Human Gene TRIM5 (ENST00000380034.8) Description and Page Index
  Description: Homo sapiens tripartite motif containing 5 (TRIM5), transcript variant alpha, mRNA. (from RefSeq NM_033034)
RefSeq Summary (NM_033034): 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. [provided by RefSeq, Dec 2009].
Gencode Transcript: ENST00000380034.8
Gencode Gene: ENSG00000132256.19
Transcript (Including UTRs)
   Position: hg38 chr11:5,663,195-5,685,074 Size: 21,880 Total Exon Count: 8 Strand: -
Coding Region
   Position: hg38 chr11:5,664,809-5,680,177 Size: 15,369 Coding Exon Count: 7 

Page IndexSequence and LinksUniProtKB CommentsMalaCardsCTDRNA-Seq Expression
Microarray ExpressionRNA StructureProtein StructureOther SpeciesGO AnnotationsmRNA Descriptions
PathwaysOther NamesMethods
Data last updated at UCSC: 2019-09-04

-  Sequence and Links to Tools and Databases
 
Genomic Sequence (chr11:5,663,195-5,685,074)mRNA (may differ from genome)Protein (493 aa)
Gene SorterGenome BrowserOther Species FASTAGene interactionsTable SchemaBioGPS
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HPRDLynxMGIneXtProtOMIMPubMed
ReactomeUniProtKBWikipedia

-  Comments and Description Text from UniProtKB
  ID: TRIM5_HUMAN
DESCRIPTION: RecName: Full=Tripartite motif-containing protein 5; EC=6.3.2.-; AltName: Full=RING finger protein 88;
FUNCTION: Isoform Alpha is a retrovirus restriction factor, which mediates species-specific, early block to retrovirus infection. Targets retroviral capsid soon after entry into the cell, and prevents reverse transcription of the virus RNA genome. Isoform Alpha trimers may make multiple contacts with the hexameric lattice of CA proteins which constitute the surface of retrovirion core, and somehow inactivate the virus. Restricts efficiently infection by N-MLV, but not HIV-1. May have E3 ubiquitin-protein ligase activity.
PATHWAY: Protein modification; protein ubiquitination.
SUBUNIT: Isoform Alpha forms homotrimers, and may interact with retroviral CA protein. Isoform Delta interacts with BTBD1 and BTBD2.
INTERACTION: Self; NbExp=2; IntAct=EBI-924214, EBI-924214; Q2Y080:- (xeno); NbExp=3; IntAct=EBI-924230, EBI-924086; Q13049:TRIM32; NbExp=2; IntAct=EBI-924214, EBI-742790;
SUBCELLULAR LOCATION: Cytoplasm, P-body. Note=Cytoplasmic bodies.
DOMAIN: The RING-type zinc finger domain mediates binding to an E2 ubiquitin-conjugating enzyme (By similarity).
PTM: Autoubiquitinated in a RING finger- and UBE2D2-dependent manner. Monoubiquitinated by TRIM21. Deubiquitinated by Yersinia YopJ. Ubiquitination may not lead to proteasomal degradation.
SIMILARITY: Belongs to the TRIM/RBCC family.
SIMILARITY: Contains 1 B box-type zinc finger.
SIMILARITY: Contains 1 B30.2/SPRY domain.
SIMILARITY: Contains 1 RING-type zinc finger.
WEB RESOURCE: Name=NIEHS-SNPs; URL="http://egp.gs.washington.edu/data/trim5/";

-  MalaCards Disease Associations
  MalaCards Gene Search: TRIM5
Diseases sorted by gene-association score: rubella (9), human immunodeficiency virus infectious disease (2)

-  Comparative Toxicogenomics Database (CTD)
  The following chemicals interact with this gene

-  RNA-Seq Expression Data from GTEx (53 Tissues, 570 Donors)
  Highest median expression: 15.31 RPKM in Cells - EBV-transformed lymphocytes
Total median expression: 192.91 RPKM



View in GTEx track of Genome Browser    View at GTEx portal     View GTEx Body Map

+  Microarray Expression Data
  Press "+" in the title bar above to open this section.

