Seroatlas · Human Serome Atlas

RGPD3

RanBP2-like and GRIP domain-containing protein 3

Also known as: RGP3, RGPD3_HUMAN

Cross-references: UniProt · Ensembl · Human Protein Atlas · GeneCards · NCBI Gene

Protein identityUniProt · HPA

UniProt accession
A6NKT7
Gene
RGPD3
Ensembl
ENSG00000153165
Chromosome
2
Canonical length
1758 aa
Protein class
Predicted intracellular proteins
Subcellular location
Nuclear membrane,Vesicles

OverviewNCBI 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]

Canonical amino-acid sequenceUniProt

1758 residues, UniProt reviewed canonical sequence.

>A6NKT7|RGPD3
     1  MSCSKAYGER YVASVQGSAP SPRKKSTRGF YFAKLYYEAK EYDLAKKYIC TYINVREMDP
    61  RAHRFLGLLY ELEENTEKAV ECYRRSVELN PTQKDLVLKI AELLCKNDVT DGRAEYWVER
   121  AAKLFPGSPA IYKLKEQLLD CEGEDGWNKL FDLIQSELYV RPDDVHVNIR LVELYRSTKR
   181  LKDAVARCHE AERNIALRSS LEWNSCVVQT LKEYLESLQC LESDKSDWRA TNTDLLLAYA
   241  NLMLLTLSTR DVQESRELLE SFDSALQSAK SSLGGNDELS ATFLEMKGHF YMHAGSLLLK
   301  MGQHGNNVQW RALSELAALC YLIAFQVPRP KIKLIKGEAG QNLLEMMACD RLSQSGHMLL
   361  NLSRGKQDFL KVVVETFANK SGQSALYDAL FSSQSPKDTS FLGSDDIGNI DVQEPELEDL
   421  ARYDVGAIRA HNGSLQHLTW LGLQWNSLPA LPGIRKWLKQ LFHHLPQETS RLETNAPESI
   481  CILDLEVFLL GVVYTSHLQL KEKCNSHHSS YQPLCLPLPV CKQLCTERQK SWWDAVCTLI
   541  HRKAVPGNSA KLRLLVQHEI NTLRAQEKHG LQPALLVHWA KCLQKMGSGL NSFYDQREYI
   601  GRSVHYWKKV LPLLKIIKKK NSIPEPIDPL FKHFHSVDIQ ASEIVEYEED AHVTFAILDA
   661  VNGNIEDAMT AFESIKSVVS YWNLALIFHR KAEDIANDAL SPEEQEECKN YLRKTRGYLI
   721  KILDDSDSNL SVVKKLPVPL ESVKEMLKSV MQELENYSEG GPLYKNGSLR NADSEIKHST
   781  PSPTKYSLSP SKSYKYSPKT PPRWAEDQNS LLKMIRQEVK AIKEEMQELK LNSSKSASHH
   841  RWPTENYGPD SVPDGYQGSQ TFHGAPLTVA TTGPSVYYSQ SPAYNSQYLL RPAANVTPTK
   901  GSSNTEFKST KEGFSIPVSA DGFKFGISEP GNQEKKSEKP LENDTGLQAQ DISGRKKGRG
   961  VIFGQTSSTF TFADVAKSTS GEGFQFGKKD LNFKGFSGAG EKLFSSQYGK MANKANTSGD
  1021  FEKDDDAYKT EDSDDIHFEP VVQMPEKVEL VTGEEGEKVL YSQGVKLFRF DAEVSQWKER
  1081  GLGNLKILKN EVNGKVRMLM QREQVLKVCA NHWITTTMNL KPLSGSDRAW MWSASDFSDG
  1141  DAKLERLAAK FKTPELAEEF KQKFEECQRL LLDIPLQTPH KLVDTGRAAK LIQRAEEMKS
  1201  GLKDFKTFLT NDQTKVAEEE NKGSGTGAAG ASDTTIKPNA ENTGPTLEWD NYDLREDALD
  1261  DSVSSSSVHA SPLASSPVRK NLFHFDESTT GSNFSFKSAL SLSKSPAKLN QSGTSVGTDE
  1321  ESDVTQEEER DGQYFEPVVP LPDLVEVSSG EENEQVVFSH RAEFYRYDKD VGQWKERGIG
  1381  DIKILQNYDN KHVRILMRRD QVLKLCANHR ITPDMSLQNM KGTERVWVWT ACDFADGERK
  1441  VEHLAVRFKL QDVADSFKKI FDEAKTAQEK DSLITPHVSR SSTPRESPCG KIAVAVLEET
  1501  TRERTDVIQG DDVADAASEV EVSSTSETTT KAVVSPPKFV FGSESVKRIF SSEKSKPFAF
  1561  GNSSATGSLF GFSFNAPLKS NNSETSSVAQ SGSESKVEPK KCELSKNSDI EQSSDSKVKN
  1621  LSASFPTEES SINYTFKTPE KEPPLWYAEF TKEELVQKLS STTKSADHLN GLLREIEATN
  1681  AVLMEQIKLL KSEIRRLERN QEQEVSAANV EHLKNVLLQF IFLKPGSERE RLLPVINTML
  1741  QLSLEEKGKL AAVAQGEE

