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Aliases for RGPD3 Gene

Aliases for RGPD3 Gene

  • RANBP2-Like And GRIP Domain Containing 3 2 3
  • RGP3 3 4 6
  • RanBP2-Like And GRIP Domain-Containing Protein 3 3

External Ids for RGPD3 Gene

Previous GeneCards Identifiers for RGPD3 Gene

  • GC00U921699
  • GC02U900831
  • GC02M107007

Summaries for RGPD3 Gene

Entrez Gene Summary for RGPD3 Gene

  • This gene is located in a cluster of Ran-binding protein related genes on chromosome 2 which arose through duplication in primates. The encoded protein contains an N-terminal TPR (tetratricopeptide repeat) domain, two Ran-binding domains, and a C-terminal GRIP domain (golgin-97, RanBP2alpha, Imh1p and p230/golgin-245) domain. [provided by RefSeq, Sep 2011]

GeneCards Summary for RGPD3 Gene

RGPD3 (RANBP2-Like And GRIP Domain Containing 3) is a Protein Coding gene. An important paralog of this gene is PPIE.

No data available for UniProtKB/Swiss-Prot , Tocris Summary , Gene Wiki entry , PharmGKB "VIP" Summary , fRNAdb sequence ontologies and piRNA Summary for RGPD3 Gene

Genomics for RGPD3 Gene

Regulatory Elements for RGPD3 Gene

Genomic Location for RGPD3 Gene

Start:
106,391,290 bp from pter
End:
106,468,376 bp from pter
Size:
77,087 bases
Orientation:
Minus strand

Genomic View for RGPD3 Gene

UCSC Golden Path with GeneCards custom track
Cytogenetic band:
Genomic Location for RGPD3 Gene
GeneLoc Logo Genomic Neighborhood Exon StructureGene Density

RefSeq DNA sequence for RGPD3 Gene

Proteins for RGPD3 Gene

  • Protein details for RGPD3 Gene (UniProtKB/Swiss-Prot)

    Protein Symbol:
    A6NKT7-RGPD3_HUMAN
    Recommended name:
    RanBP2-like and GRIP domain-containing protein 3
    Protein Accession:
    A6NKT7
    Secondary Accessions:
    • B8ZZM4

    Protein attributes for RGPD3 Gene

    Size:
    1758 amino acids
    Molecular mass:
    197487 Da
    Quaternary structure:
    No Data Available
    Miscellaneous:
    • One of the 8 copies of RANBP2 clustered close to the chromosome 2 centromere

neXtProt entry for RGPD3 Gene

Proteomics data for RGPD3 Gene at MOPED

Post-translational modifications for RGPD3 Gene

  • Ubiquitination at Lys106, Lys799, Lys1086, Lys1181, Lys1206, Lys1383, Lys1421, and Lys1449
  • Modification sites at PhosphoSitePlus

Other Protein References for RGPD3 Gene

ENSEMBL proteins:
REFSEQ proteins:

No data available for DME Specific Peptides for RGPD3 Gene

Domains for RGPD3 Gene

Gene Families for RGPD3 Gene

HGNC:
  • TTC :Tetratricopeptide (TTC) repeat domain containing

Protein Domains for RGPD3 Gene

Suggested Antigen Peptide Sequences for RGPD3 Gene

GenScript: Design optimal peptide antigens:

Graphical View of Domain Structure for InterPro Entry

A6NKT7

UniProtKB/Swiss-Prot:

RGPD3_HUMAN :
  • A6NKT7
Domain:
  • Contains 1 GRIP domain.
  • Contains 2 RanBD1 domains.
Similarity:
  • Contains 2 TPR repeats.
genes like me logo Genes that share domains with RGPD3: view

Function for RGPD3 Gene

Gene Ontology (GO) - Molecular Function for RGPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0005515 protein binding --
genes like me logo Genes that share ontologies with RGPD3: view

miRNA for RGPD3 Gene

miRTarBase miRNAs that target RGPD3

No data available for Molecular function , Enzyme Numbers (IUBMB) , Phenotypes , Animal Models , Transcription Factor Targeting and HOMER Transcription for RGPD3 Gene

Localization for RGPD3 Gene

Subcellular locations from

COMPARTMENTS
Jensen Localization Image for RGPD3 Gene COMPARTMENTS Subcellular localization image for RGPD3 gene
Compartment Confidence
cytosol 3
nucleus 2
cytoskeleton 1
mitochondrion 1
peroxisome 1
plasma membrane 1

