VCAM1

Protein identityUniProt · HPA

UniProt accession

P19320

Gene

VCAM1

Ensembl

ENSG00000162692

Chromosome

1

Canonical length

739 aa

Protein class

Cancer-related genes, CD markers, Plasma proteins, Predicted membrane proteins

Subcellular location

Cell Junctions

Secretome location

Secreted to blood

OverviewNCBI Gene

This gene is a member of the Ig superfamily and encodes a cell surface sialoglycoprotein expressed by cytokine-activated endothelium. This type I membrane protein mediates leukocyte-endothelial cell adhesion and signal transduction, and may play a role in the development of artherosclerosis and rheumatoid arthritis. Three alternatively spliced transcripts encoding different isoforms have been described for this gene. [provided by RefSeq, Dec 2010]

Canonical amino-acid sequenceUniProt

739 residues, UniProt reviewed canonical sequence.

>P19320|VCAM1
     1  MPGKMVVILG ASNILWIMFA ASQAFKIETT PESRYLAQIG DSVSLTCSTT GCESPFFSWR
    61  TQIDSPLNGK VTNEGTTSTL TMNPVSFGNE HSYLCTATCE SRKLEKGIQV EIYSFPKDPE
   121  IHLSGPLEAG KPITVKCSVA DVYPFDRLEI DLLKGDHLMK SQEFLEDADR KSLETKSLEV
   181  TFTPVIEDIG KVLVCRAKLH IDEMDSVPTV RQAVKELQVY ISPKNTVISV NPSTKLQEGG
   241  SVTMTCSSEG LPAPEIFWSK KLDNGNLQHL SGNATLTLIA MRMEDSGIYV CEGVNLIGKN
   301  RKEVELIVQE KPFTVEISPG PRIAAQIGDS VMLTCSVMGC ESPSFSWRTQ IDSPLSGKVR
   361  SEGTNSTLTL SPVSFENEHS YLCTVTCGHK KLEKGIQVEL YSFPRDPEIE MSGGLVNGSS
   421  VTVSCKVPSV YPLDRLEIEL LKGETILENI EFLEDTDMKS LENKSLEMTF IPTIEDTGKA
   481  LVCQAKLHID DMEFEPKQRQ STQTLYVNVA PRDTTVLVSP SSILEEGSSV NMTCLSQGFP
   541  APKILWSRQL PNGELQPLSE NATLTLISTK MEDSGVYLCE GINQAGRSRK EVELIIQVTP
   601  KDIKLTAFPS ESVKEGDTVI ISCTCGNVPE TWIILKKKAE TGDTVLKSID GAYTIRKAQL
   661  KDAGVYECES KNKVGSQLRS LTLDVQGREN NKDYFSPELL VLYFASSLII PAIGMIIYFA
   721  RKANMKGSYS LVEAQKSKV

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against VCAM1 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability

Cell surface

Secreted

No

Transmembrane segments

1

Mean surface accessibility (rSASA)

0.34

Highest tissue expression

367 nTPM

Expression across tissuesHPA

ReferencesPubMed · IEDB

Publications for VCAM1 from three distinct lines of evidence, kept separate because they answer different questions: whether antibodies are directed at the protein, whether a B-cell epitope has been mapped on it, and whether a T-cell epitope has. Each is labelled with its source.

Sources: PubMed — antigen-level antibody evidence from a custom retrieval. Records matching a controlled set of autoantibody terms (the MeSH descriptors Autoantibodies and Autoantigens, with title and abstract term variants) were obtained through NCBI E-utilities, and their titles and abstracts parsed for constructions that direct an antibody at a named protein rather than for co-occurrence. Captured names were resolved against UniProt nomenclature and each antigen adjudicated individually against the source text. Bibliographic records from PubMed and MeSH, U.S. National Library of Medicine; citation metrics from NIH iCite (Hutchins et al., PLoS Biology 2016). Titles link to PubMed; abstracts are not reproduced here. The NLM does not endorse this analysis.

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)

0.39

gnomAD pLI

0.8

gnomAD missense Z

1.21

DepMap mean gene effect

-0.02

DepMap dependency class

none

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

• amine metabolic process
• B cell differentiation
• cell adhesion
• cell chemotaxis
• cell-cell adhesion mediated by integrin
• cell-matrix adhesion
• cellular response to amyloid-beta
• cellular response to tumor necrosis factor
• cellular response to vascular endothelial growth factor stimulus
• chronic inflammatory response
• heterophilic cell-cell adhesion via plasma membrane cell adhesion molecules
• heterotypic cell-cell adhesion
• inflammatory response
• innervation
• leukocyte cell-cell adhesion
• leukocyte tethering or rolling
• membrane to membrane docking
• positive regulation of T cell proliferation
• response to ethanol
• response to hypoxia
• response to ionizing radiation
• response to lipopolysaccharide
• response to nicotine
• response to nutrient
• response to zinc ion
• cardiac neuron differentiation

Molecular functions

• cell adhesion mediator activity
• cell adhesion molecule binding
• integrin binding
• primary methylamine oxidase activity

Cellular components

• apical part of cell
• cell surface
• early endosome
• endoplasmic reticulum
• external side of plasma membrane
• extracellular exosome
• extracellular space
• filopodium
• Golgi apparatus
• microvillus
• plasma membrane
• podosome
• sarcolemma
• alpha9-beta1 integrin-vascular cell adhesion molecule-1 complex

Protein domainsUniProt · Pfam · InterPro

• Immunoglobulin subtype 2
• Immunoglobulin domain subtype
• Intercellular adhesion molecule/vascular cell adhesion molecule, N-terminal
• Immunoglobulin-like domain
• Immunoglobulin C2-set
• Immunoglobulin I-set
• Immunoglobulin V-set domain
• Immunoglobulin-like beta-sandwich domain
• Immunoglobulin-like fold
• Immunoglobulin-like domain superfamily
• Intercellular adhesion molecule/vascular cell adhesion molecule
• Immunoglobulin domain
• Immunoglobulin C2-set domain
• Immunoglobulin I-set domain
• Immunoglobulin domain
• Vascular cell adhesion molecule-1

KeywordsUniProt

• Cell adhesion
• Cell membrane
• Disulfide bond
• Glycoprotein
• Immunoglobulin domain
• Membrane
• Repeat
• Secreted
• Signal
• Transmembrane
• Transmembrane helix
• Ubl conjugation

InteractionsUniProt · HPA

Protein binding partners of VCAM1 in the human serome: UniProt-annotated complex subunits plus reported interactors. Each links to its own Seroatlas record.

• ITGB7