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Protein

E3 ubiquitin-protein ligase TRIM4

Gene

TRIM4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

E3 ubiquitin-protein ligase. Mediates 'Lys-63'-linked polyubiquitination of the innate immune receptor DDX58, this linkage doesn't lead to proteasomal degradation but seems to enhance IFN induction.1 Publication

Catalytic activityi

S-ubiquitinyl-[E2 ubiquitin-conjugating enzyme]-L-cysteine + [acceptor protein]-L-lysine = [E2 ubiquitin-conjugating enzyme]-L-cysteine + N6-ubiquitinyl-[acceptor protein]-L-lysine.

Pathwayi: protein ubiquitination

This protein is involved in the pathway protein ubiquitination, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein ubiquitination and in Protein modification.

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri12 – 53RING-typePROSITE-ProRule annotationAdd BLAST42
Zinc fingeri82 – 123B box-typePROSITE-ProRule annotationAdd BLAST42

GO - Molecular functioni

GO - Biological processi

  • innate immune response Source: UniProtKB-KW
  • protein trimerization Source: UniProtKB
  • protein ubiquitination Source: UniProtKB-UniPathway

Keywordsi

Molecular functionTransferase
Biological processImmunity, Innate immunity, Ubl conjugation pathway
LigandMetal-binding, Zinc

Enzyme and pathway databases

ReactomeiR-HSA-983168 Antigen processing: Ubiquitination & Proteasome degradation
UniPathwayiUPA00143

Names & Taxonomyi

Protein namesi
Recommended name:
E3 ubiquitin-protein ligase TRIM4 (EC:2.3.2.27)
Alternative name(s):
RING finger protein 87
RING-type E3 ubiquitin transferase TRIM4Curated
Tripartite motif-containing protein 4
Gene namesi
Name:TRIM4
Synonyms:RNF87
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 7

Organism-specific databases

EuPathDBiHostDB:ENSG00000146833.15
HGNCiHGNC:16275 TRIM4
neXtProtiNX_Q9C037

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi27C → S: Abolishes ligase activity. 1 Publication1

Organism-specific databases

DisGeNETi89122
OpenTargetsiENSG00000146833
PharmGKBiPA38108

Polymorphism and mutation databases

BioMutaiTRIM4
DMDMi209572691

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000562001 – 500E3 ubiquitin-protein ligase TRIM4Add BLAST500

Proteomic databases

EPDiQ9C037
MaxQBiQ9C037
PaxDbiQ9C037
PeptideAtlasiQ9C037
PRIDEiQ9C037
ProteomicsDBi79957
79958 [Q9C037-2]
79959 [Q9C037-3]

PTM databases

iPTMnetiQ9C037
PhosphoSitePlusiQ9C037
SwissPalmiQ9C037

Expressioni

Gene expression databases

BgeeiENSG00000146833
CleanExiHS_TRIM4
ExpressionAtlasiQ9C037 baseline and differential
GenevisibleiQ9C037 HS

Organism-specific databases

HPAiHPA019356
HPA029461

Interactioni

Subunit structurei

Homotrimer.1 Publication

Protein-protein interaction databases

BioGridi124585, 13 interactors
IntActiQ9C037, 4 interactors
STRINGi9606.ENSP00000348216

Structurei

3D structure databases

ProteinModelPortaliQ9C037
SMRiQ9C037
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini288 – 500B30.2/SPRYPROSITE-ProRule annotationAdd BLAST213

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili212 – 253Sequence analysisAdd BLAST42

Sequence similaritiesi

Belongs to the TRIM/RBCC family.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri12 – 53RING-typePROSITE-ProRule annotationAdd BLAST42
Zinc fingeri82 – 123B box-typePROSITE-ProRule annotationAdd BLAST42

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

eggNOGiKOG2177 Eukaryota
ENOG4111G04 LUCA
GeneTreeiENSGT00760000118893
HOGENOMiHOG000234133
HOVERGENiHBG001357
InParanoidiQ9C037
KOiK11998
OMAiFQHLPCV
OrthoDBiEOG091G05W2
PhylomeDBiQ9C037
TreeFamiTF338674

Family and domain databases

CDDicd00021 BBOX, 1 hit
cd15809 SPRY_PRY_TRIM4, 1 hit
Gene3Di3.30.40.10, 1 hit
InterProiView protein in InterPro
IPR001870 B30.2/SPRY
IPR003879 Butyrophylin_SPRY
IPR013320 ConA-like_dom_sf
IPR035829 PRY/SPRY_TRIM4
IPR003877 SPRY_dom
IPR000315 Znf_B-box
IPR001841 Znf_RING
IPR013083 Znf_RING/FYVE/PHD
IPR017907 Znf_RING_CS
PfamiView protein in Pfam
PF00622 SPRY, 1 hit
PF00643 zf-B_box, 1 hit
PRINTSiPR01407 BUTYPHLNCDUF
SMARTiView protein in SMART
SM00336 BBOX, 1 hit
SM00184 RING, 1 hit
SM00449 SPRY, 1 hit
SUPFAMiSSF49899 SSF49899, 1 hit
PROSITEiView protein in PROSITE
PS50188 B302_SPRY, 1 hit
PS50119 ZF_BBOX, 1 hit
PS00518 ZF_RING_1, 1 hit
PS50089 ZF_RING_2, 1 hit

Sequences (3)i

Sequence statusi: Complete.

