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

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; AllianceGenome:HGNC:6160
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: mouse all
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Genomic context

Location:: 3q21.2

Exon count:: 19

Annotation release	Status	Assembly	Chr	Location
RS_2023_10	current	GRCh38.p14 (GCF_000001405.40)	3	NC_000003.12 (124761948..124901418, complement)
RS_2023_10	current	T2T-CHM13v2.0 (GCF_009914755.1)	3	NC_060927.1 (127487791..127626839, complement)
105.20220307	previous assembly	GRCh37.p13 (GCF_000001405.25)	3	NC_000003.11 (124480795..124620265, complement)

Chromosome 3 - NC_000003.12 Genomic Context describing neighboring genes

Genomic regions, transcripts, and products

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Go to reference sequence details

Genomic Sequence:

Go to nucleotide: Graphics FASTA GenBank

Expression

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See details

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

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GeneRIFs: Gene References Into Functions

What's a GeneRIF?

PTP1B mediates the inhibitory effect of MFGE8 on insulin signaling through the beta5 integrin.
Title: PTP1B mediates the inhibitory effect of MFGE8 on insulin signaling through the β5 integrin.
Assessment Of Endometrial Integrin Beta 5 In Women With Unexplained Recurrent Pregnancy Loss.
Title: Assessment Of Endometrial Integrin Beta 5 In Women With Unexplained Recurrent Pregnancy Loss.
Integrin alphavbeta5 heterodimer is a specific marker of human pancreatic beta cells.
Title: Integrin αvβ5 heterodimer is a specific marker of human pancreatic beta cells.
Scavenger receptor MARCO contributes to macrophage phagocytosis and clearance of tumor cells.
Title: Scavenger receptor MARCO contributes to macrophage phagocytosis and clearance of tumor cells.
Zika Virus Targets Glioblastoma Stem Cells through a SOX2-Integrin alphavbeta5 Axis.
Title: Zika Virus Targets Glioblastoma Stem Cells through a SOX2-Integrin α(v)β(5) Axis.
Findings indicate integrin inhibition as a promising strategy to block both aryl hydrocarbon receptor (AhR) and transforming growth factor beta (TGF-beta)-controlled features of malignancy in glioblastoma.
Title: The aryl hydrocarbon receptor links integrin signaling to the TGF-β pathway.
High ITGB5 expression is associated with cervical cancer.
Title: Bufalin enhances antitumor effect of paclitaxel on cervical tumorigenesis via inhibiting the integrin α2/β5/FAK signaling pathway.
Data suggest that the binding, but not the internalization of photoreceptor outer segments (POS) confers protective effects on retinal pigment epithelium (RPE) cells through the alphavbeta5 integrin/focal adhesion kinase (FAK)/PGC-1alpha pathway.
Title: αvβ5 Integrin/FAK/PGC-1α Pathway Confers Protective Effects on Retinal Pigment Epithelium.
ITGA3, ITGA6, ITGB3,ITGB4 and ITGB5 are associated with GC susceptibility (rs2675), ITGA3, ITGA6, ITGB3, ITGB4 and ITGB5 are associated with gastric cancer susceptibility tumor stage and lymphatic metastasis in Chinese Han population
Title: Association between polymorphisms of microRNA-binding sites in integrin genes and gastric cancer in Chinese Han population.
FAK activity regulates beta5 integrin expression and anchorage-independent cell growth in ovarian carcinoma.
Title: FAK Inhibition disrupts a β5 integrin signaling axis controlling anchorage-independent ovarian carcinoma growth.

Submit: New GeneRIF Correction See all GeneRIFs (70)

Phenotypes

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Find tests for this gene in the NIH Genetic Testing Registry (GTR)

Review eQTL and phenotype association data in this region using PheGenI

EBI GWAS Catalog

Description
ITGB5 and AGFG1 variants are associated with severity of airway responsiveness. EBI GWAS Catalog EBI GWAS CatalogPubMed

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

HIV-1 interactions

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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

Interactions

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Products	Interactant	Other Gene	Complex	Source	Pubs	Description

General gene information

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Markers

SHGC-77290 (e-PCR)
- UniSTS:81736

D3S3998 (e-PCR)
- UniSTS:34420

G09533 (e-PCR)
- UniSTS:5000

D3S4240 (e-PCR)
- UniSTS:78731

ITGB5_1796 (e-PCR)
- UniSTS:280792

STS-D29504 (e-PCR)
- UniSTS:34815

Gene Ontology Provided by GOA

Function	Evidence Code	Pubs
enables integrin binding	IBA Inferred from Biological aspect of Ancestor more info
enables metal ion binding	IEA Inferred from Electronic Annotation more info
enables protein binding	IPI Inferred from Physical Interaction more info	PubMed
enables virus receptor activity	IEA Inferred from Electronic Annotation more info

