiquitination935.8×4e-10
ubiquitin-dependent protein catabolic process512.8×8e-04
protein ubiquitination811.4×1e-05
proteasome-mediated ubiquitin-dependent protein catabolic process59.0×3e-03

Disease & clinical

Clinical variants and AI predictions

ClinVar

122 variants total. Per-class counts are floors (≥ shown; pagination cap):

ClassificationCount (floor)
Pathogenic0
Likely pathogenic0
Uncertain significance87
Likely benign14
Benign4

Top pathogenic / likely-pathogenic (0)

SpliceAI

4999 predictions. Top by Δscore:

VariantEffectΔscore
11:5679018:T:TAdonor_gain1.0000
11:5679019:C:Adonor_gain1.0000
11:5679047:A:ACdonor_gain1.0000
11:5679048:C:CCdonor_gain1.0000
11:5679050:C:CAdonor_gain1.0000
11:5679064:AT:Adonor_gain1.0000
11:5679065:T:TAdonor_gain1.0000
11:5679076:T:Adonor_gain1.0000
11:5679759:A:ACdonor_gain1.0000
11:5679760:C:CCdonor_gain1.0000
11:5679769:C:CAdonor_gain1.0000
11:5697340:G:GTdonor_gain1.0000
11:5697348:G:GTdonor_gain1.0000
11:5697366:GGA:Gdonor_gain1.0000
11:5697367:G:Tdonor_gain1.0000
11:5697380:G:GTdonor_gain1.0000
11:5698306:A:AGacceptor_gain1.0000
11:5698310:CCAA:Cacceptor_loss1.0000
11:5698312:A:AGacceptor_gain1.0000
11:5698313:A:AGacceptor_gain1.0000
11:5698314:G:GGacceptor_gain1.0000
11:5698314:G:GTacceptor_loss1.0000
11:5698314:GA:Gacceptor_gain1.0000
11:5698314:GAA:Gacceptor_gain1.0000
11:5698314:GAAT:Gacceptor_gain1.0000
11:5698314:GAATT:Gacceptor_gain1.0000
11:5698544:AGGT:Adonor_loss1.0000
11:5698546:G:Adonor_loss1.0000
11:5709051:A:AGacceptor_gain1.0000
11:5709052:G:GGacceptor_gain1.0000

AlphaMissense

3253 scored. Top likely-pathogenic:

VariantProtein changeam_pathogenicity
11:5665210:A:GW361R0.990
11:5665210:A:TW361R0.990
11:5665180:A:GW371R0.987
11:5665180:A:TW371R0.987
11:5664938:G:CF451L0.986
11:5664938:G:TF451L0.986
11:5664940:A:GF451L0.986
11:5665208:C:AW361C0.986
11:5665208:C:GW361C0.986
11:5664899:A:CF464L0.983
11:5664899:A:TF464L0.983
11:5664901:A:GF464L0.983
11:5665171:C:AG374W0.983
11:5664968:G:CF441L0.981
11:5664968:G:TF441L0.981
11:5664970:A:GF441L0.981
11:5664945:A:TV449D0.978
11:5665170:C:TG374E0.976
11:5679863:G:CF105L0.972
11:5679863:G:TF105L0.972
11:5679865:A:GF105L0.972
11:5665209:C:GW361S0.970
11:5664939:A:GF451S0.968
11:5665171:C:GG374R0.968
11:5665171:C:TG374R0.968
11:5665213:A:CY360D0.967
11:5664932:A:CN453K0.964
11:5664932:A:TN453K0.964
11:5679838:A:GC114R0.964
11:5664972:A:TV440D0.960

dbSNP variants (sampled 300 via entrez): RS1000011327 (11:5630522 G>T), RS1000043628 (11:5630215 A>T), RS1000045375 (11:5613101 C>T), RS1000081513 (11:5659020 G>C), RS1000111751 (11:5675453 C>A,T), RS1000135029 (11:5593280 T>C), RS1000137673 (11:5598084 T>A,C), RS1000139707 (11:5629996 G>A), RS1000165634 (11:5627135 T>G), RS1000172583 (11:5588774 G>A), RS1000190275 (11:5598418 A>C,G), RS1000191669 (11:5673784 G>A,T), RS1000205321 (11:5636909 G>A), RS1000218152 (11:5642596 C>A,T), RS1000227735 (11:5675185 C>G,T)

