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Protein

Vascular cell adhesion protein 1

Gene

VCAM1

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

  • cell adhesion molecule binding Source: BHF-UCL
  • integrin binding Source: BHF-UCL
  • primary amine oxidase activity Source: UniProtKB

GO - Biological processi

Keywordsi

Biological processCell adhesion

Enzyme and pathway databases

ReactomeiR-HSA-198933 Immunoregulatory interactions between a Lymphoid and a non-Lymphoid cell
R-HSA-216083 Integrin cell surface interactions
R-HSA-6785807 Interleukin-4 and 13 signaling
R-HSA-877300 Interferon gamma signaling
SIGNORiP19320

Names & Taxonomyi

Protein namesi
Recommended name:
Vascular cell adhesion protein 1
Short name:
V-CAM 1
Short name:
VCAM-1
Alternative name(s):
INCAM-100
CD_antigen: CD106
Gene namesi
Name:VCAM1
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 1

Organism-specific databases

EuPathDBiHostDB:ENSG00000162692.10
HGNCiHGNC:12663 VCAM1
MIMi192225 gene
neXtProtiNX_P19320

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

Topology

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Topological domaini25 – 698ExtracellularSequence analysisAdd BLAST674
Transmembranei699 – 720HelicalSequence analysisAdd BLAST22
Topological domaini721 – 739CytoplasmicSequence analysisAdd BLAST19

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Organism-specific databases

DisGeNETi7412
OpenTargetsiENSG00000162692
PharmGKBiPA37286

Chemistry databases

ChEMBLiCHEMBL3735
DrugBankiDB05399 AGI-1067
DB01136 Carvedilol
DB00898 Ethanol

Polymorphism and mutation databases

BioMutaiVCAM1
DMDMi137560

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Signal peptidei1 – 241 PublicationAdd BLAST24
ChainiPRO_000001499725 – 739Vascular cell adhesion protein 1Add BLAST715

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Disulfide bondi47 ↔ 951 Publication
Disulfide bondi52 ↔ 991 Publication
Disulfide bondi137 ↔ 1951 Publication
Disulfide bondi246 ↔ 291PROSITE-ProRule annotation
Glycosylationi273N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi335 ↔ 383PROSITE-ProRule annotation
Glycosylationi365N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi417N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi463N-linked (GlcNAc...) asparagineSequence analysis1
Glycosylationi531N-linked (GlcNAc...) asparagineSequence analysis1
Disulfide bondi534 ↔ 579PROSITE-ProRule annotation
Glycosylationi561N-linked (GlcNAc...) asparagine1 Publication1

Post-translational modificationi

Sialoglycoprotein.

Keywords - PTMi

Disulfide bond, Glycoprotein

Proteomic databases

MaxQBiP19320
PaxDbiP19320
PeptideAtlasiP19320
PRIDEiP19320
ProteomicsDBi53645
53646 [P19320-2]

PTM databases

iPTMnetiP19320
PhosphoSitePlusiP19320

Miscellaneous databases

PMAP-CutDBiP19320

Expressioni

Tissue specificityi

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

Inductioni

By cytokines (e.g. IL-1, TNF-alpha).

Gene expression databases

BgeeiENSG00000162692
CleanExiHS_L1CAM
HS_VCAM1
ExpressionAtlasiP19320 baseline and differential
GenevisibleiP19320 HS

Organism-specific databases

HPAiCAB000154
HPA034796
HPA069867

Interactioni

Binary interactionsi

WithEntry#Exp.IntActNotes
ITGB1P055567EBI-6189824,EBI-703066

GO - Molecular functioni

  • cell adhesion molecule binding Source: BHF-UCL
  • integrin binding Source: BHF-UCL

Protein-protein interaction databases

BioGridi113255, 452 interactors
CORUMiP19320
IntActiP19320, 629 interactors
STRINGi9606.ENSP00000294728

Chemistry databases

BindingDBiP19320

Structurei

Secondary structure

1739
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi26 – 38Combined sources13
Beta strandi43 – 51Combined sources9
Beta strandi56 – 61Combined sources6
Beta strandi68 – 74Combined sources7
Beta strandi77 – 84Combined sources8
Helixi87 – 89Combined sources3
Beta strandi91 – 99Combined sources9
Beta strandi102 – 114Combined sources13
Beta strandi120 – 125Combined sources6
Beta strandi133 – 144Combined sources12
Helixi145 – 147Combined sources3
Beta strandi148 – 154Combined sources7
Beta strandi157 – 163Combined sources7
Beta strandi169 – 171Combined sources3
Beta strandi174 – 182Combined sources9
Helixi186 – 188Combined sources3
Beta strandi192 – 199Combined sources8
Beta strandi209 – 216Combined sources8