-  mRNA Secondary Structure of 3' and 5' UTRs
 
RegionFold EnergyBasesEnergy/Base
Display As
5' UTR -85.90268-0.321 Picture PostScript Text
3' UTR -342.701614-0.212 Picture PostScript Text

The RNAfold program from the Vienna RNA Package is used to perform the secondary structure predictions and folding calculations. The estimated folding energy is in kcal/mol. The more negative the energy, the more secondary structure the RNA is likely to have.

-  Protein Domain and Structure Information
  InterPro Domains: Graphical view of domain structure
IPR001870 - B30.2/SPRY
IPR003879 - Butyrophylin
IPR008985 - ConA-like_lec_gl_sf
IPR003877 - SPRY_rcpt
IPR000315 - Znf_B-box
IPR001841 - Znf_RING
IPR013083 - Znf_RING/FYVE/PHD
IPR017907 - Znf_RING_CS

Pfam Domains:
PF00622 - SPRY domain
PF00643 - B-box zinc finger

Protein Data Bank (PDB) 3-D Structure
MuPIT help

2ECV
- NMR MuPIT

2YRG
- NMR MuPIT


ModBase Predicted Comparative 3D Structure on Q9C035
FrontTopSide
The pictures above may be empty if there is no ModBase structure for the protein. The ModBase structure frequently covers just a fragment of the protein. You may be asked to log onto ModBase the first time you click on the pictures. It is simplest after logging in to just click on the picture again to get to the specific info on that model.

-  Orthologous Genes in Other Species
  Orthologies between human, mouse, and rat are computed by taking the best BLASTP hit, and filtering out non-syntenic hits. For more distant species reciprocal-best BLASTP hits are used. Note that the absence of an ortholog in the table below may reflect incomplete annotations in the other species rather than a true absence of the orthologous gene.
MouseRatZebrafishD. melanogasterC. elegansS. cerevisiae
No orthologNo orthologNo orthologNo orthologNo orthologNo ortholog
      
      
      
      
      

-  Gene Ontology (GO) Annotations with Structured Vocabulary
  Molecular Function:
GO:0004842 ubiquitin-protein transferase activity
GO:0005515 protein binding
GO:0008270 zinc ion binding
GO:0008329 signaling pattern recognition receptor activity
GO:0016740 transferase activity
GO:0019901 protein kinase binding
GO:0030674 protein binding, bridging
GO:0042802 identical protein binding
GO:0042803 protein homodimerization activity
GO:0046872 metal ion binding

Biological Process:
GO:0002218 activation of innate immune response
GO:0002221 pattern recognition receptor signaling pathway
GO:0002376 immune system process
GO:0006914 autophagy
GO:0016032 viral process
GO:0016567 protein ubiquitination
GO:0031664 regulation of lipopolysaccharide-mediated signaling pathway
GO:0032880 regulation of protein localization
GO:0043123 positive regulation of I-kappaB kinase/NF-kappaB signaling
GO:0043410 positive regulation of MAPK cascade
GO:0045087 innate immune response
GO:0046597 negative regulation of viral entry into host cell
GO:0051091 positive regulation of sequence-specific DNA binding transcription factor activity
GO:0051092 positive regulation of NF-kappaB transcription factor activity
GO:0051607 defense response to virus
GO:0060333 interferon-gamma-mediated signaling pathway
GO:0070206 protein trimerization
GO:0070534 protein K63-linked ubiquitination
GO:1902187 negative regulation of viral release from host cell

Cellular Component:
GO:0000932 P-body
GO:0005622 intracellular
GO:0005634 nucleus
GO:0005737 cytoplasm
GO:0005829 cytosol
GO:1990462 omegasome