LocalizationUniProt · AlphaFold · HPA

Whether an antibody against RGPD3 can act on the native protein depends on physical access: surface and secreted proteins are reachable by circulating antibodies, intracellular proteins usually are not.

Antibody reachability
Intracellular
Secreted
No
Transmembrane segments
0
Mean surface accessibility (rSASA)
0.42
Highest tissue expression
5.9 nTPM

Expression across tissuesHPA

Tissue

  • testis: 5.9 nTPM
  • liver: 1.9 nTPM
  • thymus: 1.8 nTPM
  • retina: 0.9 nTPM
  • kidney: 0.6 nTPM
  • pituitary gland: 0.6 nTPM

Single-cell type

  • early spermatids: 44 nCPM
  • late primary spermatocytes: 24 nCPM
  • hepatocytes: 16 nCPM
  • epicardial cells: 14 nCPM
  • thymocytes: 9.3 nCPM
  • retinal bipolar cells: 9 nCPM

Immune cell

  • T-reg: 0.1 nTPM
  • basophil: 0 nTPM
  • classical monocyte: 0 nTPM
  • eosinophil: 0 nTPM
  • gdT-cell: 0 nTPM
  • intermediate monocyte: 0 nTPM

Brain region

  • pons: 2.3 nTPM
  • choroid plexus: 1.9 nTPM
  • medulla oblongata: 1.5 nTPM
  • thalamus: 1.5 nTPM
  • midbrain: 1.4 nTPM
  • cerebral cortex: 1 nTPM

Genetic constraint and essentialitygnomAD · DepMap

Does the body need this protein intact? Low LOEUF or a strong DepMap dependency means loss or blockade of the protein is likely to be felt.

gnomAD LOEUF (loss-of-function intolerance)
1.72
gnomAD pLI
0
gnomAD missense Z
-3.42

Cancer expressionTCGA

Across TCGA tumor cohorts, this protein is over-expressed in roughly 4% of surveyed tumor types (aggregate summary; per-cohort expression, alteration, and survival load in the interactive view).

OntologyGO

Biological processes

Cellular components

Protein domainsUniProt · Pfam · InterPro

KeywordsUniProt

Antibody and autoantibody relevanceSeroatlas analysis

Seroatlas reads RGPD3 as an antibody target. Whether an autoantibody or antibody against RGPD3 could matter depends on whether native RGPD3 is physically reachable, whether the body needs it intact, and whether it acts in a disease-relevant tissue.

RGPD3 is annotated as predominantly intracellular. Intracellular proteins are common autoantibody markers, becoming visible to the immune system after cell injury or altered processing, but are usually markers of disease rather than direct drivers.

Annotation status

The present source text does not explicitly label RGPD3 as an autoantigen. Seroatlas presents hypothesis context only and does not manufacture a known-serology claim.

Canonical record: https://seroatlas.com/gene/RGPD3. Study-independent annotations aggregated from UniProt, Human Protein Atlas, PubMed, IEDB, Pfam, InterPro, Gene Ontology, AlphaFold, gnomAD, DepMap, ClinVar, TCGA. Catalog release seroatlas-reviewed-human-uniprot-20260313.

Seroatlas is the reference for exploring autoantibody and antibody serology at the human-protein level: the autoreactome and human serome, multiplex serology (HuProt, HuScan, VirScan, PhIP-Seq).

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