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Protein

V-set and immunoglobulin domain-containing protein 4

Gene

VSIG4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Phagocytic receptor, strong negative regulator of T-cell proliferation and IL2 production. Potent inhibitor of the alternative complement pathway convertases.2 Publications

GO - Biological processi

Complete GO annotation...

Keywords - Biological processi

Complement alternate pathway, Immunity, Innate immunity

Enzyme and pathway databases

BioCyciZFISH:ENSG00000155659-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
V-set and immunoglobulin domain-containing protein 4
Alternative name(s):
Protein Z39Ig
Gene namesi
Name:VSIG4
Synonyms:CRIg, Z39IG
ORF Names:UNQ317/PRO362
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome X

Organism-specific databases

HGNCiHGNC:17032. VSIG4.

Subcellular locationi

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini20 – 283ExtracellularSequence analysisAdd BLAST264
Transmembranei284 – 304HelicalSequence analysisAdd BLAST21
Topological domaini305 – 399CytoplasmicSequence analysisAdd BLAST95

GO - Cellular componenti

  • extracellular exosome Source: UniProtKB
  • integral component of membrane Source: UniProtKB-KW
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi11326.
OpenTargetsiENSG00000155659.
PharmGKBiPA134986421.

Polymorphism and mutation databases

BioMutaiVSIG4.
DMDMi59799152.

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 191 PublicationAdd BLAST19
ChainiPRO_000001500620 – 399V-set and immunoglobulin domain-containing protein 4Add BLAST380

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi41 ↔ 113PROSITE-ProRule annotation1 Publication
Disulfide bondi165 ↔ 211PROSITE-ProRule annotation

Keywords - PTMi

Disulfide bond

Proteomic databases

PaxDbiQ9Y279.
PeptideAtlasiQ9Y279.
PRIDEiQ9Y279.

PTM databases

iPTMnetiQ9Y279.
PhosphoSitePlusiQ9Y279.

Expressioni

Tissue specificityi

Abundantly expressed in several fetal tissues. In adult tissues, highest expression in lung and placenta. Expressed in resting macrophages.2 Publications

Gene expression databases

BgeeiENSG00000155659.
CleanExiHS_VSIG4.
ExpressionAtlasiQ9Y279. baseline and differential.
GenevisibleiQ9Y279. HS.

Organism-specific databases

HPAiCAB026000.
HPA003903.

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
C3P010245EBI-903144,EBI-905851

Protein-protein interaction databases

BioGridi116455. 64 interactors.
IntActiQ9Y279. 2 interactors.
STRINGi9606.ENSP00000363869.

Structurei

Secondary structure

1399
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi27 – 32Combined sources6
Beta strandi37 – 39Combined sources3
Beta strandi50 – 58Combined sources9
Beta strandi60 – 63Combined sources4
Beta strandi65 – 71Combined sources7
Beta strandi74 – 77Combined sources4
Helixi80 – 82Combined sources3
Turni83 – 85Combined sources3
Beta strandi86 – 88Combined sources3
Beta strandi98 – 100Combined sources3
Helixi105 – 107Combined sources3
Beta strandi109 – 118Combined sources10
Beta strandi124 – 136Combined sources13

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ICCX-ray1.20A19-137[»]
2ICEX-ray3.10S/T19-137[»]
2ICFX-ray4.10S19-137[»]
ProteinModelPortaliQ9Y279.
SMRiQ9Y279.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiQ9Y279.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini21 – 131Ig-like 1Add BLAST111
Domaini143 – 226Ig-like 2Add BLAST84

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IJ95. Eukaryota.
ENOG410YP5S. LUCA.
GeneTreeiENSGT00390000001432.
HOGENOMiHOG000137602.
HOVERGENiHBG055008.
InParanoidiQ9Y279.
KOiK19822.
OMAiMAYIMLC.
OrthoDBiEOG091G0AX2.
PhylomeDBiQ9Y279.
TreeFamiTF336175.