Disease associations

OMIM: gene MIM:608487 | disease phenotypes:

GenCC curated gene-disease

Mondo (1): prostate cancer (MONDO:0008315)

Orphanet (1): Familial prostate cancer (Orphanet:1331)

HPO phenotypes

0 total (0 of 0 shown, HPO-id order):

GWAS associations

38 associations (top):

StudyTraitp-value
GCST002058_10DNA methylation (variation)3.000000e-06
GCST004286_5Midgestational circulating levels of PBDEs (fetal genetic effect)6.000000e-07
GCST004599_17Mean platelet volume2.000000e-12
GCST004599_18Mean platelet volume6.000000e-19
GCST004599_19Mean platelet volume6.000000e-24
GCST005194_105Coronary artery disease2.000000e-12
GCST005195_51Coronary artery disease6.000000e-13
GCST005196_41Coronary artery disease3.000000e-06
GCST005196_42Coronary artery disease2.000000e-12
GCST005991_18Platelet count9.000000e-10
GCST006016_20Serum alkaline phosphatase levels1.000000e-09
GCST010204_112Low density lipoprotein cholesterol levels3.000000e-24
GCST010241_20Apolipoprotein A1 levels7.000000e-18
GCST010242_162HDL cholesterol levels9.000000e-12
GCST010243_199Apolipoprotein B levels9.000000e-25
GCST010243_232Apolipoprotein B levels4.000000e-10
GCST010245_174LDL cholesterol levels2.000000e-15
GCST010245_89LDL cholesterol levels2.000000e-08
GCST010725_20Malaria4.000000e-69
GCST010725_33Malaria2.000000e-67
GCST010725_51Malaria1.000000e-55
GCST010866_150Coronary artery disease4.000000e-15
GCST011353_9Serum alkaline phosphatase levels2.000000e-11
GCST011365_142Myocardial infarction2.000000e-06
GCST90000255_12Severe COVID-19 infection with respiratory failure (analysis I)4.000000e-06
GCST90002395_73Mean platelet volume2.000000e-09
GCST90002395_74Mean platelet volume3.000000e-14
GCST90002395_75Mean platelet volume4.000000e-20
GCST90002395_76Mean platelet volume1.000000e-16
GCST90002395_77Mean platelet volume1.000000e-18

EFO canonical traits (12, from GWAS)

EFO IDTrait name
EFO:0022599DNA methylation
EFO:0007959fetal genotype effect measurement
EFO:0007961polybrominated biphenyl measurement
EFO:0007962polybrominated diphenyl ether measurement
EFO:0007964gestational serum measurement
EFO:0004309platelet count
EFO:0004533alkaline phosphatase measurement
EFO:0004611low density lipoprotein cholesterol measurement
EFO:0004614apolipoprotein A 1 measurement
EFO:0004612high density lipoprotein cholesterol measurement
EFO:0004615apolipoprotein B measurement
EFO:0004736aspartate aminotransferase measurement

MeSH disease descriptors (1)

DescriptorNameTree numbers
D011471Prostatic NeoplasmsC04.588.945.440.770; C12.100.500.260.750; C12.100.500.565.625; C12.200.294.260.750; C12.200.294.565.625; C12.200.758.409.750; C12.900.619.750

Drugs & pharmacology

Drug and pharmacology data

Is drug target: no

PharmGKB: 1 entry (VIP=true, CPIC=false)

PharmGKB variants

1 variants.

VariantGenesLevelScore#Clin annotsDrugs
rs7950311TRIM50.000

CTD chemical–gene interactions

42 total (human), top 30 by PubMed support.

