UniProtKB - Q9Y279 (VSIG4_HUMAN)
Protein
V-set and immunoglobulin domain-containing protein 4
Gene
VSIG4
Organism
Homo sapiens (Human)
Status
Functioni
Phagocytic receptor, strong negative regulator of T-cell proliferation and IL2 production. Potent inhibitor of the alternative complement pathway convertases.2 Publications
GO - Molecular functioni
- complement component C3b binding Source: UniProtKB
GO - Biological processi
- complement activation, alternative pathway Source: UniProtKB-KW
- negative regulation of complement activation, alternative pathway Source: UniProtKB
- negative regulation of interleukin-2 production Source: GO_Central
- negative regulation of macrophage activation Source: InterPro
- negative regulation of T cell proliferation Source: GO_Central
Keywordsi
Biological process | Complement alternate pathway, Immunity, Innate immunity |
Enzyme and pathway databases
PathwayCommonsi | Q9Y279 |
Names & Taxonomyi
Protein namesi | Recommended name: V-set and immunoglobulin domain-containing protein 4Alternative name(s): Protein Z39Ig |
Gene namesi | Name:VSIG4 Synonyms:CRIg, Z39IG ORF Names:UNQ317/PRO362 |
Organismi | Homo sapiens (Human) |
Taxonomic identifieri | 9606 [NCBI] |
Taxonomic lineagei | Eukaryota › Metazoa › Chordata › Craniata › Vertebrata › Euteleostomi › Mammalia › Eutheria › Euarchontoglires › Primates › Haplorrhini › Catarrhini › Hominidae › Homo |
Proteomesi |
|
Organism-specific databases
HGNCi | HGNC:17032, VSIG4 |
MIMi | 300353, gene |
neXtProti | NX_Q9Y279 |
VEuPathDBi | HostDB:ENSG00000155659.14 |
Subcellular locationi
Other locations
- Membrane Curated; Single-pass type I membrane protein Curated
Other locations
- integral component of membrane Source: UniProtKB-KW
- protein-containing complex Source: UniProtKB
Topology
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Topological domaini | 20 – 283 | ExtracellularSequence analysisAdd BLAST | 264 | |
Transmembranei | 284 – 304 | HelicalSequence analysisAdd BLAST | 21 | |
Topological domaini | 305 – 399 | CytoplasmicSequence analysisAdd BLAST | 95 |
Keywords - Cellular componenti
MembranePathology & Biotechi
Organism-specific databases
DisGeNETi | 11326 |
OpenTargetsi | ENSG00000155659 |
PharmGKBi | PA134986421 |
Miscellaneous databases
Pharosi | Q9Y279, Tbio |
Genetic variation databases
BioMutai | VSIG4 |
DMDMi | 59799152 |
PTM / Processingi
Molecule processing
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Signal peptidei | 1 – 19 | 1 PublicationAdd BLAST | 19 | |
ChainiPRO_0000015006 | 20 – 399 | V-set and immunoglobulin domain-containing protein 4Add BLAST | 380 |
Amino acid modifications
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Disulfide bondi | 41 ↔ 113 | PROSITE-ProRule annotation1 Publication | ||
