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Category   Symbol Source: HGNC EntrezGene Ensembl GeneCards RNA genes CroW21
GIFtS

TRIM5 Gene

protein-coding   GIFtS: 59
GCID: GC11M005641

Tripartite Motif Containing 5

(Previous name: tripartite motif-containing 5)
Microbiology & Infectious Diseases Congress
  See related diseases
at  

(According to 1HGNC, 2Entrez Gene,
3UniProtKB/Swiss-Prot, 4UniProtKB/TrEMBL, 5OMIM, 6GeneLoc, 7Ensembl, 8DME, 9miRBase, 10fRNAdb, 12H-InvDB, 13NCBI, 14NONCODE, and/or 15RNAdb)
About This Section

This gene clusters with an RNA gene
Subcategory (RNA class): lncRNA

Quality score for the ORGUL clustered with this gene is 3

Aliases
Tripartite Motif Containing 51 2     TRIM5alpha2
RNF882 3 5     Tripartite Motif Containing 5 Transcript Variant Iota2
Tripartite Motif Protein TRIM51 2     Tripartite Motif Containing 5 Transcript Variant Kappa2
RING Finger Protein 882 3     Tripartite Motif-Containing Protein 52
Tripartite Motif Protein TRIM1     EC 6.3.2.-3
Tripartite Motif-Containing 51     EC 6.3.28

External Ids:    HGNC: 162761   Entrez Gene: 853632   Ensembl: ENSG000001322567   OMIM: 6084875   UniProtKB: Q9C0353   
ORGUL members:         
NONCODE14:n342750      

Export aliases for TRIM5 gene to outside databases

Previous GC identifers: GC11M006432 GC11M005986 GC11M005643 GC11M005649 GC11M005345


(According to Entrez Gene, Tocris Bioscience, Wikipedia's Gene Wiki, PharmGKB,
UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL)
About This Section

Entrez Gene summary for TRIM5 Gene:
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)

GeneCards Summary for TRIM5 Gene: 
TRIM5 (tripartite motif containing 5) is a protein-coding gene, and is affiliated with the lncRNA class. Diseases associated with TRIM5 include hiv-1, resistance to, and rubella. GO annotations related to this gene include ubiquitin-protein ligase activity and protein homodimerization activity. An important paralog of this gene is TRIM7.

UniProtKB/Swiss-Prot: TRIM5_HUMAN, Q9C035
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) and equine infectious anemia virus (EIAV)

Gene Wiki entry for TRIM5 (TRIM5alpha) Gene


(According to GeneLoc and/or HGNC, and/or
Entrez Gene (NCBI build 37),
and/or miRBase,
Genomic Views according to UCSC (hg19) and Ensembl (release 73), Regulatory elements and Epigenetics data according to QIAGEN, SABiosciences, and/or SwitchGear Genomics)
About This Section
RefSeq DNA sequence:
NC_000011.9  NT_009237.18  NC_018922.2  
Regulatory elements:
   SABiosciences Regulatory transcription factor binding sites in the TRIM5 gene promoter:
         c-Fos   AP-1   p53   JunB   Fra-1   FosB   IRF-1   IRF-2   JunD   c-Jun   
         Other transcription factors

SwitchGear Promoter luciferase reporter plasmidTRIM5 promoter sequence
   Search SABiosciences Chromatin IP Primers for TRIM5

Epigenetics:
QIAGEN PyroMark CpG Assay predesigned Pyrosequencing DNA Methylation assays in human, mouse, rat TRIM5


Genomic Location:
Genomic View: UCSC Golden Path with GeneCards custom track

Entrez Gene cytogenetic band: 11p15   Ensembl cytogenetic band:  11p15.4   HGNC cytogenetic band: 11p15

TRIM5 Gene in genomic location: bands according to Ensembl, locations according to (and/or Entrez Gene and/or Ensembl if different)
TRIM5 gene location

GeneLoc information about chromosome 11         GeneLoc Exon Structure

GeneLoc location for GC11M005641:  view genomic region     (about GC identifiers)

Start:
5,684,425 bp from pter      End:
5,959,849 bp from pter
Size:
275,425 bases      Orientation:
minus strand

