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Protein

Vascular cell adhesion protein 1

Gene

Vcam1

Organism
Rattus norvegicus (Rat)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at transcript leveli

Functioni

Important in cell-cell recognition. Appears to function in leukocyte-endothelial cell adhesion. Interacts with integrin alpha-4/beta-1 (ITGA4/ITGB1) on leukocytes, and mediates both adhesion and signal transduction. The VCAM1/ITGA4/ITGB1 interaction may play a pathophysiologic role both in immune responses and in leukocyte emigration to sites of inflammation.

GO - Molecular functioni

  • integrin binding Source: RGD
  • primary amine oxidase activity Source: Ensembl

GO - Biological processi

  • acute inflammatory response Source: RGD
  • aging Source: RGD
  • amine metabolic process Source: Ensembl
  • calcium-mediated signaling using intracellular calcium source Source: Ensembl
  • cell adhesion Source: RGD
  • cell chemotaxis Source: RGD
  • cell-matrix adhesion Source: Ensembl
  • cellular response to tumor necrosis factor Source: RGD
  • cellular response to vascular endothelial growth factor stimulus Source: RGD
  • chronic inflammatory response Source: RGD
  • heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules Source: Ensembl
  • leukocyte tethering or rolling Source: Ensembl
  • membrane to membrane docking Source: Ensembl
  • positive regulation of T cell proliferation Source: Ensembl
  • response to ethanol Source: RGD
  • response to hypoxia Source: RGD
  • response to ionizing radiation Source: RGD
  • response to lipopolysaccharide Source: RGD
  • response to nicotine Source: RGD
  • response to nutrient Source: RGD
  • response to zinc ion Source: RGD
  • viral process Source: UniProtKB-KW
Complete GO annotation...

Keywords - Biological processi

Cell adhesion, Host-virus interaction

Enzyme and pathway databases

ReactomeiR-RNO-198933. Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell.
R-RNO-216083. Integrin cell surface interactions.

Names & Taxonomyi

Protein namesi
Recommended name:
Vascular cell adhesion protein 1
Short name:
V-CAM 1
Short name:
VCAM-1
Alternative name(s):
CD_antigen: CD106
Gene namesi
Name:Vcam1
Synonyms:Vcam-1
OrganismiRattus norvegicus (Rat)
Taxonomic identifieri10116 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeRattus
Proteomesi
  • UP000002494 Componenti: Chromosome 2

Organism-specific databases

RGDi3952. Vcam1.

Subcellular locationi

Topology

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Topological domaini25 – 698674ExtracellularSequence analysisAdd
BLAST
Transmembranei699 – 72022HelicalSequence analysisAdd
BLAST
Topological domaini721 – 73919CytoplasmicSequence analysisAdd
BLAST

GO - Cellular componenti

  • alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex Source: Ensembl
  • apical part of cell Source: Ensembl
  • cell surface Source: RGD
  • early endosome Source: Ensembl
  • endoplasmic reticulum Source: Ensembl
  • external side of plasma membrane Source: Ensembl
  • extracellular exosome Source: Ensembl
  • extracellular space Source: RGD
  • filopodium Source: Ensembl
  • Golgi apparatus Source: Ensembl
  • integral component of membrane Source: RGD
  • microvillus Source: Ensembl
  • podosome Source: Ensembl
  • sarcolemma Source: RGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Signal peptidei1 – 2424CuratedAdd
BLAST
Chaini25 – 739715Vascular cell adhesion protein 1PRO_0000014999Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Disulfide bondi47 ↔ 95PROSITE-ProRule annotation
Disulfide bondi52 ↔ 99PROSITE-ProRule annotation
Disulfide bondi137 ↔ 195PROSITE-ProRule annotation
Disulfide bondi246 ↔ 291PROSITE-ProRule annotation
Glycosylationi273 – 2731N-linked (GlcNAc...)Sequence analysis
Disulfide bondi335 ↔ 383PROSITE-ProRule annotation
Glycosylationi424 – 4241N-linked (GlcNAc...)Sequence analysis
Glycosylationi531 – 5311N-linked (GlcNAc...)Sequence analysis
Disulfide bondi534 ↔ 579PROSITE-ProRule annotation
Glycosylationi561 – 5611N-linked (GlcNAc...)Sequence analysis
Glycosylationi650 – 6501N-linked (GlcNAc...)Sequence analysis

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

PaxDbiP29534.
PRIDEiP29534.