ChemicalActions (top 5)PubMed papers
sodium arsenitedecreases expression, increases abundance, increases expression3
Acetaminophenincreases expression, decreases expression2
Phenylmercuric Acetateaffects cotreatment, increases expression2
Valproic Acidaffects expression, decreases expression2
alpha-pineneincreases oxidation, increases abundance, affects cotreatment1
bisphenol Adecreases methylation1
beta-lapachonedecreases expression, increases expression1
arsenitedecreases reaction, affects binding1
sulforaphanedecreases expression1
cobaltous chloridedecreases expression1
manganese chlorideincreases abundance, increases expression1
potassium chromate(VI)affects cotreatment, decreases expression1
methacrylaldehydeaffects cotreatment, increases oxidation, increases abundance1
S-(1,2-dichlorovinyl)cysteineaffects response to substance, increases expression1
epigallocatechin gallateaffects cotreatment, decreases expression1
di-n-butylphosphoric acidaffects expression1
4-(5-benzo(1,3)dioxol-5-yl-4-pyridin-2-yl-1H-imidazol-2-yl)benzamideaffects cotreatment, increases expression1
ICG 001decreases expression1
dorsomorphinaffects cotreatment, increases expression1
eprenetapoptaffects expression, affects reaction1
Resveratrolaffects cotreatment, increases expression1
Sunitinibdecreases expression1
Acroleinaffects cotreatment, increases oxidation, increases abundance1
Air Pollutantsaffects cotreatment, increases abundance, increases oxidation1
Arsenicincreases abundance, increases expression1
Cytarabinedecreases expression1
Diethylstilbestrolincreases expression1
Succimeraffects cotreatment, increases expression1
Estradioldecreases expression1
Lipopolysaccharidesincreases expression, affects response to substance1

Cellosaurus cell lines

2 cell lines: 2 cancer cell line

First 10 cell lines (id-ordered, not curated):

CellosaurusNameCategorySex
CVCL_TU32HAP1 TRIM5 (-) 1Cancer cell lineMale
CVCL_TU33HAP1 TRIM5 (-) 2Cancer cell lineMale

Clinical trials (associated diseases)

300 trials via MONDO — disease-level, not drug-specific.