(According to UniProtKB, HORDE, neXtProt, Ensembl, and/or Reactome, Modification sites according to PhosphoSitePlus, Specific Peptides from DME, Protein expression images according to data from SPIRE 1MOPED, 2PaxDb, and 3MAXQB RefSeq according to NCBI, PDB rendering according to OCA and/or Proteopedia, Recombinant Proteins from EMD Millipore, R&D Systems, GenScript, Enzo Life Sciences, OriGene, Novus Biologicals, Sino Biological, ProSpec, and/or Cloud-Clone Corp.,
Biochemical Assays by EMD Millipore, R&D Systems, OriGene, GenScript, Cell Signaling Technology, Enzo Life Sciences, and/or Cloud-Clone Corp., Ontologies according to Gene Ontology Consortium 01 Oct 2013 and Entrez Gene, Antibodies by EMD Millipore, R&D Systems, GenScript, Cell Signaling Technology, OriGene, Novus Biologicals, Thermo Fisher Scientific, LSBio, Abcam, and/or Cloud-Clone Corp.)
About This Section

UniProtKB/Swiss-Prot: TRIM5_HUMAN, Q9C035 (See protein sequence)
Recommended Name: Tripartite motif-containing protein 5  
Size: 493 amino acids; 56338 Da
Subunit: 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 (By
similarity). Interacts (via B30.2/SPRY domain) with HSPA1A/B. Interacts with PSMC2, SQSTM1, MAP3K7/TAK1, TAB2 and
TAB3
Subcellular location: Cytoplasm, P-body. Note=Closely associates with proteasomal subunits in cytoplasmic bodies
(By similarity). Co-localizes with SQSTM1 in cytoplasmic bodies
2 PDB 3D structures from and Proteopedia for TRIM5:
2ECV (3D)        2YRG (3D)    
Secondary accessions: A6NGQ1 A8WFA8 D3DQS8 D3DQS9 G3GJY1 Q2MLV4 Q2MLV8 Q2MLV9 Q2MLW1 Q2MLW3
Q2MLW4 Q2MLW6 Q2MLW7 Q2MLX1 Q2MLX2 Q2MLX3 Q2MLX5 Q2MLY3 Q2MLY4 Q2V6Q6 Q6GX26 Q8WU46 Q96SR5
Q9C031 Q9C032 Q9C033 Q9C034
Alternative splicing: 6 isoforms:  Q9C035-1   Q9C035-2   Q9C035-3   Q9C035-4   Q9C035-5   Q9C035-6   (Has dominant-negative activity against TRIM5alpha. Does not inhibit HIV-1 replication)

Explore the universe of human proteins at neXtProt for TRIM5: NX_Q9C035

Explore proteomics data for TRIM5 at MOPED 

Post-translational modifications:

  • UniProtKB: Degraded in a proteasome-independent fashion in the absence of viral infection but in a proteasome-dependent
    fashion following exposure to restriction sensitive virus
  • UniProtKB: Autoubiquitinated in a RING finger- and UBE2D2-dependent manner. Monoubiquitinated by TRIM21. Deubiquitinated by
    Yersinia YopJ. Ubiquitination may not lead to proteasomal degradation
  • View modification sites using PhosphoSitePlus
  • View neXtProt modification sites for NX_Q9C035

  • 4/34 DME Specific Peptides for TRIM5 (Q9C035) (see all 34)
     RRVFRAP  CPICLEL  EMVQQTQ  VDGVIKR 

    TRIM5 Protein expression data from MOPED1, PaxDb2 and MAXQB3 :    About this image 

    TRIM5 Protein Expression
    REFSEQ proteins (3 alternative transcripts): 
    NP_149023.2  NP_149083.2  NP_149084.2  

    ENSEMBL proteins: 
     ENSP00000369373   ENSP00000369366   ENSP00000393052   ENSP00000380058   ENSP00000398196  
     ENSP00000388031   ENSP00000388150   ENSP00000380064   ENSP00000380062   ENSP00000307031  

    Human Recombinant Protein Products for TRIM5: 
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    Browse Sino Biological Cell Lysates 
    Browse ProSpec Recombinant Proteins
    Cloud-Clone Corp. Proteins for TRIM5 

    Gene Ontology (GO): 5/6 cellular component terms (GO ID links to tree view) (see all 6):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0000932cytoplasmic mRNA processing body IDA12878161
    GO:0005622intracellular ----
    GO:0005634nucleus IDA--
    GO:0005730NOT nucleolus IDA--
    GO:0005737cytoplasm IDA--