-  Descriptions from all associated GenBank mRNAs
  BC020770 - Homo sapiens tripartite motif-containing 5, mRNA (cDNA clone IMAGE:4733445), partial cds.
AK027593 - Homo sapiens cDNA FLJ14687 fis, clone NT2RP2005003, weakly similar to 52 KD RO PROTEIN.
AF220028 - Homo sapiens tripartite motif protein TRIM5 isoform delta (TRIM5) mRNA, complete cds; alternatively spliced.
AF220025 - Homo sapiens tripartite motif protein TRIM5 isoform alpha (TRIM5) mRNA, complete cds; alternatively spliced.
AF220029 - Homo sapiens tripartite motif protein TRIM5 isoform epsilon (TRIM5) mRNA, complete cds; alternatively spliced.
BX647152 - Homo sapiens mRNA; cDNA DKFZp686F03244 (from clone DKFZp686F03244).
AK074363 - Homo sapiens cDNA FLJ23783 fis, clone HEP21211, highly similar to Homo sapiens tripartite motif protein TRIM5 isoform alpha mRNA.
JD239276 - Sequence 220300 from Patent EP1572962.
JD450587 - Sequence 431611 from Patent EP1572962.
JD337244 - Sequence 318268 from Patent EP1572962.
JD107613 - Sequence 88637 from Patent EP1572962.
JD505895 - Sequence 486919 from Patent EP1572962.
JD356420 - Sequence 337444 from Patent EP1572962.
JD341674 - Sequence 322698 from Patent EP1572962.
JD331102 - Sequence 312126 from Patent EP1572962.
JD374872 - Sequence 355896 from Patent EP1572962.
JD329864 - Sequence 310888 from Patent EP1572962.
JD242765 - Sequence 223789 from Patent EP1572962.
JD441772 - Sequence 422796 from Patent EP1572962.
JD329863 - Sequence 310887 from Patent EP1572962.
JD364266 - Sequence 345290 from Patent EP1572962.
JD115445 - Sequence 96469 from Patent EP1572962.
JD222022 - Sequence 203046 from Patent EP1572962.
JD321763 - Sequence 302787 from Patent EP1572962.
JD095256 - Sequence 76280 from Patent EP1572962.
JD489309 - Sequence 470333 from Patent EP1572962.
JD533809 - Sequence 514833 from Patent EP1572962.
JD142675 - Sequence 123699 from Patent EP1572962.
JD257357 - Sequence 238381 from Patent EP1572962.
JD258932 - Sequence 239956 from Patent EP1572962.
JD353202 - Sequence 334226 from Patent EP1572962.
JD274871 - Sequence 255895 from Patent EP1572962.
JD262478 - Sequence 243502 from Patent EP1572962.
JD154292 - Sequence 135316 from Patent EP1572962.
JD198794 - Sequence 179818 from Patent EP1572962.
JD559348 - Sequence 540372 from Patent EP1572962.
JD558566 - Sequence 539590 from Patent EP1572962.
JD448619 - Sequence 429643 from Patent EP1572962.
JD284134 - Sequence 265158 from Patent EP1572962.
JD256326 - Sequence 237350 from Patent EP1572962.
JD510098 - Sequence 491122 from Patent EP1572962.
JD245116 - Sequence 226140 from Patent EP1572962.
LF382158 - JP 2014500723-A/189661: Polycomb-Associated Non-Coding RNAs.
MA617735 - JP 2018138019-A/189661: Polycomb-Associated Non-Coding RNAs.
JD521415 - Sequence 502439 from Patent EP1572962.
JD298000 - Sequence 279024 from Patent EP1572962.
JD300140 - Sequence 281164 from Patent EP1572962.
JD041048 - Sequence 22072 from Patent EP1572962.
JD299231 - Sequence 280255 from Patent EP1572962.
JD335976 - Sequence 317000 from Patent EP1572962.
JD504597 - Sequence 485621 from Patent EP1572962.
JD271400 - Sequence 252424 from Patent EP1572962.
AB362928 - Homo sapiens TRIM5 mRNA for tripartite motif-containing protein 5 alpha, complete cds.
AY625000 - Homo sapiens cell-line TE671 TRIM5 alpha mRNA, complete cds.
DQ288685 - Homo sapiens TRIM5alpha (TRIM5) mRNA, complete cds.
LF382157 - JP 2014500723-A/189660: Polycomb-Associated Non-Coding RNAs.
MA617734 - JP 2018138019-A/189660: Polycomb-Associated Non-Coding RNAs.
LF382156 - JP 2014500723-A/189659: Polycomb-Associated Non-Coding RNAs.
MA617733 - JP 2018138019-A/189659: Polycomb-Associated Non-Coding RNAs.
JD448087 - Sequence 429111 from Patent EP1572962.
AF220026 - Homo sapiens tripartite motif protein TRIM5 isoform beta (TRIM5) mRNA, complete cds; alternatively spliced.
AF220027 - Homo sapiens tripartite motif protein TRIM5 isoform gamma (TRIM5) mRNA, complete cds; alternatively spliced.
JD300194 - Sequence 281218 from Patent EP1572962.
BC021258 - Homo sapiens tripartite motif-containing 5, mRNA (cDNA clone MGC:29623 IMAGE:4122548), complete cds.
HQ447250 - Synthetic construct Homo sapiens clone IMAGE:100070556; CCSB007774_01 tripartite motif-containing 5 (TRIM5) gene, encodes complete protein.
KJ899863 - Synthetic construct Homo sapiens clone ccsbBroadEn_09257 TRIM5 gene, encodes complete protein.
KR710559 - Synthetic construct Homo sapiens clone CCSBHm_00014059 TRIM5 (TRIM5) mRNA, encodes complete protein.
KR710560 - Synthetic construct Homo sapiens clone CCSBHm_00014060 TRIM5 (TRIM5) mRNA, encodes complete protein.
JF928462 - Homo sapiens tripartite motif containing 5 transcript variant kappa (TRIM5) mRNA, complete cds, alternatively spliced.
CU676898 - Synthetic construct Homo sapiens gateway clone IMAGE:100018161 5' read TRIM5 mRNA.
JF928461 - Homo sapiens tripartite motif containing 5 transcript variant iota (TRIM5) mRNA, complete cds, alternatively spliced.
JD118092 - Sequence 99116 from Patent EP1572962.
JD104106 - Sequence 85130 from Patent EP1572962.
JD170929 - Sequence 151953 from Patent EP1572962.
JD195036 - Sequence 176060 from Patent EP1572962.

