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RGPD5 RANBP2 like and GRIP domain containing 5 [ Homo sapiens (human) ]

Gene ID: 84220, updated on 24-Nov-2020

Summary

Official Symbol
RGPD5provided by HGNC
Official Full Name
RANBP2 like and GRIP domain containing 5provided by HGNC
Primary source
HGNC:HGNC:32418
See related
Ensembl:ENSG00000015568 MIM:612708
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
Also known as
BS63; RGP5; BS-63; HEL161
Summary
RAN is a small GTP-binding protein of the RAS superfamily that is associated with the nuclear membrane and is thought to control a variety of cellular functions through its interactions with other proteins. This gene shares a high degree of sequence identity with RANBP2, a large RAN-binding protein localized at the cytoplasmic side of the nuclear pore complex. It is believed that this RANBP2 gene family member arose from a duplication event 3 Mb distal to RANBP2. Alternative splicing has been observed for this locus and two variants are described. Additional splicing is suggested but complete sequence for further transcripts has not been determined. [provided by RefSeq, Jul 2008]
Expression
Broad expression in testis (RPKM 33.7), brain (RPKM 11.6) and 25 other tissues See more

Genomic context

See RGPD5 in Genome Data Viewer
Location:
2q13
Exon count:
28
Annotation release Status Assembly Chr Location
109.20201120 current GRCh38.p13 (GCF_000001405.39) 2 NC_000002.12 (109760594..109857705)
105 previous assembly GRCh37.p13 (GCF_000001405.25) 2 NC_000002.11 (110550335..110615268)

Chromosome 2 - NC_000002.12Genomic Context describing neighboring genes Neighboring gene uncharacterized LOC107985774 Neighboring gene SRSF3 pseudogene 6 Neighboring gene ribosomal protein L22 pseudogene 11 Neighboring gene uncharacterized LOC100506563 Neighboring gene uncharacterized LOC102724848 Neighboring gene 2q13 recombination region Neighboring gene LIMS3-LOC440895 readthrough Neighboring gene uncharacterized LOC105373547 Neighboring gene LIM zinc finger domain containing 3

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

HIV-1 interactions

Replication interactions

Interaction Pubs
Knockdown of RANBP2-like and GRIP domain containing 5 (RGPD5) by siRNA inhibits HIV-1 replication in HeLa-derived TZM-bl cells PubMed

Go to the HIV-1, Human Interaction Database

Interactions

Products Interactant Other Gene Complex Source Pubs Description

General gene information

Markers

Homology

Clone Names

  • DKFZp686I1842

Gene Ontology Provided by GOA

Function Evidence Code Pubs
contributes_to GTPase activator activity IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
small GTPase binding IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
Process Evidence Code Pubs
NLS-bearing protein import into nucleus IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
positive regulation of GTPase activity IEA
Inferred from Electronic Annotation
more info
 
Component Evidence Code Pubs
cytoplasm IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 
nuclear pore IBA
Inferred from Biological aspect of Ancestor
more info
PubMed 

General protein information

Preferred Names
RANBP2-like and GRIP domain-containing protein 5/6
Names
RANBP2-like and GRIP domain-containing protein 5
epididymis luminal protein 161
ran-binding protein 2-like 1
ran-binding protein 2-like 1/2
ranBP2-like 1
ranBP2-like 1/2
ranBP2L1
sperm membrane protein BS-63

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_005054.3NP_005045.2  RANBP2-like and GRIP domain-containing protein 5/6 isoform 1

    See identical proteins and their annotated locations for NP_005045.2

    Status: REVIEWED

    Description
    Transcript Variant: This variant (1) is the longest transcript encoding the largest isoform (1).
    Source sequence(s)
    AC013271, AL044843, AL136868, BU631831, CA446006, U64675
    Consensus CDS
    CCDS2082.1
    UniProtKB/Swiss-Prot
    Q99666
    UniProtKB/TrEMBL
    V9HWE4
    Related
    ENSP00000016946.3, ENST00000016946.8
    Conserved Domains (8) summary
    COG5171
    Location:9751167
    YRB1; Ran GTPase-activating protein (Ran-binding protein) [Intracellular trafficking and secretion]
    cd13177
    Location:10511167
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:13481464
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    sd00006
    Location:5989
    TPR; TPR repeat [structural motif]
    pfam00515
    Location:6092
    TPR_1; Tetratricopeptide repeat
    pfam01465
    Location:17071749
    GRIP; GRIP domain
    pfam13414
    Location:59126
    TPR_11; TPR repeat
    pfam16704
    Location:16411705
    Rab_bind; Rab binding domain
  2. NM_032260.3NP_115636.1  RANBP2-like and GRIP domain-containing protein 5/6 isoform 2

    See identical proteins and their annotated locations for NP_115636.1

    Status: REVIEWED

    Description
    Transcript Variant: This variant (2) uses an alternate 3' terminal exon and is truncated, compared to variant 1. The encoded isoform (2) is shorter than isoform 1 and has a unique C-terminus.
    Source sequence(s)
    AC013271
    Consensus CDS
    CCDS2083.1
    UniProtKB/Swiss-Prot
    Q99666
    Related
    ENSP00000376962.1, ENST00000393283.5
    Conserved Domains (3) summary
    sd00006
    Location:5989
    TPR; TPR repeat [structural motif]
    pfam00515
    Location:6092
    TPR_1; Tetratricopeptide repeat
    pfam13414
    Location:59126
    TPR_11; TPR repeat

RefSeqs of Annotated Genomes: Homo sapiens Updated Annotation Release 109.20201120

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

Reference GRCh38.p13 Primary Assembly

Genomic

  1. NC_000002.12 Reference GRCh38.p13 Primary Assembly

    Range
    109760594..109857705
    Download
    GenBank, FASTA, Sequence Viewer (Graphics)

mRNA and Protein(s)

  1. XM_006712794.4XP_006712857.2  RANBP2-like and GRIP domain-containing protein 5/6 isoform X1

    Conserved Domains (8) summary
    COG5171
    Location:10011193
    YRB1; Ran GTPase-activating protein (Ran-binding protein) [Intracellular trafficking and secretion]
    cd13177
    Location:10771193
    RanBD2_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 2
    cd14685
    Location:13741490
    RanBD3_RanBP2-like; Ran-binding protein 2, Ran binding domain repeat 3
    sd00006
    Location:85115
    TPR; TPR repeat [structural motif]
    pfam00515
    Location:86118
    TPR_1; Tetratricopeptide repeat
    pfam01465
    Location:17331775
    GRIP; GRIP domain
    pfam13414
    Location:85152
    TPR_11; TPR repeat
    pfam16704
    Location:16671731
    Rab_bind; Rab binding domain
  2. XM_017005081.2XP_016860570.1  RANBP2-like and GRIP domain-containing protein 5/6 isoform X3

  3. XM_017005080.1XP_016860569.1  RANBP2-like and GRIP domain-containing protein 5/6 isoform X2

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