Process	Evidence Code	Pubs
involved_in cell adhesion mediated by integrin	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell migration	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell migration	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell-cell adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-matrix adhesion	IBA Inferred from Biological aspect of Ancestor more info
involved_in cell-matrix adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in cell-matrix adhesion	NAS Non-traceable Author Statement more info	PubMed
involved_in endodermal cell differentiation	IEP Inferred from Expression Pattern more info	PubMed
involved_in epithelial cell-cell adhesion	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in integrin-mediated signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in integrin-mediated signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in integrin-mediated signaling pathway	NAS Non-traceable Author Statement more info	PubMed
involved_in stress fiber assembly	IBA Inferred from Biological aspect of Ancestor more info
involved_in stress fiber assembly	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in symbiont entry into host cell	IEA Inferred from Electronic Annotation more info
involved_in transforming growth factor beta receptor signaling pathway	IBA Inferred from Biological aspect of Ancestor more info
involved_in transforming growth factor beta receptor signaling pathway	IMP Inferred from Mutant Phenotype more info	PubMed
involved_in wound healing, spreading of epidermal cells	NAS Non-traceable Author Statement more info	PubMed

Component	Evidence Code	Pubs
located_in cell surface	HDA more info	PubMed
is_active_in cell surface	IBA Inferred from Biological aspect of Ancestor more info
located_in cell surface	IDA Inferred from Direct Assay more info	PubMed
located_in extracellular exosome	HDA more info	PubMed
located_in focal adhesion	HDA more info	PubMed
is_active_in focal adhesion	IBA Inferred from Biological aspect of Ancestor more info
part_of integrin alphav-beta5 complex	IDA Inferred from Direct Assay more info	PubMed
part_of integrin alphav-beta5 complex	IPI Inferred from Physical Interaction more info	PubMed
part_of integrin complex	IBA Inferred from Biological aspect of Ancestor more info
located_in phagocytic vesicle	TAS Traceable Author Statement more info
located_in plasma membrane	TAS Traceable Author Statement more info
part_of receptor complex	IDA Inferred from Direct Assay more info	PubMed

General protein information

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Preferred Names: integrin beta-5

Names: testis secretory sperm-binding protein Li 217p

NCBI Reference Sequences (RefSeq)

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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)

NM_001354764.2 → NP_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:1 → 355

INB; Integrin beta subunits (N-terminal portion of extracellular region)

pfam07965
Location:527 → 606

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:637 → 680

Integrin_b_cyt; Integrin beta cytoplasmic domain
NM_001354765.1 → NP_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:1 → 355

INB; Integrin beta subunits (N-terminal portion of extracellular region)

pfam07965
Location:527 → 606

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:637 → 680

Integrin_b_cyt; Integrin beta cytoplasmic domain
NM_001354766.2 → NP_001341695.1 integrin beta-5 isoform c

Status: REVIEWED

Source sequence(s)

AC022336, AC026342

Conserved Domains (3) summary

pfam07965
Location:482 → 561

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:592 → 635

Integrin_b_cyt; Integrin beta cytoplasmic domain

cl00057
Location:1 → 310

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 ...
NM_002213.5 → NP_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

B0LPF8, B2RD70, P18084

UniProtKB/TrEMBL

L7RT22

Related

ENSP00000296181.4, ENST00000296181.9

Conserved Domains (3) summary

smart00187
Location:35 → 463

INB; Integrin beta subunits (N-terminal portion of extracellular region)

pfam07965
Location:635 → 714

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:745 → 788

Integrin_b_cyt; Integrin beta cytoplasmic domain

RefSeqs of Annotated Genomes: GCF_000001405.40-RS_2023_10

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

Reference GRCh38.p14 Primary Assembly

Genomic

NC_000003.12 Reference GRCh38.p14 Primary Assembly

Range

124761948..124901418 complement

Download

GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

XM_005247436.4 → XP_005247493.1 integrin beta-5 isoform X4

Conserved Domains (3) summary

smart00187
Location:35 → 433

INB; Integrin beta subunits (N-terminal portion of extracellular region)

pfam07965
Location:605 → 684

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:715 → 758

Integrin_b_cyt; Integrin beta cytoplasmic domain
XM_006713630.4 → XP_006713693.1 integrin beta-5 isoform X5

Conserved Domains (3) summary

smart00187
Location:35 → 418

INB; Integrin beta subunits (N-terminal portion of extracellular region)

pfam07965
Location:590 → 669

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:700 → 743

Integrin_b_cyt; Integrin beta cytoplasmic domain
XM_047448088.1 → XP_047304044.1 integrin beta-5 isoform X2
XM_047448089.1 → XP_047304045.1 integrin beta-5 isoform X3
XM_047448087.1 → XP_047304043.1 integrin beta-5 isoform X1
XM_017006353.2 → XP_016861842.1 integrin beta-5 isoform X1

Conserved Domains (3) summary

smart00187
Location:1 → 355

INB; Integrin beta subunits (N-terminal portion of extracellular region)

pfam07965
Location:527 → 606

Integrin_B_tail; Integrin beta tail domain

pfam08725
Location:637 → 680

Integrin_b_cyt; Integrin beta cytoplasmic domain