3D structure databases

ProteinModelPortaliP19320
SMRiP19320
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP19320

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini25 – 105Ig-like C2-type 1Add BLAST81
Domaini109 – 212Ig-like C2-type 2Add BLAST104
Domaini223 – 309Ig-like C2-type 3Add BLAST87
Domaini312 – 399Ig-like C2-type 4Add BLAST88
Domaini408 – 506Ig-like C2-type 5Add BLAST99
Domaini511 – 595Ig-like C2-type 6Add BLAST85
Domaini600 – 684Ig-like C2-type 7Add BLAST85

Domaini

Either the first or the fourth Ig-like C2-type domain is required for VLA4-dependent cell adhesion.

Keywords - Domaini

Immunoglobulin domain, Repeat, Signal, Transmembrane, Transmembrane helix

Phylogenomic databases

eggNOGiENOG410IIKS Eukaryota
ENOG4111F4V LUCA
GeneTreeiENSGT00830000128299
HOGENOMiHOG000004820
HOVERGENiHBG053965
InParanoidiP19320
KOiK06527
OMAiGVYECES
OrthoDBiEOG091G0590
PhylomeDBiP19320
TreeFamiTF333571

Family and domain databases

Gene3Di2.60.40.10, 7 hits
InterProiView protein in InterPro
IPR003987 ICAM_VCAM_N
IPR007110 Ig-like_dom
IPR036179 Ig-like_dom_sf
IPR013783 Ig-like_fold
IPR008424 Ig_C2-set
IPR013098 Ig_I-set
IPR003599 Ig_sub
IPR003598 Ig_sub2
IPR013106 Ig_V-set
IPR013151 Immunoglobulin
IPR003989 VCAM-1
PANTHERiPTHR44644 PTHR44644, 3 hits
PfamiView protein in Pfam
PF05790 C2-set, 2 hits
PF07679 I-set, 3 hits
PF00047 ig, 1 hit
PRINTSiPR01472 ICAMVCAM1
PR01474 VCAM1
SMARTiView protein in SMART
SM00409 IG, 5 hits
SM00408 IGc2, 5 hits
SM00406 IGv, 2 hits
SUPFAMiSSF48726 SSF48726, 7 hits
PROSITEiView protein in PROSITE
PS50835 IG_LIKE, 5 hits

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

Note: Additional isoforms seem to exist.
Isoform 1 (identifier: P19320-1) [UniParc]FASTAAdd to basket
Also known as: Long, VCAM-7D

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
MPGKMVVILG ASNILWIMFA ASQAFKIETT PESRYLAQIG DSVSLTCSTT
60 70 80 90 100
GCESPFFSWR TQIDSPLNGK VTNEGTTSTL TMNPVSFGNE HSYLCTATCE
110 120 130 140 150
SRKLEKGIQV EIYSFPKDPE IHLSGPLEAG KPITVKCSVA DVYPFDRLEI
160 170 180 190 200
DLLKGDHLMK SQEFLEDADR KSLETKSLEV TFTPVIEDIG KVLVCRAKLH
210 220 230 240 250
IDEMDSVPTV RQAVKELQVY ISPKNTVISV NPSTKLQEGG SVTMTCSSEG
260 270 280 290 300
LPAPEIFWSK KLDNGNLQHL SGNATLTLIA MRMEDSGIYV CEGVNLIGKN
310 320 330 340 350
RKEVELIVQE KPFTVEISPG PRIAAQIGDS VMLTCSVMGC ESPSFSWRTQ
360 370 380 390 400
IDSPLSGKVR SEGTNSTLTL SPVSFENEHS YLCTVTCGHK KLEKGIQVEL
410 420 430 440 450
YSFPRDPEIE MSGGLVNGSS VTVSCKVPSV YPLDRLEIEL LKGETILENI
460 470 480 490 500
EFLEDTDMKS LENKSLEMTF IPTIEDTGKA LVCQAKLHID DMEFEPKQRQ
510 520 530 540 550
STQTLYVNVA PRDTTVLVSP SSILEEGSSV NMTCLSQGFP APKILWSRQL
560 570 580 590 600
PNGELQPLSE NATLTLISTK MEDSGVYLCE GINQAGRSRK EVELIIQVTP
610 620 630 640 650
KDIKLTAFPS ESVKEGDTVI ISCTCGNVPE TWIILKKKAE TGDTVLKSID
660 670 680 690 700
GAYTIRKAQL KDAGVYECES KNKVGSQLRS LTLDVQGREN NKDYFSPELL
710 720 730
VLYFASSLII PAIGMIIYFA RKANMKGSYS LVEAQKSKV
Note: Major isoform.
Length:739
Mass (Da):81,276
Last modified:November 1, 1990 - v1
Checksum:i050E2EBD39AC2FF4
GO
Isoform 2 (identifier: P19320-2) [UniParc]FASTAAdd to basket
Also known as: Short, VCAM-6D