This entry describes 3 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform Alpha (identifier: Q9C037-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
MEAEDIQEEL TCPICLDYFQ DPVSIECGHN FCRGCLHRNW APGGGPFPCP
60 70 80 90 100
ECRHPSAPAA LRPNWALARL TEKTQRRRLG PVPPGLCGRH WEPLRLFCED
110 120 130 140 150
DQRPVCLVCR ESQEHQTHAM APIDEAFESY RTGNFDIHVD EWKRRLIRLL
160 170 180 190 200
LYHFKQEEKL LKSQRNLVAK MKKVMHLQDV EVKNATQWKD KIKSQRMRIS
210 220 230 240 250
TEFSKLHNFL VEEEDLFLQR LNKEEEETKK KLNENTLKLN QTIASLKKLI
260 270 280 290 300
LEVGEKSQAP TLELLQNPKE VLTRSEIQDV NYSLEAVKVK TVCQIPLMKE
310 320 330 340 350
MLKRFQVAVN LAEDTAHPKL VFSQEGRYVK NTASASSWPV FSSAWNYFAG
360 370 380 390 400
WRNPQKTAFV ERFQHLPCVL GKNVFTSGKH YWEVESRDSL EVAVGVCRED
410 420 430 440 450
VMGITDRSKM SPDVGIWAIY WSAAGYWPLI GFPGTPTQQE PALHRVGVYL
460 470 480 490 500
DRGTGNVSFY SAVDGVHLHT FSCSSVSRLR PFFWLSPLAS LVIPPVTDRK
Length:500
Mass (Da):57,461
Last modified:October 14, 2008 - v2
Checksum:i427D7F3DBF53A72C
GO
Isoform Beta (identifier: Q9C037-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     132-157: Missing.

Show »
Length:474
Mass (Da):54,151
Checksum:iB8C2FB94B2E2183E
GO
Isoform Gamma (identifier: Q9C037-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     132-157: Missing.
     307-320: VAVNLAEDTAHPKL → ATKIKTQKQNRHNM
     321-500: Missing.

Show »
Length:294
Mass (Da):34,194
Checksum:i3E5F09926DD4A824
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti154F → S in AAG53477 (PubMed:11331580).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_046715367P → S. Corresponds to variant dbSNP:rs35432946Ensembl.1
Natural variantiVAR_046716474S → C. Corresponds to variant dbSNP:rs33998596Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_010197132 – 157Missing in isoform Beta and isoform Gamma. 2 PublicationsAdd BLAST26
Alternative sequenceiVSP_010198307 – 320VAVNL…AHPKL → ATKIKTQKQNRHNM in isoform Gamma. 1 PublicationAdd BLAST14
Alternative sequenceiVSP_010199321 – 500Missing in isoform Gamma. 1 PublicationAdd BLAST180

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF220023 mRNA Translation: AAG53477.1
AF220024 mRNA Translation: AAG53478.1
AC011904 Genomic DNA Translation: AAS07396.1
AC011904 Genomic DNA Translation: AAS07398.1
AC011904 Genomic DNA Translation: AAS07397.1
CH236956 Genomic DNA Translation: EAL23864.1
CH471091 Genomic DNA Translation: EAW76625.1
CH471091 Genomic DNA Translation: EAW76626.1
CH236956 Genomic DNA Translation: EAL23865.1
BC011763 mRNA Translation: AAH11763.1
BC025949 mRNA Translation: AAH25949.1
CCDSiCCDS5678.1 [Q9C037-2]
CCDS5679.1 [Q9C037-1]
RefSeqiNP_148977.2, NM_033017.3 [Q9C037-1]
NP_149082.1, NM_033091.2 [Q9C037-2]
UniGeneiHs.50749

Genome annotation databases

EnsembliENST00000349062; ENSP00000275736; ENSG00000146833 [Q9C037-2]
ENST00000354241; ENSP00000346186; ENSG00000146833 [Q9C037-3]
ENST00000355947; ENSP00000348216; ENSG00000146833 [Q9C037-1]
GeneIDi89122
KEGGihsa:89122
UCSCiuc003usd.4 human [Q9C037-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiTRIM4_HUMAN
AccessioniPrimary (citable) accession number: Q9C037
Secondary accession number(s): A4D298
, Q75MK1, Q96F06, Q9C036
Entry historyiIntegrated into UniProtKB/Swiss-Prot: May 10, 2004
Last sequence update: October 14, 2008
Last modified: June 20, 2018
This is version 147 of the entry and version 2 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 7
    Human chromosome 7: entries, gene names and cross-references to MIM
  2. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  3. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  4. PATHWAY comments
    Index of metabolic and biosynthesis pathways
  5. SIMILARITY comments
    Index of protein domains and families

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