Expressioni

Tissue specificityi

Expressed on inflamed vascular endothelium, as well as on macrophage-like and dendritic cell types in both normal and inflamed tissue.

Gene expression databases

ExpressionAtlasiP29534. baseline and differential.
GenevisibleiP29534. RN.

Interactioni

Subunit structurei

Binds to ECMV-D capsid proteins and acts as a receptor for this virus.By similarity

GO - Molecular functioni

  • integrin binding Source: RGD

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000019377.

Structurei

3D structure databases

ProteinModelPortaliP29534.
SMRiP29534. Positions 25-223, 313-507.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini25 – 11187Ig-like C2-type 1Add
BLAST
Domaini119 – 21294Ig-like C2-type 2Add
BLAST
Domaini223 – 30987Ig-like C2-type 3Add
BLAST
Domaini312 – 39786Ig-like C2-type 4Add
BLAST
Domaini408 – 50699Ig-like C2-type 5Add
BLAST
Domaini514 – 59582Ig-like C2-type 6Add
BLAST
Domaini601 – 68282Ig-like C2-type 7Add
BLAST

Sequence similaritiesi

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IIKS. Eukaryota.
ENOG4111F4V. LUCA.
GeneTreeiENSGT00840000129722.
HOGENOMiHOG000004820.
HOVERGENiHBG053965.
InParanoidiP29534.
KOiK06527.
OMAiVYECESK.
OrthoDBiEOG7JMGD2.
PhylomeDBiP29534.
TreeFamiTF333571.

Family and domain databases

Gene3Di2.60.40.10. 7 hits.
InterProiIPR003987. ICAM_VCAM_N.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR008424. Ig_C2-set.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013151. Immunoglobulin.
IPR003989. VCAM-1.
[Graphical view]
PfamiPF05790. C2-set. 2 hits.
PF07679. I-set. 2 hits.
PF00047. ig. 1 hit.
[Graphical view]
PRINTSiPR01472. ICAMVCAM1.
PR01474. VCAM1.
SMARTiSM00409. IG. 5 hits.
SM00408. IGc2. 5 hits.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 7 hits.
PROSITEiPS50835. IG_LIKE. 5 hits.
[Graphical view]

Sequencei

Sequence statusi: Complete.

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

P29534-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MPVKMVAIFG ASTVLWILFA VSQAFKIEIS PEYKTLAQIG DSMLLTCSTT
60 70 80 90 100
GCESPSFSWR TQIDSPLNGK VKTEGAKSVL TMDPVSFENE HSYLCTATCN
110 120 130 140 150
SGKLERGIQV DIYSFPKDPE IQFSGPLEVG KPVMVKCLAP DVYPIDRLEI
160 170 180 190 200
ELFKGDRLMK KQDFVDEMAK KSLETKSLEV IFTPVIEDIE KALVCRAKLY
210 220 230 240 250
IDQTDSIPKE RETVRELQVY TSPKNTEISV HPSTRLHEGA AVTMTCASEG
260 270 280 290 300
LPAPEIFWSK KLDNGVLQLL SGNATLTLIA MRMEDSGIYV CEGVNLVGRD
310 320 330 340 350
KTEVELIVQE KPFTVDISPG SQVAAQVGDS VVLTCAAVGC DSPSFSWRTQ
360 370 380 390 400
TDSPLNGEVR DEGATSTLTL SPVGVEDEHS YLCTVTCQRR KLEKTIQVEV
410 420 430 440 450
YSFPEDPEIE ISGPLVHGRP VTVNCTVPNV YPFDHLEIEL LKGETTLLNK
460 470 480 490 500
FLREEIGTKS LETKSLEMTF IPTAEDTGKA LVCLAKLHSS QMESEPKQRQ
510 520 530 540 550
STQTLYVNVA PKEPTIWVSP SPVPEEGSPV NLTCSSDGFP TPKILWSRQL
560 570 580 590 600
KNGELQPLSQ NTTLSFMATK MEDSGIYVCE GINEAGISKK SVELIIQGSS
610 620 630 640 650
KDIQLTVFPS KSVKEGDTVI ISCTCGSVPE IWIILKKKAK TGDMVLKSVN
660 670 680 690 700
GSYTIRKAQL QDAGVYECES KTEVGSQLRS LTLDVKGKEN NKDYFSPELL
710 720 730
ALYFASSLVI PAIGMIIYFA RKANMKGSYS LVEAQKSKV
Length:739
Mass (Da):81,246
Last modified:April 1, 1993 - v1
Checksum:i5C608E5A1A1B100C
GO

