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Trim56 tripartite motif-containing 56 [ Mus musculus (house mouse) ]

Gene ID: 384309, updated on 19-Feb-2019

Summary

Official Symbol
Trim56provided by MGI
Official Full Name
tripartite motif-containing 56provided by MGI
Primary source
MGI:MGI:2685298
See related
Ensembl:ENSMUSG00000043279
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Mus musculus
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae; Murinae; Mus; Mus
Also known as
Gm452; RNF109; A130009K11Rik
Expression
Broad expression in thymus adult (RPKM 6.7), spleen adult (RPKM 5.3) and 21 other tissues See more
Orthologs

Genomic context

See Trim56 in Genome Data Viewer
Location:
5; 5 G2
Exon count:
4
Annotation release Status Assembly Chr Location
106 current GRCm38.p4 (GCF_000001635.24) 5 NC_000071.6 (137111286..137116466, complement)
Build 37.2 previous assembly MGSCv37 (GCF_000001635.18) 5 NC_000071.5 (137587156..137592077, complement)

Chromosome 5 - NC_000071.6Genomic Context describing neighboring genes Neighboring gene adaptor protein complex AP-1, sigma 1 Neighboring gene serine (or cysteine) peptidase inhibitor, clade E, member 1 Neighboring gene mucin 3, intestinal Neighboring gene predicted gene, 40348 Neighboring gene predicted gene, 31160

Genomic regions, transcripts, and products

Expression

  • Project title: Mouse ENCODE transcriptome data
  • Description: RNA profiling data sets generated by the Mouse ENCODE project.
  • BioProject: PRJNA66167
  • Publication: PMID 25409824
  • Analysis date: n/a

Variation

Alleles

Alleles of this type are documented at Mouse Genome Informatics  (MGI)
  • Targeted (1) 

Pathways from BioSystems

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Homology

Clone Names

  • MGC37358

Gene Ontology Provided by MGI

Function Evidence Code Pubs
metal ion binding IEA
Inferred from Electronic Annotation
more info
 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
transferase activity IEA
Inferred from Electronic Annotation
more info
 
ubiquitin protein ligase activity IDA
Inferred from Direct Assay
more info
PubMed 
ubiquitin-protein transferase activity IDA
Inferred from Direct Assay
more info
PubMed 
zinc ion binding IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
defense response to virus IMP
Inferred from Mutant Phenotype
more info
PubMed 
immune system process IEA
Inferred from Electronic Annotation
more info
 
innate immune response IDA
Inferred from Direct Assay
more info
PubMed 
interferon-beta production IMP
Inferred from Mutant Phenotype
more info
PubMed 
negative regulation of viral entry into host cell IDA
Inferred from Direct Assay
more info
PubMed 
negative regulation of viral release from host cell IDA
Inferred from Direct Assay
more info
PubMed 
protein K63-linked ubiquitination IDA
Inferred from Direct Assay
more info
PubMed 
response to type I interferon IDA
Inferred from Direct Assay
more info
PubMed 
Component Evidence Code Pubs
cytoplasm IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
E3 ubiquitin-protein ligase TRIM56
Names
RING-type E3 ubiquitin transferase TRIM56
tripartite motif-containing protein 56
NP_958761.1
XP_006504504.1
XP_011239185.1

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_201373.4NP_958761.1  E3 ubiquitin-protein ligase TRIM56

    See identical proteins and their annotated locations for NP_958761.1

    Status: VALIDATED

    Source sequence(s)
    AC147986
    Consensus CDS
    CCDS19762.1
    UniProtKB/Swiss-Prot
    Q80VI1
    UniProtKB/TrEMBL
    A0A0R4J0Q6
    Related
    ENSMUSP00000058109.5, ENSMUST00000054384.5
    Conserved Domains (5) summary
    cd00021
    Location:169205
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd00162
    Location:2163
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd05819
    Location:531569
    NHL; NHL repeat [structural motif]
    sd00039
    Location:540568
    7WD40; WD40 repeat [structural motif]
    cl18310
    Location:500727
    NHL; NHL repeat unit of beta-propeller proteins

RefSeqs of Annotated Genomes: Mus musculus Annotation Release 106

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCm38.p4 C57BL/6J

Genomic

  1. NC_000071.6 Reference GRCm38.p4 C57BL/6J

    Range
    137111286..137116466 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_011240883.1XP_011239185.1  E3 ubiquitin-protein ligase TRIM56 isoform X1

    See identical proteins and their annotated locations for XP_011239185.1

    UniProtKB/Swiss-Prot
    Q80VI1
    UniProtKB/TrEMBL
    A0A0R4J0Q6
    Conserved Domains (5) summary
    cd00021
    Location:169205
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd00162
    Location:2163
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd05819
    Location:531569
    NHL; NHL repeat [structural motif]
    sd00039
    Location:540568
    7WD40; WD40 repeat [structural motif]
    cl18310
    Location:500727
    NHL; NHL repeat unit of beta-propeller proteins
  2. XM_006504441.3XP_006504504.1  E3 ubiquitin-protein ligase TRIM56 isoform X1

    See identical proteins and their annotated locations for XP_006504504.1

    UniProtKB/Swiss-Prot
    Q80VI1
    UniProtKB/TrEMBL
    A0A0R4J0Q6
    Conserved Domains (5) summary
    cd00021
    Location:169205
    BBOX; B-Box-type zinc finger; zinc binding domain (CHC3H2); often present in combination with other motifs, like RING zinc finger, NHL motif, coiled-coil or RFP domain in functionally unrelated proteins, most likely mediating protein-protein interaction.
    cd00162
    Location:2163
    RING; RING-finger (Really Interesting New Gene) domain, a specialized type of Zn-finger of 40 to 60 residues that binds two atoms of zinc; defined by the 'cross-brace' motif C-X2-C-X(9-39)-C-X(1-3)- H-X(2-3)-(N/C/H)-X2-C-X(4-48)C-X2-C; probably involved in ...
    cd05819
    Location:531569
    NHL; NHL repeat [structural motif]
    sd00039
    Location:540568
    7WD40; WD40 repeat [structural motif]
    cl18310
    Location:500727
    NHL; NHL repeat unit of beta-propeller proteins
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