The sequence of this isoform differs from the canonical sequence as follows:
     310-402: EKPFTVEISP...EKGIQVELYS → A

Show »
Length:647
Mass (Da):71,255
Checksum:i7EA67DB70AC91EF8
GO
Isoform 3 (identifier: P19320-3) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     52-113: Missing.

Note: No experimental confirmation available.
Show »
Length:677
Mass (Da):74,346
Checksum:iCA0C2F8A7E51EC83
GO

Experimental Info

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sequence conflicti182F → G (PubMed:1377228).Curated1
Sequence conflicti402S → T (PubMed:1707234).Curated1
Sequence conflicti728S → P in BAG59286 (PubMed:14702039).Curated1

Natural variant

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Natural variantiVAR_04995118M → I. Corresponds to variant dbSNP:rs34228330Ensembl.1
Natural variantiVAR_014309318S → F1 PublicationCorresponds to variant dbSNP:rs3783611Ensembl.1
Natural variantiVAR_014310384T → A1 PublicationCorresponds to variant dbSNP:rs3783612Ensembl.1
Natural variantiVAR_014311413G → A1 PublicationCorresponds to variant dbSNP:rs3783613Ensembl.1
Natural variantiVAR_049952421V → I. Corresponds to variant dbSNP:rs34100871Ensembl.1
Natural variantiVAR_049953488H → R. Corresponds to variant dbSNP:rs34199378Ensembl.1
Natural variantiVAR_014312716I → L1 PublicationCorresponds to variant dbSNP:rs3783615Ensembl.1

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_04463652 – 113Missing in isoform 3. 1 PublicationAdd BLAST62
Alternative sequenceiVSP_002580310 – 402EKPFT…VELYS → A in isoform 2. 1 PublicationAdd BLAST93

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M30257 mRNA Translation: AAA51917.1
X53051 mRNA Translation: CAA37218.1
M60335 mRNA Translation: AAA61269.1
M73255 Genomic DNA Translation: AAA61270.1
AF536818 Genomic DNA Translation: AAM96190.1
AK291732 mRNA Translation: BAF84421.1
AK296692 mRNA Translation: BAG59286.1
AC093428 Genomic DNA No translation available.
CH471097 Genomic DNA Translation: EAW72950.1
BC017276 mRNA Translation: AAH17276.3
BC068490 mRNA Translation: AAH68490.2
BC085003 mRNA Translation: AAH85003.1
M92431 Genomic DNA No translation available.
CCDSiCCDS55617.1 [P19320-3]
CCDS773.1 [P19320-1]
CCDS774.1 [P19320-2]
PIRiA41288
B41288
RefSeqiNP_001069.1, NM_001078.3 [P19320-1]
NP_001186763.1, NM_001199834.1 [P19320-3]
NP_542413.1, NM_080682.2 [P19320-2]
UniGeneiHs.109225

Genome annotation databases

EnsembliENST00000294728; ENSP00000294728; ENSG00000162692 [P19320-1]
ENST00000347652; ENSP00000304611; ENSG00000162692 [P19320-2]
ENST00000370119; ENSP00000359137; ENSG00000162692 [P19320-3]
GeneIDi7412
KEGGihsa:7412
UCSCiuc001dti.5 human [P19320-1]

Keywords - Coding sequence diversityi

Alternative splicing, Polymorphism

Similar proteinsi

Entry informationi

Entry nameiVCAM1_HUMAN
AccessioniPrimary (citable) accession number: P19320
Secondary accession number(s): A8K6R7
, B4DKS4, E9PDD1, Q6NUP8
Entry historyiIntegrated into UniProtKB/Swiss-Prot: November 1, 1990
Last sequence update: November 1, 1990
Last modified: July 18, 2018
This is version 225 of the entry and version 1 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

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

Documents

  1. Human cell differentiation molecules
    CD nomenclature of surface proteins of human leucocytes and list of entries
  2. Human chromosome 1
    Human chromosome 1: entries, gene names and cross-references to MIM
  3. Human entries with polymorphisms or disease mutations
    List of human entries with polymorphisms or disease mutations
  4. Human polymorphisms and disease mutations
    Index of human polymorphisms and disease mutations
  5. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
  6. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references

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