    TRIM5 for ontologies           About GeneDecksing



    TRIM5 Antibody Products: 
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    Cloud-Clone Corp. CLIAs for TRIM5


    (According to HGNC, IUPHAR, InterPro, ProtoNet, UniProtKB, and/or BLOCKS, Sets of similar genes according to GeneDecks)
    About This Section
    HGNC Gene Families: 
    TRIM: Tripartite motif containing / Tripartite motif containing
    RNF: RING-type (C3HC4) zinc fingers

    5/8 InterPro protein domains (see all 8):
     IPR017907 Znf_RING_CS
     IPR001841 Znf_RING
     IPR001870 B30.2/SPRY
     IPR003877 SPRY_rcpt
     IPR000315 Znf_B-box

    Graphical View of Domain Structure for InterPro Entry Q9C035

    ProtoNet protein and cluster: Q9C035

    2 Blocks protein domains:
    IPB000315 B-box zinc finger signature
    IPB001841 Zn-finger


    UniProtKB/Swiss-Prot: TRIM5_HUMAN, Q9C035
    Domain: 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 (PubMed:22482711)
    Domain: The B30.2/SPRY domain acts as a capsid recognition domain. Polymorphisms in this domain explain the
    observed species-specific differences among orthologs (PubMed:22482711)
    Domain: The RING-type zinc finger domain confers E3 ubiquitin ligase activity and is essential for retrovirus
    restriction activity, autoubiquitination and higher-order multimerization (PubMed:22482711)
    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


    TRIM5 for domains           About GeneDecksing


    (According to 1UniProtKB, Genatlas, LifeMap Discovery™, IUBMB, and/or 2DME, Human phenotypes from GenomeRNAi, Animal models from MGI Mar 06 2013, inGenious Targeting Laboratory, genOway,
    bound targets from SABiosciences, miRNA Gene Targets from miRTarBase, shRNA from OriGene, RNAi from EMD Millipore, siRNAs from OriGene, QIAGEN, microRNA from QIAGEN, Gene Editing from DNA2.0, Sirion Biotech, Clones from EMD Millipore, OriGene, SwitchGear Genomics, GenScript, Sino Biological, DNA2.0, Vector BioLabs, and Sirion Biotech, Cell Lines from GenScript, LifeMap BioReagents, In Situ Hybridization Assays from Advanced Cell Diagnostics, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene.)
    About This Section

    Molecular Function:

         UniProtKB/Swiss-Prot Summary: TRIM5_HUMAN, Q9C035
    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) and equine infectious anemia virus (EIAV)

         Enzyme Numbers (IUBMB): EC 6.3.2.-1 EC 6.3.22

         Gene Ontology (GO): 5/7 molecular function terms (GO ID links to tree view) (see all 7):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0004842ubiquitin-protein ligase activity IDA--
    GO:0005515protein binding IPI12878161
    GO:0008270zinc ion binding IEA--
    GO:0008329signaling pattern recognition receptor activity IDA--
    GO:0042802identical protein binding IPI--
         
    TRIM5 for ontologies           About GeneDecksing


    Animal Models:
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    1 QIAGEN miScript miRNA Assays for microRNA that regulate TRIM5:
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    Inhib. RNA
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    Advanced Cell Diagnostics RNAscope RNA in situ hybridization assays for TRIM5


    (Pathways according to EMD Millipore, R&D Systems, Cell Signaling Technology, KEGG, PharmGKB, BioSystems, Sino Biological, Reactome, Tocris Bioscience, GeneGo (Thomson Reuters), QIAGEN, and/or UniProtKB, Sets of similar genes according to GeneDecks, Interaction Networks according to SABiosciences, and/or STRING, Interactions according to 1UniProtKB, 2MINT, 3I2D, and/or 4STRING, with links to IntAct and Ensembl, Ontologies according to Gene Ontology Consortium 01 Oct 2013 via Entrez Gene).
    About This Section



    UniProtKB/Swiss-Prot: TRIM5_HUMAN, Q9C035
    Pathway: Protein modification; protein ubiquitination

    Interactions:

        SABiosciences Gene Network CentralTM Interacting Genes and Proteins Network for TRIM5

    STRING Interaction Network Preview (showing 5 interactants - click image to see 25)

    5/34 Interacting proteins for TRIM5 (Q9C0351, 3 ENSP000003693734) via UniProtKB, MINT, STRING, and/or I2D (see all 34)