Family and domain databases

Gene3Di2.60.40.10. 2 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013106. Ig_V-set.
[Graphical view]
PfamiPF07686. V-set. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 2 hits.
SM00408. IGc2. 1 hit.
SM00406. IGv. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 2 hits.
PROSITEiPS50835. IG_LIKE. 2 hits.
[Graphical view]

Sequences (3)i

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

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

Isoform 1 (identifier: Q9Y279-1) [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
MGILLGLLLL GHLTVDTYGR PILEVPESVT GPWKGDVNLP CTYDPLQGYT
60 70 80 90 100
QVLVKWLVQR GSDPVTIFLR DSSGDHIQQA KYQGRLHVSH KVPGDVSLQL
110 120 130 140 150
STLEMDDRSH YTCEVTWQTP DGNQVVRDKI TELRVQKLSV SKPTVTTGSG
160 170 180 190 200
YGFTVPQGMR ISLQCQARGS PPISYIWYKQ QTNNQEPIKV ATLSTLLFKP
210 220 230 240 250
AVIADSGSYF CTAKGQVGSE QHSDIVKFVV KDSSKLLKTK TEAPTTMTYP
260 270 280 290 300
LKATSTVKQS WDWTTDMDGY LGETSAGPGK SLPVFAIILI ISLCCMVVFT
310 320 330 340 350
MAYIMLCRKT SQQEHVYEAA RAHAREANDS GETMRVAIFA SGCSSDEPTS
360 370 380 390
QNLGNNYSDE PCIGQEYQII AQINGNYARL LDTVPLDYEF LATEGKSVC
Length:399
Mass (Da):43,987
Last modified:November 1, 1999 - v1
Checksum:i735CA3BC58185035
GO
Isoform 2 (identifier: Q9Y279-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     322-399: Missing.

Note: No experimental confirmation available.
Show »
Length:321
Mass (Da):35,544
Checksum:iB2AB2E3151D39C6E
GO
Isoform 3 (identifier: Q9Y279-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     138-232: LSVSKPTVTT...SDIVKFVVKD → H

Show »
Length:305
Mass (Da):33,857
Checksum:i12C57C74CCD69134
GO

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_049956108R → W.Corresponds to variant rs34581041dbSNPEnsembl.1
Natural variantiVAR_049957272G → E.Corresponds to variant rs34222730dbSNPEnsembl.1
Natural variantiVAR_049958279G → E.Corresponds to variant rs17315645dbSNPEnsembl.1
Natural variantiVAR_049959397S → I.Corresponds to variant rs35553694dbSNPEnsembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_041213138 – 232LSVSK…FVVKD → H in isoform 3. 1 PublicationAdd BLAST95
Alternative sequenceiVSP_012813322 – 399Missing in isoform 2. 1 PublicationAdd BLAST78

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ132502 mRNA. Translation: CAB51536.1.
AY358341 mRNA. Translation: AAQ88707.1.
AL034397 Genomic DNA. Translation: CAB46921.1.
CR607860 mRNA. No translation available.
BC010525 mRNA. Translation: AAH10525.1.
CCDSiCCDS14383.1. [Q9Y279-1]
CCDS48132.1. [Q9Y279-3]
CCDS55435.1. [Q9Y279-2]
RefSeqiNP_001093901.1. NM_001100431.1. [Q9Y279-3]
NP_001171759.1. NM_001184830.1. [Q9Y279-2]
NP_001171760.1. NM_001184831.1.
NP_001244332.1. NM_001257403.1.
NP_009199.1. NM_007268.2. [Q9Y279-1]
UniGeneiHs.8904.