TrialPhaseStatusTitle
NCT00029224PHASE4COMPLETEDTreatment With Zoledronic Acid in Patients With Breast Cancer, Multiple Myeloma, and Prostate Cancer With Cancer Related Bone Lesions
NCT00035997PHASE4COMPLETEDOpen-label Trial on the Effect of I.V. Zoledronic Acid 4 mg on Bone Density in Hormone Sensitive Prostate Cancer Patients With Bone Metastasis
NCT00063609PHASE4COMPLETEDThe Effect of Zoledronic Acid on Bone Loss in Prostate Cancer Patients Undergoing Androgen Deprivation Therapy
NCT00103623PHASE4SUSPENDEDThe Plenaxis® Experience Study
NCT00106392PHASE4COMPLETEDA Safety and Efficacy Study of Prograf in the Prevention of Erectile Dysfunction After Radical Prostatectomy
NCT00185029PHASE4UNKNOWNMR-Lymphography and Lymph Node Staging in Prostate Cancer
NCT00199485PHASE4COMPLETEDAngelica Sinensis for the Treatment of Hot Flashes in Men Undergoing LHRH Therapy for Prostate Cancer
NCT00219219PHASE4COMPLETEDZoledronic Acid in the Prevention of Skeletal-related Events in Hormone Refractory and Hormone-sensitive Prostate Cancer Patients With Bone Metastases
NCT00219271PHASE4COMPLETEDEffect Of Zoledronic Acid On Circulating And Bone Marrow-Residing Prostate Cancer Cells In Patients With Clinically Localized Prostate Cancer
NCT00237146PHASE4COMPLETEDStudy to Evaluate Zoledronic Acid on Quality of Life and Skeletal-related Events as Adjuvant Treatment in Patients With Hormone-naïve Prostate Cancer and Bone Metastasis Who Have Undergone Orchiectomy
NCT00242554PHASE4COMPLETEDOpen-label Phase IV Clinical Trial to Evaluate the Safety and Tolerability of Zoledronic Acid in Patients With Prostate Cancer and Bone Metastases
NCT00280098PHASE4COMPLETEDDocetaxel in the Treatment of Hormone Refractory Prostate Cancer
NCT00293696PHASE4COMPLETEDCasodex/Zoladex Biomarkers in Localised Prostate Cancer
NCT00334139PHASE4COMPLETEDEffect of Zoledronic Acid on Bone Metabolism in Patients With Bone Metastasis and Prostate or Breast Cancer
NCT00375765PHASE4COMPLETEDEffects On Dihydrotestosterone Regulated Gene Expression In Benign Prostatic Hyperplasia Or Prostate Cancer
NCT00391690PHASE4COMPLETEDEvaluation of Bone Markers as Diagnostic Tools for Early Detection of Bone Metastases in Patients With High Risk Prostate Cancer
NCT00422708PHASE4COMPLETEDLocal Anesthesia for Prostate Biopsy
NCT00526331PHASE4COMPLETEDEvaluation of Arterial Pressure Based Cardiac Output for Goal-Directed Perioperative Therapy
NCT00590213PHASE4COMPLETEDCompare the Value of Prophylactic Versus Therapeutic Breast Radiotherapy in CASODEX
NCT00629330PHASE4TERMINATEDDissemination of Prostate Cancer Screening to PCP’s in African American Communities
NCT00771966PHASE4COMPLETEDRadical Prostatectomy and Perioperative Fluid Therapy
NCT00805701PHASE4COMPLETEDStudy Assessing The Efficacy And Safety Of Avodart (Dutasteride) At Improving Urinary Symptoms In Men With Prostate Cancer Who Are Undergoing Seed Implantation
NCT00859027PHASE4COMPLETEDEffect Of Risedronate On Bone Mass In Older Men Receiving Neoadjuvant Therapy For Prostate Cancer
NCT00906269PHASE4UNKNOWNCan Hyperbaric Oxygen Improve Erectile Function Following Surgery for Prostate Cancer
NCT00953277PHASE4COMPLETEDStudy of Nerve Reconstruction Using AVANCE in Subjects Who Undergo Robotic Assisted Prostatectomy for Treatment of Prostate Cancer
NCT00982800PHASE4COMPLETEDDoes Postoperative Gabapentin Reduce Pain, Opioid Consumption and Anxiety and Have a Positive Effect on Health Related Quality of Life After Radical Prostatectomy?
NCT01083199PHASE4COMPLETEDGlobal Performance Evaluation of the AMS CONTINUUM™ Device
NCT01136226PHASE4COMPLETEDEvaluate Recovery of Testosterone for Patients Using Eligard
NCT01161563PHASE4COMPLETEDRandomized Crossover Trial to Assess the Tolerability of Gonadotropin Releasing Hormone (GnRH) Analogue Administration
NCT01230905PHASE4COMPLETEDStudy to Monitor the Effects of Androgen Suppression Treatment on the Heart
NCT01296672PHASE4COMPLETED3 Month Finasteride Challenge Test Can Significantly Improve the Performance of Screening for Prostate Cancer
NCT01365143PHASE4TERMINATEDProspective Randomized Trial Comparing Robotic Versus Open Radical Prostatectomy
NCT01379742PHASE4UNKNOWNComparison of Between ThinSeed™ and OncoSeed™ for Permanent Prostate Brachytherapy
NCT01486563PHASE4COMPLETEDHydroxyethyl Starch and Renal Function After Radical Prostatectomy
NCT01511874PHASE4COMPLETEDEfficacy and Safety Study of ELIGARD 22.5mg With Prostate Cancer
NCT01512472PHASE4TERMINATEDFirmagon (Degarelix) Intermittent Therapy
NCT01547416PHASE4COMPLETEDThe Effect of Combined General/Epidural Anesthesia Versus General Anesthesia on Diaphragmatic Function
NCT01571544PHASE4COMPLETEDThe Use of Thermal Suits as Preventing Hypothermia During Surgery
NCT01581749PHASE4UNKNOWNEvaluation of Truebeam for Low-Intermediate Risk Prostate Cancer
NCT01649635PHASE4COMPLETEDStudy of Cabazitaxel Combined With Prednisone and Prophylaxis of Neutropenia Complications in the Treatment of Patients With Metastatic Castration-resistant Prostate Cancer
  • Disease cohort memberships (association, not causation — diseases whose associated-gene cohort lists this gene; a subset are also under Associated diseases): COVID-19, myocardial infarction