Format

Send to:

Choose Destination

ITGB5 integrin subunit beta 5 [ Homo sapiens (human) ]

Gene ID: 3693, updated on 1-Jun-2020

Summary

Official Symbol
ITGB5provided by HGNC
Official Full Name
integrin subunit beta 5provided by HGNC
Primary source
HGNC:HGNC:6160
See related
Ensembl:ENSG00000082781 MIM:147561
Gene type
protein coding
RefSeq status
REVIEWED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Summary
This gene encodes a beta subunit of integrin, which can combine with different alpha chains to form a variety of integrin heterodimers. Integrins are integral cell-surface receptors that participate in cell adhesion as well as cell-surface mediated signaling. The alphav beta5 integrin is involved in adhesion to vitronectin. [provided by RefSeq, Aug 2017]
Expression
Ubiquitous expression in placenta (RPKM 40.4), gall bladder (RPKM 34.0) and 24 other tissues See more
Orthologs

Genomic context

See ITGB5 in Genome Data Viewer
Location:
3q21.2
Exon count:
18
Annotation release Status Assembly Chr Location
109.20200522 current GRCh38.p13 (GCF_000001405.39) 3 NC_000003.12 (124761948..124901411, complement)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 3 NC_000003.11 (124480795..124606500, complement)

Chromosome 3 - NC_000003.12Genomic Context describing neighboring genes Neighboring gene ribosomal protein S26 pseudogene 22 Neighboring gene microRNA 544b Neighboring gene uridine monophosphate synthetase Neighboring gene enolase 1 pseudogene 3 Neighboring gene mucin 13, cell surface associated Neighboring gene heart development protein with EGF like domains 1 Neighboring gene Sharpr-MPRA regulatory region 1791

Genomic regions, transcripts, and products

Expression

  • Project title: HPA RNA-seq normal tissues
  • Description: RNA-seq was performed of tissue samples from 95 human individuals representing 27 different tissues in order to determine tissue-specificity of all protein-coding genes
  • BioProject: PRJEB4337
  • Publication: PMID 24309898
  • Analysis date: Wed Apr 4 07:08:55 2018

Bibliography

GeneRIFs: Gene References Into Functions

What's a GeneRIF?

HIV-1 interactions

Protein interactions

Protein Gene Interaction Pubs
Envelope surface glycoprotein gp120 env HIV-1 Tat complexes with gp120 to induce entry of VLPs expressing R5- or X4-tropic Env into MDDCs, which involves alpha5beta1, alpha5beta3, and alpha5beta5 integrins PubMed
Tat tat HIV-1 Tat complexes with gp120 to induce entry of VLPs expressing R5- or X4-tropic Env into MDDCs, which involves alpha5beta1, alpha5beta3, and alpha5beta5 integrins PubMed
tat HIV-1 Tat induced monocyte invasion is inhibited by anti-beta integrin Ab or tissue inhibitor of metalloproteinase (TIMP), indicating an interaction with beta integrins and TIMP PubMed
tat The vitronectin-binding integrin, alpha v beta 5, is the cell surface protein that binds to the basic RGD domain (amino acids 65-85) of HIV-1 Tat PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • FLJ26658

Gene Ontology Provided by GOA

Function Evidence Code Pubs
integrin binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
protein binding IPI
Inferred from Physical Interaction
more info
PubMed 
signaling receptor activity IEA
Inferred from Electronic Annotation
more info
 
virus receptor activity IEA
Inferred from Electronic Annotation
more info
 
Process Evidence Code Pubs
antigen processing and presentation of exogenous peptide antigen via MHC class I, TAP-dependent TAS
Traceable Author Statement
more info
 
cell adhesion mediated by integrin IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell migration IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-matrix adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell-matrix adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
endodermal cell differentiation IEP
Inferred from Expression Pattern
more info
PubMed 
epithelial cell-cell adhesion IMP
Inferred from Mutant Phenotype
more info
PubMed 
extracellular matrix organization TAS
Traceable Author Statement
more info
 
integrin-mediated signaling pathway IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integrin-mediated signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
muscle contraction TAS
Traceable Author Statement
more info
 
stress fiber assembly IMP
Inferred from Mutant Phenotype
more info
PubMed 
transforming growth factor beta receptor signaling pathway IMP
Inferred from Mutant Phenotype
more info
PubMed 
viral entry into host cell IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cell surface HDA PubMed 
cell surface IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
cell surface IDA
Inferred from Direct Assay
more info
PubMed 
extracellular exosome HDA PubMed 
focal adhesion HDA PubMed 
focal adhesion IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
integrin alphav-beta5 complex IDA
Inferred from Direct Assay
more info
PubMed 
integrin complex IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
phagocytic vesicle TAS
Traceable Author Statement
more info
 
plasma membrane TAS
Traceable Author Statement
more info
 
receptor complex IDA
Inferred from Direct Assay
more info
PubMed 

General protein information

Preferred Names
integrin beta-5
Names
testis secretory sperm-binding protein Li 217p