Genome annotation databases

EnsembliENST00000374737; ENSP00000363869; ENSG00000155659. [Q9Y279-1]
ENST00000412866; ENSP00000394143; ENSG00000155659. [Q9Y279-3]
ENST00000455586; ENSP00000411581; ENSG00000155659. [Q9Y279-2]
GeneIDi11326.
KEGGihsa:11326.
UCSCiuc004dwh.3. human. [Q9Y279-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ132502 mRNA. Translation: CAB51536.1.
AY358341 mRNA. Translation: AAQ88707.1.
AL034397 Genomic DNA. Translation: CAB46921.1.
CR607860 mRNA. No translation available.
BC010525 mRNA. Translation: AAH10525.1.
CCDSiCCDS14383.1. [Q9Y279-1]
CCDS48132.1. [Q9Y279-3]
CCDS55435.1. [Q9Y279-2]
RefSeqiNP_001093901.1. NM_001100431.1. [Q9Y279-3]
NP_001171759.1. NM_001184830.1. [Q9Y279-2]
NP_001171760.1. NM_001184831.1.
NP_001244332.1. NM_001257403.1.
NP_009199.1. NM_007268.2. [Q9Y279-1]
UniGeneiHs.8904.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
2ICCX-ray1.20A19-137[»]
2ICEX-ray3.10S/T19-137[»]
2ICFX-ray4.10S19-137[»]
ProteinModelPortaliQ9Y279.
SMRiQ9Y279.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi116455. 64 interactors.
IntActiQ9Y279. 2 interactors.
STRINGi9606.ENSP00000363869.

PTM databases

iPTMnetiQ9Y279.
PhosphoSitePlusiQ9Y279.

Polymorphism and mutation databases

BioMutaiVSIG4.
DMDMi59799152.

Proteomic databases

PaxDbiQ9Y279.
PeptideAtlasiQ9Y279.
PRIDEiQ9Y279.

Protocols and materials databases

DNASUi11326.
Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000374737; ENSP00000363869; ENSG00000155659. [Q9Y279-1]
ENST00000412866; ENSP00000394143; ENSG00000155659. [Q9Y279-3]
ENST00000455586; ENSP00000411581; ENSG00000155659. [Q9Y279-2]
GeneIDi11326.
KEGGihsa:11326.
UCSCiuc004dwh.3. human. [Q9Y279-1]

Organism-specific databases

CTDi11326.
DisGeNETi11326.
GeneCardsiVSIG4.
HGNCiHGNC:17032. VSIG4.
HPAiCAB026000.
HPA003903.
MIMi300353. gene.
neXtProtiNX_Q9Y279.
OpenTargetsiENSG00000155659.
PharmGKBiPA134986421.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiENOG410IJ95. Eukaryota.
ENOG410YP5S. LUCA.
GeneTreeiENSGT00390000001432.
HOGENOMiHOG000137602.
HOVERGENiHBG055008.
InParanoidiQ9Y279.
KOiK19822.
OMAiMAYIMLC.
OrthoDBiEOG091G0AX2.
PhylomeDBiQ9Y279.
TreeFamiTF336175.

Enzyme and pathway databases

BioCyciZFISH:ENSG00000155659-MONOMER.

Miscellaneous databases

EvolutionaryTraceiQ9Y279.
GenomeRNAii11326.
PROiQ9Y279.
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000155659.
CleanExiHS_VSIG4.
ExpressionAtlasiQ9Y279. baseline and differential.
GenevisibleiQ9Y279. HS.

Family and domain databases

Gene3Di2.60.40.10. 2 hits.
InterProiIPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013106. Ig_V-set.
[Graphical view]
PfamiPF07686. V-set. 1 hit.
[Graphical view]
SMARTiSM00409. IG. 2 hits.
SM00408. IGc2. 1 hit.
SM00406. IGv. 1 hit.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 2 hits.
PROSITEiPS50835. IG_LIKE. 2 hits.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiVSIG4_HUMAN
AccessioniPrimary (citable) accession number: Q9Y279
Secondary accession number(s): Q6UXI4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 15, 2005
Last sequence update: November 1, 1999
Last modified: November 2, 2016
This is version 142 of the entry and version 1 of the sequence. [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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. Human chromosome X
    Human chromosome X: 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. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  5. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  6. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.