No data available for Subcellular locations from UniProtKB/Swiss-Prot and Gene Ontology (GO) - Cellular Components for RGPD3 Gene

Pathways for RGPD3 Gene

SuperPathways for RGPD3 Gene

No Data Available

Interacting Proteins for RGPD3 Gene

Gene Ontology (GO) - Biological Process for RGPD3 Gene

GO ID Qualified GO term Evidence PubMed IDs
GO:0000042 protein targeting to Golgi IEA --
GO:0046907 intracellular transport --
genes like me logo Genes that share ontologies with RGPD3: view

No data available for Pathways by source for RGPD3 Gene

Transcripts for RGPD3 Gene

mRNA/cDNA for RGPD3 Gene

(6) REFSEQ mRNAs :
(1) Additional mRNA sequences :
(2) Ensembl transcripts including schematic representations, and UCSC links where relevant :

Unigene Clusters for RGPD3 Gene

RANBP2-like and GRIP domain containing 3:
Representative Sequences:

Alternative Splicing Database (ASD) splice patterns (SP) for RGPD3 Gene

No ASD Table

Relevant External Links for RGPD3 Gene

GeneLoc Exon Structure for
RGPD3
ECgene alternative splicing isoforms for
RGPD3

Expression for RGPD3 Gene

mRNA expression in normal human tissues for RGPD3 Gene

mRNA expression in embryonic tissues and stem cells from LifeMap Discovery

mRNA differential expression in normal tissues according to GTEx for RGPD3 Gene

This gene is overexpressed in Testis (13.1).

Integrated Proteomics: protein expression from ProteomicsDB, PaxDb, MOPED, and MaxQB for RGPD3 Gene

SOURCE GeneReport for Unigene cluster for RGPD3 Gene Hs.726367

genes like me logo Genes that share expressions with RGPD3: view

No data available for mRNA Expression by UniProt/SwissProt for RGPD3 Gene

Orthologs for RGPD3 Gene

This gene was present in the common ancestor of animals.

Orthologs for RGPD3 Gene

Organism Taxonomy Gene Similarity Type Details
chimpanzee
(Pan troglodytes)
Mammalia -- 36
  • 96 (a)
ManyToMany
-- 36
  • 90 (a)
ManyToMany
-- 36
  • 81 (a)
ManyToMany
-- 36
  • 96 (a)
ManyToMany
cow
(Bos Taurus)
Mammalia RANBP2 35
  • 85.32 (n)
  • 84.77 (a)
mouse
(Mus musculus)
Mammalia Ranbp2 35
  • 87.97 (n)
  • 88.42 (a)
platypus
(Ornithorhynchus anatinus)
Mammalia -- 36
  • 76 (a)
ManyToMany
-- 36
  • 82 (a)
ManyToMany
chicken
(Gallus gallus)
Aves -- 36
  • 44 (a)
ManyToMany
-- 36
  • 60 (a)
ManyToMany
-- 36
  • 48 (a)
ManyToMany
RANBP2 35
  • 71 (n)
  • 68.89 (a)
lizard
(Anolis carolinensis)
Reptilia -- 36
  • 42 (a)
OneToMany
tropical clawed frog
(Silurana tropicalis)
Amphibia ranbp2 35
  • 66.56 (n)
  • 62.52 (a)
zebrafish
(Danio rerio)
Actinopterygii si:ch1073-55a19.2 35
  • 56.38 (n)
  • 54.65 (a)
fruit fly
(Drosophila melanogaster)
Insecta CG5071 36
  • 14 (a)
OneToMany
worm
(Caenorhabditis elegans)
Secernentea T22F3.12 36
  • 7 (a)
ManyToMany
Y17G9B.4 36
  • 13 (a)
ManyToMany
sea squirt
(Ciona savignyi)
Ascidiacea -- 36
  • 4 (a)
OneToMany
Species with no ortholog for RGPD3:
  • A. gosspyii yeast (Ashbya gossypii)
  • Actinobacteria (Mycobacterium tuberculosis)
  • African clawed frog (Xenopus laevis)
  • African malaria mosquito (Anopheles gambiae)
  • Alicante grape (Vitis vinifera)
  • alpha proteobacteria (Wolbachia pipientis)
  • amoeba (Dictyostelium discoideum)
  • Archea (Pyrococcus horikoshii)
  • baker's yeast (Saccharomyces cerevisiae)
  • barley (Hordeum vulgare)
  • beta proteobacteria (Neisseria meningitidis)
  • bread mold (Neurospora crassa)
  • Chromalveolata (Phytophthora infestans)
  • common water flea (Daphnia pulex)
  • corn (Zea mays)
  • dog (Canis familiaris)
  • E. coli (Escherichia coli)
  • filamentous fungi (Aspergillus nidulans)
  • Firmicute bacteria (Streptococcus pneumoniae)
  • fission yeast (Schizosaccharomyces pombe)
  • green algae (Chlamydomonas reinhardtii)
  • honey bee (Apis mellifera)
  • K. lactis yeast (Kluyveromyces lactis)
  • loblloly pine (Pinus taeda)
  • malaria parasite (Plasmodium falciparum)
  • medicago trunc (Medicago Truncatula)
  • moss (Physcomitrella patens)
  • oppossum (Monodelphis domestica)
  • orangutan (Pongo pygmaeus)
  • pig (Sus scrofa)
  • rainbow trout (Oncorhynchus mykiss)
  • rat (Rattus norvegicus)
  • rice (Oryza sativa)
  • rice blast fungus (Magnaporthe grisea)
  • schistosome parasite (Schistosoma mansoni)
  • sea anemone (Nematostella vectensis)
  • sea urchin (Strongylocentrotus purpuratus)
  • sorghum (Sorghum bicolor)
  • soybean (Glycine max)
  • stem rust fungus (Puccinia graminis)
  • sugarcane (Saccharum officinarum)
  • thale cress (Arabidopsis thaliana)
  • tomato (Lycopersicon esculentum)
  • toxoplasmosis (Toxoplasma gondii)
  • Trichoplax (Trichoplax adhaerens)
  • wheat (Triticum aestivum)

