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ARHGDIB Rho GDP dissociation inhibitor beta [ Homo sapiens (human) ]

Gene ID: 397, updated on 5-Mar-2024

Summary

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Official Symbol
ARHGDIBprovided by HGNC
Official Full Name
Rho GDP dissociation inhibitor betaprovided by HGNC
Primary source
HGNC:HGNC:679
See related
Ensembl:ENSG00000111348 MIM:602843; AllianceGenome:HGNC:679
Gene type
protein coding
RefSeq status
VALIDATED
Organism
Homo sapiens
Lineage
Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia; Eutheria; Euarchontoglires; Primates; Haplorrhini; Catarrhini; Hominidae; Homo
Also known as
D4; GDIA2; GDID4; LYGDI; Ly-GDI; RAP1GN1; RhoGDI2
Summary
Members of the Rho (or ARH) protein family (see MIM 165390) and other Ras-related small GTP-binding proteins (see MIM 179520) are involved in diverse cellular events, including cell signaling, proliferation, cytoskeletal organization, and secretion. The GTP-binding proteins are active only in the GTP-bound state. At least 3 classes of proteins tightly regulate cycling between the GTP-bound and GDP-bound states: GTPase-activating proteins (GAPs), guanine nucleotide-releasing factors (GRFs), and GDP-dissociation inhibitors (GDIs). The GDIs, including ARHGDIB, decrease the rate of GDP dissociation from Ras-like GTPases (summary by Scherle et al., 1993 [PubMed 8356058]).[supplied by OMIM, Dec 2010]
Expression
Broad expression in bone marrow (RPKM 324.5), lymph node (RPKM 244.8) and 19 other tissues See more
Orthologs
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Genomic context

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Location:
12p12.3
Exon count:
10
Annotation release Status Assembly Chr Location
RS_2023_10 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (14942015..14961601, complement)
RS_2023_10 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (14819352..14838935, complement)
105.20220307 previous assembly GRCh37.p13 (GCF_000001405.25) 12 NC_000012.11 (15094949..15114535, complement)

Chromosome 12 - NC_000012.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC124902885 Neighboring gene endoplasmic reticulum protein 27 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6059 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6060 Neighboring gene BRD4-independent group 4 enhancer GRCh37_chr12:15103381-15104580 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6061 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6062 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6063 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6064 Neighboring gene ATAC-STARR-seq lymphoblastoid active region 6065 Neighboring gene phosphodiesterase 6H Neighboring gene ATAC-STARR-seq lymphoblastoid silent region 4277 Neighboring gene long intergenic non-protein coding RNA 1489

Genomic regions, transcripts, and products

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Go to nucleotide: Graphics FASTA GenBank

Expression

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  • 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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Related articles in PubMed

  1. Systematic investigation of biomarker-like role of ARHGDIB in breast cancer. Wang X, et al. Cancer Biomark, 2020. PMID 32176626
  2. Antibodies Against ARHGDIB and ARHGDIB Gene Expression Associate With Kidney Allograft Outcome. Senev A, et al. Transplantation, 2020 Jul. PMID 31651716
  3. RhoGDI2 positively regulates the Rho GTPases activation in response to the β2 outside-in signaling in T cells adhesion and migration on ICAM-1. Liu W, et al. J Leukoc Biol, 2019 Aug. PMID 31075185
  4. Apoptosis‑independent cleavage of RhoGDIβ at Asp19 during PMA‑stimulated differentiation of THP‑1 cells to macrophages. Ota T, et al. Mol Med Rep, 2017 Apr. PMID 28260067, Free PMC Article
  5. NMR characterization of weak interactions between RhoGDI2 and fragment screening hits. Liu J, et al. Biochim Biophys Acta Gen Subj, 2017 Jan. PMID 27721047