    InteractantInteraction Details
    GeneCardExternal ID(s)
    UBE2D3P610773, ENSP000003497224I2D: score=2 STRING: ENSP00000349722
    UBE2NP610883, ENSP000003161764I2D: score=2 STRING: ENSP00000316176
    UBE2UQ5VVX93, ENSP000003601164I2D: score=2 STRING: ENSP00000360116
    UBE2V1Q134043, ENSP000003403054I2D: score=2 STRING: ENSP00000340305
    ZWINTO952293, ENSP000003630554I2D: score=2 STRING: ENSP00000363055
    About this table

    Gene Ontology (GO): 5/11 biological process terms (GO ID links to tree view) (see all 11):    About this table

    GO IDQualified GO termEvidencePubMed IDs
    GO:0002218activation of innate immune response IDA--
    GO:0002221pattern recognition receptor signaling pathway IDA--
    GO:0019048modulation by virus of host morphology or physiology IEA--
    GO:0031664regulation of lipopolysaccharide-mediated signaling pathway IMP--
    GO:0043123positive regulation of I-kappaB kinase/NF-kappaB cascade IMP--

    TRIM5 for ontologies           About GeneDecksing



    (Chemical Compounds according to UniProtKB, Enzo Life Sciences, EMD Millipore, Tocris Bioscience HMDB, BitterDB, and/or Novoseek, Ligands according to IUPHAR, and Drugs according to DrugBank, Enzo Life Sciences, and/or PharmGKB, with drugs/clinical trials/news search links to CenterWatch)
    About This Section

    TRIM5 for compounds           About GeneDecksing

    Browse Small Molecules at EMD Millipore
    Browse drugs & compounds from Enzo Life Sciences

    Browse Tocris compounds for TRIM5

    4 HMDB Compounds for TRIM5    About this table
    CompoundSynonyms CAS #PubMed Ids
    Adenosine monophosphate5'-AMP (see all 28)61-19-8--
    Adenosine triphosphate5'-(tetrahydrogen triphosphate) Adenosine (see all 24)56-65-5--
    Phosphoric acidacide phosphorique (FRENCH) (see all 20)7664-38-2--
    Pyrophosphate(4-)Diphosphoric acid ion (see all 10)14000-31-8--

    2 Novoseek inferred chemical compound relationships for TRIM5 gene    About this table
    Compound   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    arsenite 43.3 1 19886997 (1)
    cyclosporin a 31.2 7 16641261 (2), 19886997 (1)

    Search CenterWatch for drugs/clinical trials and news about TRIM5

    (Secondary structures according to fRNAdb,
    GenBank/EMBL/DDBJ Accessions according to
    Unigene (Build 236 Homo sapiens; Apr 25 2013) or GenBank,
    RefSeq according to Entrez Gene,
    DOTS (version 10), and/or AceView, transcript ids from Ensembl with links to UCSC,
    Conferences by KenesGroup, exon structure from GeneLoc, alternative splicing isoforms according to ASD and/or ECgene,
    RNAi Products from EMD Millipore,
    siRNAs from OriGene, QIAGEN, shRNA from OriGene, microRNA from QIAGEN,
    Tagged/untagged cDNA clones from OriGene, SwitchGear Genomics, GenScript, DNA2.0, Vector BioLabs, Sirion Biotech, Primers from OriGene, SABiosciences, and/or QIAGEN )
    About This Section

    REFSEQ mRNAs for TRIM5 gene (3 alternative transcripts): 
    NM_033034.2  NM_033092.2  NM_033093.2  

    Unigene Cluster for TRIM5:

    Tripartite motif containing 5
    Hs.125300  [show with all ESTs]
    Unigene Representative Sequence: BX647152
    14 Ensembl transcripts including schematic representations, and UCSC links where relevant:
    ENST00000380034 ENST00000380027 ENST00000433961 ENST00000396847 ENST00000438025
    ENST00000483835 ENST00000492086 ENST00000465634 ENST00000487241 ENST00000412903(uc001mbq.1)
    ENST00000419850 ENST00000396855(uc001mbn.3) ENST00000396853(uc021qcx.1)
    ENST00000305836(uc001mbl.2 uc001mbm.2 uc001mbp.3)
    Congresses - knowledge worth sharing:  
    European Congress of Clinical Microbiology and Infectious Diseases (ECCMID) 10 - 13 May 2014

    miRNA
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    Additional mRNA sequence: 

