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

    Gene ID: 397, updated on 27-Nov-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
    mouse all
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    Genomic context

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    See ARHGDIB in Genome Data Viewer
    Location:
    12p12.3
    Exon count:
    10
    Annotation release Status Assembly Chr Location
    RS_2024_08 current GRCh38.p14 (GCF_000001405.40) 12 NC_000012.12 (14942015..14961601, complement)
    RS_2024_08 current T2T-CHM13v2.0 (GCF_009914755.1) 12 NC_060936.1 (14819352..14838935, complement)
    RS_2024_09 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. LyGDI is a promising biomarker for ovarian cancer. Zhen H, et al. Int J Gynecol Cancer, 2010 Apr. PMID 20375790
    2. NMR characterization of weak interactions between RhoGDI2 and fragment screening hits. Liu J, et al. Biochim Biophys Acta Gen Subj, 2017 Jan. PMID 27721047
    3. Radiation-Induced RhoGDIβ Cleavage Leads to Perturbation of Cell Polarity: A Possible Link to Cancer Spreading. Fujiwara M, et al. J Cell Physiol, 2016 Nov. PMID 26919575
    4. Altered cellular immunity in transgenic mice with T cell-specific expression of human D4-guanine diphosphate-dissociation inhibitor (D4-GDI). Kondoh K, et al. Int Immunol, 2008 Oct. PMID 18689726
    5. Silencing of D4-GDI inhibits growth and invasive behavior in MDA-MB-231 cells by activation of Rac-dependent p38 and JNK signaling. Zhang Y, et al. J Biol Chem, 2009 May 8. PMID 19269969, Free PMC Article

    See all (103) citations in PubMed

    GeneRIFs: Gene References Into Functions

    What's a GeneRIF?
    1. RhoGDIbeta inhibition via miR-200c/AUF1/SOX2/miR-137 axis contributed to lncRNA MEG3 downregulation-mediated malignant transformation of human bronchial epithelial cells.
      Title: RhoGDIβ inhibition via miR-200c/AUF1/SOX2/miR-137 axis contributed to lncRNA MEG3 downregulation-mediated malignant transformation of human bronchial epithelial cells.
    2. 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.
    3. CRIF1 deficiency suppresses endothelial cell migration via upregulation of RhoGDI2.
      Title: CRIF1 deficiency suppresses endothelial cell migration via upregulation of RhoGDI2.
    4. 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.
    5. Systematic investigation of biomarker-like role of ARHGDIB in breast cancer.
      Title: Systematic investigation of biomarker-like role of ARHGDIB in breast cancer.
    6. 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.
    7. 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.
    8. 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.
    9. 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.
    10. 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.
    Submit: New GeneRIF Correction See all GeneRIFs (53)

    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)

    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_2024_08

    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.

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