Experimental Info

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Sequence conflicti3 – 31V → G in CAA45254 (PubMed:1377031).Curated
Sequence conflicti122 – 1232QF → HL in CAA45254 (PubMed:1377031).Curated
Sequence conflicti166 – 1661D → N in CAA45254 (PubMed:1377031).Curated
Sequence conflicti739 – 7391V → G in CAA45254 (PubMed:1377031).Curated

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M84488 mRNA. Translation: AAA42332.1.
X63722 mRNA. Translation: CAA45254.1.
BC089812 mRNA. Translation: AAH89812.1.
PIRiJS0675.
RefSeqiNP_037021.1. NM_012889.1.
UniGeneiRn.11267.

Genome annotation databases

EnsembliENSRNOT00000019377; ENSRNOP00000019377; ENSRNOG00000014333.
ENSRNOT00000078806; ENSRNOP00000071423; ENSRNOG00000014333.
GeneIDi25361.
KEGGirno:25361.
UCSCiRGD:3952. rat.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M84488 mRNA. Translation: AAA42332.1.
X63722 mRNA. Translation: CAA45254.1.
BC089812 mRNA. Translation: AAH89812.1.
PIRiJS0675.
RefSeqiNP_037021.1. NM_012889.1.
UniGeneiRn.11267.

3D structure databases

ProteinModelPortaliP29534.
SMRiP29534. Positions 25-223, 313-507.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

STRINGi10116.ENSRNOP00000019377.

Proteomic databases

PaxDbiP29534.
PRIDEiP29534.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSRNOT00000019377; ENSRNOP00000019377; ENSRNOG00000014333.
ENSRNOT00000078806; ENSRNOP00000071423; ENSRNOG00000014333.
GeneIDi25361.
KEGGirno:25361.
UCSCiRGD:3952. rat.

Organism-specific databases

CTDi7412.
RGDi3952. Vcam1.

Phylogenomic databases

eggNOGiENOG410IIKS. Eukaryota.
ENOG4111F4V. LUCA.
GeneTreeiENSGT00840000129722.
HOGENOMiHOG000004820.
HOVERGENiHBG053965.
InParanoidiP29534.
KOiK06527.
OMAiVYECESK.
OrthoDBiEOG7JMGD2.
PhylomeDBiP29534.
TreeFamiTF333571.

Enzyme and pathway databases

ReactomeiR-RNO-198933. Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell.
R-RNO-216083. Integrin cell surface interactions.

Miscellaneous databases

NextBioi606341.
PROiP29534.

Gene expression databases

ExpressionAtlasiP29534. baseline and differential.
GenevisibleiP29534. RN.

Family and domain databases

Gene3Di2.60.40.10. 7 hits.
InterProiIPR003987. ICAM_VCAM_N.
IPR007110. Ig-like_dom.
IPR013783. Ig-like_fold.
IPR008424. Ig_C2-set.
IPR013098. Ig_I-set.
IPR003599. Ig_sub.
IPR003598. Ig_sub2.
IPR013151. Immunoglobulin.
IPR003989. VCAM-1.
[Graphical view]
PfamiPF05790. C2-set. 2 hits.
PF07679. I-set. 2 hits.
PF00047. ig. 1 hit.
[Graphical view]
PRINTSiPR01472. ICAMVCAM1.
PR01474. VCAM1.
SMARTiSM00409. IG. 5 hits.
SM00408. IGc2. 5 hits.
[Graphical view]
SUPFAMiSSF48726. SSF48726. 7 hits.
PROSITEiPS50835. IG_LIKE. 5 hits.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Tissue: Lung.
  2. Cited for: NUCLEOTIDE SEQUENCE [MRNA].
    Strain: Sprague-Dawley.
    Tissue: Lung.
  3. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
    Tissue: Spleen.

Entry informationi

Entry nameiVCAM1_RAT
AccessioniPrimary (citable) accession number: P29534
Secondary accession number(s): Q5FVS3, Q63669
Entry historyi
Integrated into UniProtKB/Swiss-Prot: April 1, 1993
Last sequence update: April 1, 1993
Last modified: May 11, 2016
This is version 132 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. 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.