    AB362928.1 AF220025.1 AF220026.1 AF220027.1 AF220028.1 AK027593.1 AK074363.1 AY625000.1 
    BC020770.1 BC021258.2 BX647152.1 DQ288685.1 JF928461.1 JF928462.1 

    20 DOTS entries:

    DT.95167029  DT.120723333  DT.40255563  DT.97859001  DT.100746653  DT.101504  DT.100640494  DT.445991 
    DT.100021286  DT.100692682  DT.95167026  DT.100746652  DT.120723380  DT.422385  DT.92324626  DT.95167027 
    DT.100738161  DT.91716647  DT.97779648  DT.97859002 

    24/99 AceView cDNA sequences (see all 99):

    AY625000 AF220029 AW070503 BM926476 AI146564 BX417025 AW651739 BX402271 
    AA861215 CR616862 AA463623 CA441064 AF220025 BC020770 BM683037 AW673202 
    CA444489 BX485199 BM739708 CB958623 NM_033093 CK429347 AF220027 AF220028 

    GeneLoc Exon Structure

    4 Alternative Splicing Database (ASD) splice patterns (SP) for TRIM5    About this scheme

    ExUns: 1a · 1b · 1c ^ 2 ^ 3 ^ 4 ^ 5a · 5b ^ 6a · 6b ^ 7 ^ 8 ^ 9
    SP1:                    -                                   -                     
    SP2:              -     -                                                         
    SP3:                                                                              
    SP4:                                                                              


    ECgene alternative splicing isoforms for TRIM5

    (RNA expression data according to H-InvDB, NONCODE, miRBase, and RNAdb, Expression images according to data from BioGPS, Illumina Human BodyMap, and CGAP SAGE, Sets of similar genes according to GeneDecks, in vivo and in vitro expression data from LifeMap Discovery™, plus additional links to Genevestigator, and/or SOURCE, and/or BioGPS, and/or UniProtKB,
    PCR Arrays from SABiosciences, Primers from OriGene, SABiosciences, and/or QIAGEN, In Situ Hybridization Assays from Advanced Cell Diagnostics)
    About This Section

    TRIM5 expression in normal human tissues (normalized intensities)
    See probesets specificity/sensitivity at GeneAnnot
    About this imageBioGPS <intensity>2/3
    CGAP TAG: --
    TRIM5 Expression
    About this image


    See TRIM5 Protein Expression from SPIRE MOPED and PaxDB
    Genevestigator expression for TRIM5

    SOURCE GeneReport for Unigene cluster: Hs.125300
        SABiosciences Expression via Pathway-Focused PCR Arrays including TRIM5: 
              HIV Host Response in human mouse rat
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    (Orthologs according to 1,2HomoloGene (2older version, for species not in 1newer version), 3euGenes, 4SGD , 5MGI Mar 06 2013, with possible further links to Flybase and/or WormBase, and/or 6Ensembl pan taxonomic compara , Gene Trees according to Ensembl and TreeFam)
    About This Section

    This gene was present in the common ancestor of human and mouse.

    Orthologs for TRIM5 gene from 1/4 species (see all 4)    About this table
    Organism Taxonomic
    classification
    Gene Description Human
    Similarity
    Orthology
    Type
    Details
    mouse
    (Mus musculus)
    Mammalia Trim51 , 5 tripartite motif-containing 51, 5 66.6(n)1
    53.54(a)1
      7 (55.69 cM)5
    6678231  XM_992714.41  XP_997808.21 
     1042633865 


    ENSEMBL Gene Tree for TRIM5 (if available)
    TreeFam Gene Tree for TRIM5 (if available)

    (Paralogs according to 1HomoloGene,
    2Ensembl, and 3SIMAP, Pseudogenes according to 4Pseudogene.org Build 68)
    About This Section
    Paralogs for TRIM5 gene
    TRIM72  TRIM42  TRIM262  TRIM392  TRIM342  TRIM272  TRIM582  TRIM682  
    TRIM102  TRIM152  TRIM602  TRIM222  TRIM172  TRIM62  TRIM6-TRIM342  TRIM212  
    TRIM382  TRIM112  TRIM39-RPP212  
    18/57 SIMAP similar genes for TRIM5 using alignment to 17 protein entries:     TRIM5_HUMAN (see all proteins) (see all similar genes):
    FAM3A    C12orf23    COQ5    pp12301    TRIM34    SH2B3
    TRIM22    KIAA1651    LOC100996577    TRIM6    TRIM6-TRIM34    TRIM36
    DKFZp781D1977    GEMIN6    TRIM39    TRIM60    SNRPF    TRIM21