See all (98) citations in PubMed

GeneRIFs: Gene References Into Functions

What's a GeneRIF?
  1. Hyperglycemic Stress Induces Expression, Degradation, and Nuclear Association of Rho GDP Dissociation Inhibitor 2 (RhoGDIbeta) in Pancreatic beta-Cells.
    Title: Hyperglycemic Stress Induces Expression, Degradation, and Nuclear Association of Rho GDP Dissociation Inhibitor 2 (RhoGDIβ) in Pancreatic β-Cells.
  2. CRIF1 deficiency suppresses endothelial cell migration via upregulation of RhoGDI2.
    Title: CRIF1 deficiency suppresses endothelial cell migration via upregulation of RhoGDI2.
  3. Knockdown of RhoGDI2 represses human gastric cancer cell proliferation, invasion and drug resistance via the Rac1/Pak1/LIMK1 pathway.
    Title: Knockdown of RhoGDI2 represses human gastric cancer cell proliferation, invasion and drug resistance via the Rac1/Pak1/LIMK1 pathway.
  4. Systematic investigation of biomarker-like role of ARHGDIB in breast cancer.
    Title: Systematic investigation of biomarker-like role of ARHGDIB in breast cancer.
  5. Antibodies Against ARHGDIB and ARHGDIB Gene Expression Associate With Kidney Allograft Outcome.
    Title: Antibodies Against ARHGDIB and ARHGDIB Gene Expression Associate With Kidney Allograft Outcome.
  6. RhoGDI2 is a target of intergrin outside-in signaling that activates Rho GTPases during T cell adhesion and migration, and RhoGDI2-mediated signal transduction is based on the lipid rafts integrity.
    Title: RhoGDI2 positively regulates the Rho GTPases activation in response to the β2 outside-in signaling in T cells adhesion and migration on ICAM-1.
  7. We found that silencing Myo7a by means of RNAi inhibited melanoma cell growth through upregulation of cell cycle regulator p21 (also known as CDKN1A) and suppressed melanoma cell migration and invasion through downregulation of RhoGDI2 (also known as ARHGDIB)
    Title: Unconventional myosin VIIA promotes melanoma progression.
  8. RhoGDIbeta overexpression led to downregulation of miR-200c, whereas miR-200c was able directly to target 3'-UTR of jnk2mRNA and attenuated JNK2 protein translation, which resulted in attenuation of Sp1mRNA and protein expression in turn, inhibiting Sp1-dependent MMP-2 transcription.
    Title: RhoGDIβ promotes Sp1/MMP-2 expression and bladder cancer invasion through perturbing miR-200c-targeted JNK2 protein translation.
  9. Binders to RhoGDI2 as a potential anti-cancer target have been first reported, and their weak interactions were depicted using NMR spectroscopy.
    Title: NMR characterization of weak interactions between RhoGDI2 and fragment screening hits.
  10. Together, our results suggest a role for Ly-GDI in the localized regulation of Rho GTPases in platelets and hypothesize a link between the PKC and Rho GTPase signaling systems in platelet function.
    Title: Assessment of roles for the Rho-specific guanine nucleotide dissociation inhibitor Ly-GDI in platelet function: a spatial systems approach.
Submit: New GeneRIF Correction See all GeneRIFs (52)

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

Variation

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See variants in ClinVar

See studies and variants in dbVar

See Variation Viewer (GRCh37.p13)

See Variation Viewer (GRCh38)

Genotypes

HIV-1 interactions

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Protein interactions

Protein Gene Interaction Pubs
Vpr vpr The proteomic assay from Vpr-expressing HTLV-1 transformed cells reveals apoptosis related protein changes, such as CASP3 activity indicator proteins (vimentin and Rho GDP-dissociation inhibitor 2) PubMed

Go to the HIV-1, Human Interaction Database

Pathways from PubChem

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Interactions

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Products Interactant Other Gene Complex Source Pubs Description

General gene information

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Markers

Homology

Gene Ontology Provided by GOA

Function Evidence Code Pubs
enables GTPase activator activity IEA
Inferred from Electronic Annotation
more info
  
enables GTPase activity IMP
Inferred from Mutant Phenotype
more info
 PubMed 
enables Rho GDP-dissociation inhibitor activity IBA
Inferred from Biological aspect of Ancestor
more info
  
enables Rho GDP-dissociation inhibitor activity IDA
Inferred from Direct Assay
more info
 PubMed 
enables protein binding IPI
Inferred from Physical Interaction
more info
 PubMed 
enables small GTPase binding IDA
Inferred from Direct Assay
more info
 PubMed 
Process Evidence Code Pubs
involved_in Rho protein signal transduction IBA
Inferred from Biological aspect of Ancestor
more info
  
involved_in cellular response to redox state IEA
Inferred from Electronic Annotation
more info
  
involved_in negative regulation of trophoblast cell migration IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of Rho protein signal transduction IDA
Inferred from Direct Assay
more info
 PubMed 
involved_in regulation of Rho protein signal transduction IMP
Inferred from Mutant Phenotype
more info
 PubMed 
Component Evidence Code Pubs
located_in cytoplasm TAS
Traceable Author Statement
more info
 PubMed 
located_in cytoplasmic vesicle TAS
Traceable Author Statement
more info
 PubMed 
located_in cytoskeleton TAS
Traceable Author Statement
more info
 PubMed 
is_active_in cytosol IBA
Inferred from Biological aspect of Ancestor
more info
  
located_in cytosol IDA
Inferred from Direct Assay
more info
 PubMed 
located_in cytosol TAS
Traceable Author Statement
more info
  
located_in extracellular exosome HDA PubMed 
is_active_in membrane IBA
Inferred from Biological aspect of Ancestor
more info
  