NCBI Reference Sequences (RefSeq)

RefSeqs maintained independently of Annotated Genomes

These reference sequences exist independently of genome builds. Explain

These reference sequences are curated independently of the genome annotation cycle, so their versions may not match the RefSeq versions in the current genome build. Identify version mismatches by comparing the version of the RefSeq in this section to the one reported in Genomic regions, transcripts, and products above.

mRNA and Protein(s)

  1. NM_001354764.1NP_001341693.1  integrin beta-5 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: Variants 2 and 3 encode the same isoform (b).
    Source sequence(s)
    AC022336, AC026342
    Conserved Domains (3) summary
    smart00187
    Location:1355
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:527606
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:637680
    Integrin_b_cyt; Integrin beta cytoplasmic domain
  2. NM_001354765.1NP_001341694.1  integrin beta-5 isoform b

    Status: REVIEWED

    Description
    Transcript Variant: Variants 2 and 3 encode the same isoform (b).
    Source sequence(s)
    AC022336, AC026342
    Conserved Domains (3) summary
    smart00187
    Location:1355
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:527606
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:637680
    Integrin_b_cyt; Integrin beta cytoplasmic domain
  3. NM_001354766.1NP_001341695.1  integrin beta-5 isoform c

    Status: REVIEWED

    Source sequence(s)
    AC022336, AC026342
    Conserved Domains (3) summary
    pfam07965
    Location:482561
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:592635
    Integrin_b_cyt; Integrin beta cytoplasmic domain
    cl00057
    Location:1310
    vWFA; Von Willebrand factor type A (vWA) domain was originally found in the blood coagulation protein von Willebrand factor (vWF). Typically, the vWA domain is made up of approximately 200 amino acid residues folded into a classic a/b para-rossmann type of ...
  4. NM_002213.5NP_002204.2  integrin beta-5 isoform a precursor

    See identical proteins and their annotated locations for NP_002204.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) encodes the longest isoform (1)
    Source sequence(s)
    AC026342, BC006541, BQ007769, BX095583, J05633, X53002
    Consensus CDS
    CCDS3030.1
    UniProtKB/Swiss-Prot
    P18084
    UniProtKB/TrEMBL
    L7RT22
    Related
    ENSP00000296181.4, ENST00000296181.9
    Conserved Domains (3) summary
    smart00187
    Location:35463
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:635714
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:745788
    Integrin_b_cyt; Integrin beta cytoplasmic domain

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.

The following sections contain reference sequences that belong to a specific genome build. Explain

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000003.12 Reference GRCh38.p13 Primary Assembly

    Range
    124761948..124901411 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_017006355.1XP_016861844.1  integrin beta-5 isoform X5

  2. XM_017006354.2XP_016861843.1  integrin beta-5 isoform X4

  3. XM_005247436.3XP_005247493.1  integrin beta-5 isoform X1

    Conserved Domains (3) summary
    smart00187
    Location:35433
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:605684
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:715758
    Integrin_b_cyt; Integrin beta cytoplasmic domain
  4. XM_006713630.3XP_006713693.1  integrin beta-5 isoform X2

    Conserved Domains (3) summary
    smart00187
    Location:35418
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:590669
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:700743
    Integrin_b_cyt; Integrin beta cytoplasmic domain
  5. XM_017006353.1XP_016861842.1  integrin beta-5 isoform X3

    UniProtKB/TrEMBL
    D3DNA1
    Conserved Domains (3) summary
    smart00187
    Location:1355
    INB; Integrin beta subunits (N-terminal portion of extracellular region)
    pfam07965
    Location:527606
    Integrin_B_tail; Integrin beta tail domain
    pfam08725
    Location:637680
    Integrin_b_cyt; Integrin beta cytoplasmic domain
Support Center