    TRIM5 for paralogs           About GeneDecksing


    1 Pseudogenes.org Pseudogene for TRIM5
    PGOHUM00000258559


    (SNPs/Variants according to the 1NCBI SNP Database, 2Ensembl, 3PupaSUITE, 4UniProtKB, and DNA2.0, Linkage Disequilibrium by HapMap, Structural Variations(CNVs/InDels/Inversions) from the Database of Genomic Variants, Mutations from the Human Gene Mutation Database (HGMD) and the Locus Specific Mutation Databases (LSDB), Blood group antigen gene mutations by BGMUT, Resequencing Primers from QIAGEN, Cancer Mutation PCR Arrays and Assays and Copy Number PCR Arrays from SABiosciences)
    About This Section

    10/781 SNPs in TRIM5 are shown (see all 781)    About this table     
    Genomic DataTranscription Related DataAllele Frequencies
    SNP IDValidClinical
    significance
    Chr 11 posSequence#AA
    Chg
    TypeMore#Allele
    freq
    PopTotal
    sample
    More
    ----------
    rs113995781,2
    C--5352688(+) AATTG-/TTTACA 3 -- int10--------
    rs71171071,2
    C,F,A--5361622(+) CACCAC/TGCACT 3 -- int110Minor allele frequency- T:0.45NA NS WA EA 496
    rs71276091,2
    C,F,A--5361623(+) ACCATT/GCACTG 3 -- int110Minor allele frequency- G:0.45NA NS WA EA 496
    rs2007561381,2
    --5361623(+) ACCAT-/GCACTG 3 -- int10--------
    rs2012471891,2
    --5361842(+) AATAC-/TCCAGA 3 -- int10--------
    rs71287951,2
    C,F,A--5361843(+) AATACT/CCAGAG 3 -- int110Minor allele frequency- C:0.49NA NS WA EA 500
    rs71140841,2
    C,F,A--5361845(+) TACCCC/AGAGCA 3 -- int111Minor allele frequency- A:0.49NA NS WA EA 502
    rs2017079421,2
    C--5363897(+) CCCGC-/CTTCGGA 3 -- int10--------
    rs710532941,2
    C--5366772(+) AAAAA-/AA/AAA
            
    AAAAA
    6 -- us2k1 cds11NA 2
    rs2003388821,2
    C--5367860(+) AAAAAA/TAGTAA 3 -- us2k10--------

    HapMap Linkage Disequilibrium report for TRIM5 (5684425 - 5934425 bp, first 250kb of TRIM5)

    Structural Variations
         Database of Genomic Variants (DGV) 3 variations for TRIM5:    About this table     
    Variant IDTypeSubtypePubMed ID
    esv22319CNV Loss19812545
    nsv896939CNV Loss21882294
    nsv896948CNV Loss21882294


    Human Gene Mutation Database (HGMD): TRIM5
    SABiosciences Cancer Mutation PCR Assays
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    (in which this Gene is Involved, According to MalaCards, OMIM, UniProtKB, the University of Copenhagen DISEASES database, Conferences by KenesGroup, Novoseek, Genatlas, GeneTests, GAD, HuGE Navigator, and/or TGDB.)
    About This Section
    OMIM gene information: 608487    OMIM disorders: --

    8 diseases for TRIM5:    About MalaCards
    hiv-1, resistance to    rubella    human immunodeficiency virus infectious disease    familial mediterranean fever
    migraine    severe combined immunodeficiency    anemia    leukemia

    1 disease from the University of Copenhagen DISEASES database for TRIM5:
    Acquired immunodeficiency syndrome

    TRIM5 for disorders           About GeneDecksing


    Congresses - knowledge worth sharing:  
    The International Symposium on Pneumococci and Pneumococcal Diseases (ISPPD) 9 - 13 March 2014

    5 Novoseek inferred disease relationships for TRIM5 gene    About this table

    Disease   -log (P-Val)   Hits   PubMed IDs for Articles with Shared Sentences (# sentences)
    immunodeficiency 68.1 30 19746418 (2), 15709033 (2), 17028189 (1), 17156811 (1) (see all 23)
    retrovirus infections 66.7 2 16289103 (1)
    leukemia 46.8 9 15249690 (1), 18497858 (1), 15767395 (1), 15249687 (1) (see all 7)
    virus infection 22.4 2 17609277 (1), 19896724 (1)
    aids 0 1 16943852 (1)