Disulfide bondi | 165 ↔ 211 | PROSITE-ProRule annotation |
Keywords - PTMi
Disulfide bondProteomic databases
jPOSTi | Q9Y279 |
MassIVEi | Q9Y279 |
PaxDbi | Q9Y279 |
PeptideAtlasi | Q9Y279 |
PRIDEi | Q9Y279 |
ProteomicsDBi | 85683 [Q9Y279-1] 85684 [Q9Y279-2] 85685 [Q9Y279-3] |
PTM databases
GlyGeni | Q9Y279, 1 site, 1 O-linked glycan (1 site) |
iPTMneti | Q9Y279 |
PhosphoSitePlusi | Q9Y279 |
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
Bgeei | ENSG00000155659, Expressed in esophagus and 218 other tissues |
ExpressionAtlasi | Q9Y279, baseline and differential |
Genevisiblei | Q9Y279, HS |
Organism-specific databases
HPAi | ENSG00000155659, Low tissue specificity |
Interactioni
Binary interactionsi
Hide detailsQ9Y279
With | #Exp. | IntAct |
---|---|---|
FATE1 [Q969F0] | 3 | EBI-903131,EBI-743099 |
JAGN1 [Q8N5M9] | 3 | EBI-903131,EBI-10266796 |
VAMP5 [O95183] | 3 | EBI-903131,EBI-10191195 |
Isoform 1 [Q9Y279-1]
With | #Exp. | IntAct |
---|---|---|
C3 [P01024] | 5 | EBI-903144,EBI-905851 |
Isoform 2 [Q9Y279-2]
With | #Exp. | IntAct |
---|---|---|
C3 [P01024] | 2 | EBI-903148,EBI-905851 |
GO - Molecular functioni
- complement component C3b binding Source: UniProtKB
Protein-protein interaction databases
BioGRIDi | 116455, 71 interactors |
IntActi | Q9Y279, 39 interactors |
STRINGi | 9606.ENSP00000363869 |
Miscellaneous databases
RNActi | Q9Y279, protein |
Structurei
Secondary structure
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details3D structure databases
SMRi | Q9Y279 |
ModBasei | Search... |
PDBe-KBi | Search... |
Miscellaneous databases
EvolutionaryTracei | Q9Y279 |
Family & Domainsi
Domains and Repeats
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Domaini | 21 – 131 | Ig-like 1Add BLAST | 111 | |
Domaini | 143 – 226 | Ig-like 2Add BLAST | 84 |
Keywords - Domaini
Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helixPhylogenomic databases
eggNOGi | ENOG502S07Y, Eukaryota |
GeneTreei | ENSGT00390000001432 |
HOGENOMi | CLU_058836_0_0_1 |
InParanoidi | Q9Y279 |
OMAi | PVTIFLH |
OrthoDBi | 816499at2759 |
PhylomeDBi | Q9Y279 |
TreeFami | TF336175 |
Family and domain databases
CDDi | cd16089, IgV_CRIg, 1 hit |
Gene3Di | 2.60.40.10, 2 hits |
InterProi | View protein in InterPro IPR007110, Ig-like_dom IPR036179, Ig-like_dom_sf IPR013783, Ig-like_fold IPR003599, Ig_sub IPR003598, Ig_sub2 IPR013106, Ig_V-set IPR039939, VSIG4 IPR039944, VSIG4_IgV |
PANTHERi | PTHR15466, PTHR15466, 1 hit |
Pfami | View protein in Pfam PF07686, V-set, 1 hit |
SMARTi | View protein in SMART SM00409, IG, 2 hits SM00408, IGc2, 1 hit SM00406, IGv, 1 hit |
SUPFAMi | SSF48726, SSF48726, 2 hits |
PROSITEi | View protein in PROSITE PS50835, IG_LIKE, 2 hits |
s (3+)i Sequence
Sequence statusi: Complete.