General protein information

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Preferred Names
rho GDP-dissociation inhibitor 2
Names
Rho GDI 2
Rho GDP dissociation inhibitor (GDI) beta
rho-GDI beta

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)

  1. NM_001175.7 → NP_001166.3  rho GDP-dissociation inhibitor 2

    See identical proteins and their annotated locations for NP_001166.3

    Status: VALIDATED

    Source sequence(s)
    BC009200, BM849963, BY996333
    Consensus CDS
    CCDS8671.1
    UniProtKB/Swiss-Prot
    B5BU79, P52566
    UniProtKB/TrEMBL
    B2R4F3
    Related
    ENSP00000228945.4, ENST00000228945.9
    Conserved Domains (1) summary
    pfam02115
    Location:21 → 198
    Rho_GDI; RHO protein GDP dissociation inhibitor

  2. NM_001321420.2 → NP_001308349.1  rho GDP-dissociation inhibitor 2

    Status: VALIDATED

    Source sequence(s)
    BG390701, BP355037, BQ213418
    Consensus CDS
    CCDS8671.1
    UniProtKB/Swiss-Prot
    B5BU79, P52566
    UniProtKB/TrEMBL
    B2R4F3
    Related
    ENSP00000440560.1, ENST00000541546.5
    Conserved Domains (1) summary
    pfam02115
    Location:21 → 198
    Rho_GDI; RHO protein GDP dissociation inhibitor

  3. NM_001321421.2 → NP_001308350.1  rho GDP-dissociation inhibitor 2

    Status: VALIDATED

    Source sequence(s)
    AC007655, AV685495, AV717900, BC009200, BM849963, BY996333
    Consensus CDS
    CCDS8671.1
    UniProtKB/Swiss-Prot
    B5BU79, P52566
    UniProtKB/TrEMBL
    B2R4F3
    Conserved Domains (1) summary
    pfam02115
    Location:21 → 198
    Rho_GDI; RHO protein GDP dissociation inhibitor

  4. NM_001321422.1 → NP_001308351.1  rho GDP-dissociation inhibitor 2

    Status: VALIDATED

    Source sequence(s)
    AC007655, BC009200, BM849963, BY996333, CD385175
    Consensus CDS
    CCDS8671.1
    UniProtKB/Swiss-Prot
    B5BU79, P52566
    UniProtKB/TrEMBL
    B2R4F3
    Conserved Domains (1) summary
    pfam02115
    Location:21 → 198
    Rho_GDI; RHO protein GDP dissociation inhibitor

  5. NM_001321423.1 → NP_001308352.1  rho GDP-dissociation inhibitor 2

    Status: VALIDATED

    Source sequence(s)
    BC009200, BE744996, BM849963, BY996333, CD385175
    Consensus CDS
    CCDS8671.1
    UniProtKB/Swiss-Prot
    B5BU79, P52566
    UniProtKB/TrEMBL
    B2R4F3
    Related
    ENSP00000444860.1, ENST00000541644.5
    Conserved Domains (1) summary
    pfam02115
    Location:21 → 198
    Rho_GDI; RHO protein GDP dissociation inhibitor

RNA

  1. NR_135637.2 RNA Sequence

    Status: VALIDATED

    Source sequence(s)
    BC009200, BM849963, BP365648, BY996333

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

  1. NC_000012.12 Reference GRCh38.p14 Primary Assembly

    Range
    14942015..14961601 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

Alternate T2T-CHM13v2.0

Genomic

  1. NC_060936.1 Alternate T2T-CHM13v2.0

    Range
    14819352..14838935 complement
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)
Nucleotide Protein
Heading Accession and Version
Protein Accession Links
GenPept Link UniProtKB Link
P52566.3 GenPept UniProtKB/Swiss-Prot:P52566

Gene LinkOut

The following LinkOut resources are supplied by external providers. These providers are responsible for maintaining the links.

Chemical Information
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