    Genetic Association Database (GAD): TRIM5
    Human Genome Epidemiology (HuGE) Navigator: TRIM5 (7 documents)

    Export disorders for TRIM5 gene to outside databases

    (in PubMed. Associations of this gene to articles via 1Entrez Gene, 2UniProtKB/Swiss-Prot, 3HGNC, 4GAD, 5PharmGKB, 6HMDB, 7DrugBank, 8UniProtKB/TrEMBL, 9 Novoseek, and/or 10fRNAdb)
    About This Section

    PubMed articles for TRIM5 gene, integrated from 9 sources (see all 195):
    (articles sorted by number of sources associating them with TRIM5)
        Utopia: connect your pdf to the dynamic
    world of online information

    1. The tripartite motif family identifies cell compartments. (PubMed id 11331580)1, 2, 3 Reymond A.... Ballabio A. (2001)
    2. p62/sequestosome-1 associates with and sustains the e xpression of retroviral restriction factor TRIM5alpha. (PubMed id 20357094)1, 2, 9 O'Connor C....Campbell E.M. (2010)
    3. Retroviral restriction factors Fv1 and TRIM5alpha act independently and can compete for incoming virus before reverse transcription. (PubMed id 16474118)1, 2, 9 Passerini L.D.... Towers G.J. (2006)
    4. Trim5alpha protein restricts both HIV-1 and murine leukemia virus. (PubMed id 15249690)1, 2, 9 Yap M.W.... Stoye J.P. (2004)
    5. The effect of Trim5 polymorphisms on the clinical course of HIV-1 infection. (PubMed id 18248091)1, 4, 9 van Manen D....Kootstra N.A. (2008)
    6. High-frequency persistence of an impaired allele of the retroviral defense gene TRIM5alpha in humans. (PubMed id 16401428)1, 2, 9 Sawyer S.L.... Malik H.S. (2006)
    7. TRIM5 structure, HIV-1 capsid recognition, and innate immune signaling. (PubMed id 22482711)1, 2 Grutter M.G. and Luban J. (2012)
    8. TRIM5alpha and species tropism of HIV/SIV. (PubMed id 22291694)1, 2 Nakayama E.E. and Shioda T. (2012)
    9. TRIM5 is an innate immune sensor for the retrovirus c apsid lattice. (PubMed id 21512573)1, 2 Pertel T....Luban J. (2011)
    10. Antiviral immunity: TRIM5 moonlights as a pattern recognition receptor. (PubMed id 21572451)1, 2 Jermy A. (2011)

    (in PubMed, OMIM, and NCBI Bookshelf)
    About This Section
     ANDOR
    Aliases
    Disorders
    Free Text  

      Query String
    PubMed
    OMIM
    NCBI Bookshelf
      (Note: In FireFox, select the above section and copy using Ctrl-C)

    (According to Entrez Gene, HGNC, AceView, euGenes, Ensembl, miRBase, ECgene, Kegg, and/or H-InvDB)
    About This Section
    Entrez Gene: 85363 HGNC: 16276 AceView: TRIM5 Ensembl:ENSG00000132256 euGenes: HUgn85363
    ECgene: TRIM5 H-InvDB: TRIM5

    (According to HUGE)
    About This Section
      --

    (According to PharmGKB, ATLAS, HORDE, IMGT, LEIDEN, UniProtKB/Swiss-Prot, and/or UniProtKB/TrEMBL,
    Wikipedia and/or GeneReviews via UniProtKB/Swiss-Prot)
    About This Section
    NameDescription
    PharmGKB entry for TRIM5 Pharmacogenomics, SNPs, Pathways
    NIEHS-SNPshttp://egp.gs.washington.edu/data/trim5/

    (Patent information from GeneIP,
    Licensable technologies from WIS Yeda, Salk, Tufts,
    IP news from LifeMap Sciences, Inc.)
    About This Section
    Patent Information for TRIM5 gene:
    Search GeneIP for patents involving TRIM5

    GeneCards and IP:
    Japan Patent Office Licenses GeneCards     European Patent Office Licenses GeneCards     Improving the IP Search



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    About This Section

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