: The displayed sequence is further processed into a mature form. Sequence processingi
This entry describes 3 produced by isoformsialternative splicing. AlignAdd to basketThis entry has 3 described isoforms and 2 potential isoforms that are computationally mapped.Show allAlign All
Isoform 1 (identifier: Q9Y279-1) [UniParc]FASTAAdd to basket
This isoform has been chosen as the sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry. canonicali
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
Computationally mapped potential isoform sequencesi
There are 2 potential isoforms mapped to this entry.BLASTAlignShow allAdd to basketH7C062 | H7C062_HUMAN | V-set and immunoglobulin domain-con... | VSIG4 | 274 | Annotation score: | ||
A0A494C0F5 | A0A494C0F5_HUMAN | V-set and immunoglobulin domain-con... | VSIG4 | 296 | Annotation score: |
Natural variant
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Natural variantiVAR_049956 | 108 | R → W. Corresponds to variant dbSNP:rs34581041Ensembl. | 1 | |
Natural variantiVAR_049957 | 272 | G → E. Corresponds to variant dbSNP:rs34222730Ensembl. | 1 | |
Natural variantiVAR_049958 | 279 | G → E. Corresponds to variant dbSNP:rs17315645Ensembl. | 1 | |
Natural variantiVAR_049959 | 397 | S → I. Corresponds to variant dbSNP:rs35553694Ensembl. | 1 |
Alternative sequence
Feature key | Position(s) | DescriptionActions | Graphical view | Length |
---|---|---|---|---|
Alternative sequenceiVSP_041213 | 138 – 232 | LSVSK…FVVKD → H in isoform 3. 1 PublicationAdd BLAST | 95 | |
Alternative sequenceiVSP_012813 | 322 – 399 | Missing in isoform 2. 1 PublicationAdd BLAST | 78 |
Sequence databases
Select the link destinations: EMBLi GenBanki DDBJi Links Updated | AJ132502 mRNA Translation: CAB51536.1 AY358341 mRNA Translation: AAQ88707.1 AL034397 Genomic DNA No translation available. CR607860 mRNA No translation available. BC010525 mRNA Translation: AAH10525.1 |
CCDSi | CCDS14383.1 [Q9Y279-1] CCDS48132.1 [Q9Y279-3] CCDS55435.1 [Q9Y279-2] |
RefSeqi | NP_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] |
Genome annotation databases
Ensembli | ENST00000374737; ENSP00000363869; ENSG00000155659 [Q9Y279-1] ENST00000412866; ENSP00000394143; ENSG00000155659 [Q9Y279-3] ENST00000455586; ENSP00000411581; ENSG00000155659 [Q9Y279-2] |
GeneIDi | 11326 |
KEGGi | hsa:11326 |
UCSCi | uc004dwh.3, human [Q9Y279-1] |
Keywords - Coding sequence diversityi
Alternative splicingSimilar proteinsi
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 No translation available. CR607860 mRNA No translation available. BC010525 mRNA Translation: AAH10525.1 |
CCDSi | CCDS14383.1 [Q9Y279-1] CCDS48132.1 [Q9Y279-3] CCDS55435.1 [Q9Y279-2] |
RefSeqi | NP_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] |
3D structure databases
Select the link destinations: PDBei RCSB PDBi PDBji Links Updated | PDB entry | Method | Resolution (Å) | Chain | Positions | PDBsum |
2ICC | X-ray | 1.20 | A | 19-137 | [»] | |
2ICE | X-ray | 3.10 | S/T | 19-137 | [»] | |
2ICF | X-ray | 4.10 | S | 19-137 | [»] | |
5IMK | X-ray | 1.23 | A | 19-232 | [»] | |
5IML | X-ray | 1.80 | A | 19-232 | [»] | |
SMRi | Q9Y279 | |||||
ModBasei | Search... | |||||
PDBe-KBi | Search... |
Protein-protein interaction databases
BioGRIDi | 116455, 71 interactors |
IntActi | Q9Y279, 39 interactors |
STRINGi | 9606.ENSP00000363869 |
PTM databases