Evolution for RGPD3 Gene

ENSEMBL:
Gene Tree for RGPD3 (if available)
TreeFam:
Gene Tree for RGPD3 (if available)

Paralogs for RGPD3 Gene

Paralogs for RGPD3 Gene

Selected SIMAP similar genes for RGPD3 Gene using alignment to 2 proteins:

genes like me logo Genes that share paralogs with RGPD3: view

Variants for RGPD3 Gene

Sequence variations from dbSNP and Humsavar for RGPD3 Gene

SNP ID Clin Chr 02 pos Sequence Context AA Info Type MAF
rs700866 -- 106,432,991(+) TTCTG(C/T)CCATC missense, reference
rs826530 -- 106,458,284(+) GAAAT(G/T)AGGCC intron-variant
rs832004 -- 106,445,530(-) tgctg(G/T)gatta intron-variant
rs832007 -- 106,444,823(-) TGATA(C/T)GTAGT intron-variant
rs832326 -- 106,400,696(+) ACAGG(C/T)GTGAG intron-variant

Structural Variations from Database of Genomic Variants (DGV) for RGPD3 Gene

Variant ID Type Subtype PubMed ID
nsv834322 CNV Gain 17160897
esv2720482 CNV Deletion 23290073
esv29426 CNV Gain+Loss 19812545
esv1179092 CNV Insertion 17803354

Relevant External Links for RGPD3 Gene

HapMap Linkage Disequilibrium report
RGPD3

No data available for Polymorphic Variants from UniProtKB/Swiss-Prot for RGPD3 Gene

Disorders for RGPD3 Gene

No disorders were found for RGPD3 Gene.

No data available for UniProtKB/Swiss-Prot for RGPD3 Gene

Publications for RGPD3 Gene

  1. Complex genomic rearrangements lead to novel primate gene function. (PMID: 15710750) Ciccarelli F.D. … Bork P. (Genome Res. 2005) 2 3 4
  2. Generation and annotation of the DNA sequences of human chromosomes 2 and 4. (PMID: 15815621) Hillier L.W. … Wilson R.K. (Nature 2005) 2 3 4
  3. A proteome-wide, quantitative survey of in vivo ubiquitylation sites reveals widespread regulatory roles. (PMID: 21890473) Wagner S.A. … Choudhary C. (Mol. Cell Proteomics 2011) 3
  4. Systematic and quantitative assessment of the ubiquitin-modified proteome. (PMID: 21906983) Kim W. … Gygi S.P. (Mol. Cell 2011) 3
  5. Global identification of modular cullin-RING ligase substrates. (PMID: 21963094) Emanuele M.J. … Elledge S.J. (Cell 2011) 3

Products for RGPD3 Gene

Sources for RGPD3 Gene

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