-  Biochemical and Signaling Pathways
  Reactome (by CSHL, EBI, and GO)

Protein Q9C035 (Reactome details) participates in the following event(s):

R-HSA-877300 Interferon gamma signaling
R-HSA-913531 Interferon Signaling
R-HSA-1280215 Cytokine Signaling in Immune system
R-HSA-168256 Immune System

-  Other Names for This Gene
  Alternate Gene Symbols: A6NGQ1, A8WFA8, D3DQS8, D3DQS9, G3GJY1, NM_033034, Q2MLV4, Q2MLV8, Q2MLV9, Q2MLW1, Q2MLW3, Q2MLW4, Q2MLW6, Q2MLW7, Q2MLX1, Q2MLX2, Q2MLX3, Q2MLX5, Q2MLY3, Q2MLY4, Q2V6Q6, Q6GX26, Q8WU46, Q96SR5, Q9C031, Q9C032, Q9C033, Q9C034, Q9C035, RNF88, TRIM5_HUMAN, uc001mbm.1, uc001mbm.2, uc001mbm.3, uc001mbm.4
UCSC ID: uc001mbm.4
RefSeq Accession: NM_033034
Protein: Q9C035 (aka TRIM5_HUMAN or TRM5_HUMAN)
CCDS: CCDS31393.1

-  Methods, Credits, and Use Restrictions
  Click here for details on how this gene model was made and data restrictions if any.