GlyGeni | Q9Y279, 1 site, 1 O-linked glycan (1 site) |
iPTMneti | Q9Y279 |
PhosphoSitePlusi | Q9Y279 |
Genetic variation databases
BioMutai | VSIG4 |
DMDMi | 59799152 |
Proteomic databases
jPOSTi | Q9Y279 |
MassIVEi | Q9Y279 |
PaxDbi | Q9Y279 |
PeptideAtlasi | Q9Y279 |
PRIDEi | Q9Y279 |
ProteomicsDBi | 85683 [Q9Y279-1] 85684 [Q9Y279-2] 85685 [Q9Y279-3] |
Protocols and materials databases
ABCDi | Q9Y279, 1 sequenced antibody |
Antibodypediai | 13115, 193 antibodies |
DNASUi | 11326 |
Genome annotation databases
Ensembli | ENST00000374737; ENSP00000363869; ENSG00000155659 [Q9Y279-1] ENST00000412866; ENSP00000394143; ENSG00000155659 [Q9Y279-3] ENST00000455586; ENSP00000411581; ENSG00000155659 [Q9Y279-2] |
GeneIDi | 11326 |
KEGGi | hsa:11326 |
UCSCi | uc004dwh.3, human [Q9Y279-1] |
Organism-specific databases
CTDi | 11326 |
DisGeNETi | 11326 |
GeneCardsi | VSIG4 |
HGNCi | HGNC:17032, VSIG4 |
HPAi | ENSG00000155659, Low tissue specificity |
MIMi | 300353, gene |
neXtProti | NX_Q9Y279 |
OpenTargetsi | ENSG00000155659 |
PharmGKBi | PA134986421 |
VEuPathDBi | HostDB:ENSG00000155659.14 |
GenAtlasi | Search... |
Phylogenomic databases
eggNOGi | ENOG502S07Y, Eukaryota |
GeneTreei | ENSGT00390000001432 |
HOGENOMi | CLU_058836_0_0_1 |
InParanoidi | Q9Y279 |
OMAi | PVTIFLH |
OrthoDBi | 816499at2759 |
PhylomeDBi | Q9Y279 |
TreeFami | TF336175 |
Enzyme and pathway databases
PathwayCommonsi | Q9Y279 |
Miscellaneous databases
BioGRID-ORCSi | 11326, 2 hits in 501 CRISPR screens |
ChiTaRSi | VSIG4, human |
EvolutionaryTracei | Q9Y279 |
GenomeRNAii | 11326 |
Pharosi | Q9Y279, Tbio |
PROi | PR:Q9Y279 |
RNActi | Q9Y279, protein |
SOURCEi | Search... |
Gene expression databases
Bgeei | ENSG00000155659, Expressed in esophagus and 218 other tissues |
ExpressionAtlasi | Q9Y279, baseline and differential |
Genevisiblei | Q9Y279, HS |
Family and domain databases
CDDi | cd16089, IgV_CRIg, 1 hit |
Gene3Di | 2.60.40.10, 2 hits |
InterProi | View protein in InterPro IPR007110, Ig-like_dom IPR036179, Ig-like_dom_sf IPR013783, Ig-like_fold IPR003599, Ig_sub IPR003598, Ig_sub2 IPR013106, Ig_V-set IPR039939, VSIG4 IPR039944, VSIG4_IgV |
PANTHERi | PTHR15466, PTHR15466, 1 hit |
Pfami | View protein in Pfam PF07686, V-set, 1 hit |
SMARTi | View protein in SMART SM00409, IG, 2 hits SM00408, IGc2, 1 hit SM00406, IGv, 1 hit |
SUPFAMi | SSF48726, SSF48726, 2 hits |
PROSITEi | View protein in PROSITE PS50835, IG_LIKE, 2 hits |
ProtoNeti | Search... |
MobiDBi | Search... |
Entry informationi
Entry namei | VSIG4_HUMAN | |
Accessioni | Q9Y279Primary (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: | February 10, 2021 | |
This is version 172 of the entry and version 1 of the sequence. See complete history. | ||
Entry statusi | Reviewed (UniProtKB/Swiss-Prot) | |
Annotation program | Chordata Protein Annotation Program | |
Disclaimer | Any 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, Direct protein sequencing, Reference proteomeDocuments
- Human variants curated from literature reports
Index of human variants curated from literature reports - MIM cross-references
Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot - PDB cross-references
Index of Protein Data Bank (PDB) cross-references - Human chromosome X
Human chromosome X: entries, gene names and cross-references to MIM - Human entries with genetic variants
List of human entries with genetic variants