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Protein

RanBP2-like and GRIP domain-containing protein 4

Gene

RGPD4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: -Experimental evidence at transcript leveli

Functioni

Miscellaneous

One of the 8 copies of RANBP2 clustered close to the chromosome 2 centromere.

GO - Molecular functioni

  • Ran GTPase binding Source: GO_Central

GO - Biological processi

Names & Taxonomyi

Protein namesi
Recommended name:
RanBP2-like and GRIP domain-containing protein 4
Gene namesi
Name:RGPD4
Synonyms:RGP4
OrganismiHomo sapiens (Human)
Taxonomic identifieri9606 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresPrimatesHaplorrhiniCatarrhiniHominidaeHomo
Proteomesi
  • UP000005640 Componenti: Chromosome 2

Organism-specific databases

EuPathDBiHostDB:ENSG00000196862.9
HGNCiHGNC:32417 RGPD4
MIMi612707 gene
neXtProtiNX_Q7Z3J3

Subcellular locationi

Extracellular region or secreted Cytosol Plasma membrane Cytoskeleton Lysosome Endosome Peroxisome ER Golgi apparatus Nucleus Mitochondrion Manual annotation Automatic computational assertionGraphics by Christian Stolte; Source: COMPARTMENTS

Pathology & Biotechi

Organism-specific databases

OpenTargetsiENSG00000196862
PharmGKBiPA142671073

Polymorphism and mutation databases

BioMutaiRGPD4
DMDMi325511381

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00003141411 – 1758RanBP2-like and GRIP domain-containing protein 4Add BLAST1758

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei21PhosphoserineBy similarity1

Keywords - PTMi

Phosphoprotein

Proteomic databases

EPDiQ7Z3J3
MaxQBiQ7Z3J3
PaxDbiQ7Z3J3
PeptideAtlasiQ7Z3J3
PRIDEiQ7Z3J3
ProteomicsDBi69057
69058 [Q7Z3J3-2]

PTM databases

iPTMnetiQ7Z3J3
PhosphoSitePlusiQ7Z3J3

Expressioni

Gene expression databases

BgeeiENSG00000196862 Expressed in 7 organ(s), highest expression level in testis
CleanExiHS_RGPD4
GenevisibleiQ7Z3J3 HS

Organism-specific databases

HPAiHPA049497
HPA051675
HPA067564

Interactioni

GO - Molecular functioni

Protein-protein interaction databases

BioGridi130039, 4 interactors
IntActiQ7Z3J3, 2 interactors
STRINGi9606.ENSP00000386810

Structurei

3D structure databases

ProteinModelPortaliQ7Z3J3
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati60 – 93TPR 1Add BLAST34
Repeati584 – 617TPR 2Add BLAST34
Domaini1037 – 1173RanBD1 1PROSITE-ProRule annotationAdd BLAST137
Domaini1334 – 1470RanBD1 2PROSITE-ProRule annotationAdd BLAST137
Domaini1703 – 1753GRIPPROSITE-ProRule annotationAdd BLAST51

Keywords - Domaini

Repeat, TPR repeat

Phylogenomic databases

eggNOGiKOG0864 Eukaryota
COG5171 LUCA
GeneTreeiENSGT00760000119119
HOGENOMiHOG000089994
HOVERGENiHBG108404
InParanoidiQ7Z3J3
KOiK12172
OMAiCERARDL
OrthoDBiEOG091G0BGL
PhylomeDBiQ7Z3J3
TreeFamiTF314797

Family and domain databases

Gene3Di1.25.40.10, 1 hit
2.30.29.30, 2 hits
InterProiView protein in InterPro
IPR032023 GCC2_Rab_bind
IPR000237 GRIP_dom
IPR011993 PH-like_dom_sf
IPR000156 Ran_bind_dom
IPR013026 TPR-contain_dom
IPR011990 TPR-like_helical_dom_sf
IPR019734 TPR_repeat
PfamiView protein in Pfam
PF01465 GRIP, 1 hit
PF16704 Rab_bind, 1 hit
PF00638 Ran_BP1, 2 hits
SMARTiView protein in SMART
SM00755 Grip, 1 hit
SM00160 RanBD, 2 hits
SM00028 TPR, 1 hit
SUPFAMiSSF48452 SSF48452, 1 hit
PROSITEiView protein in PROSITE
PS50913 GRIP, 1 hit
PS50196 RANBD1, 2 hits
PS50005 TPR, 1 hit
PS50293 TPR_REGION, 1 hit

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket
Isoform 1 (identifier: Q7Z3J3-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide
        10         20         30         40         50
MSCSKAYGER YVASVQGSAP SPRKKSTRGF YFAKLYYEAK EYDLAKKYIC
60 70 80 90 100
TYINVREMDP RAHRFLGLLY ELEENTEKAV ECYRRSVELN PTQKDLVLKI
110 120 130 140 150
AELLCKNDVT DGRAKYWVER AAKLFPGSPA IYKLKEQLLD CEGEDGWNKL
160 170 180 190 200
FDLIQSELYV RPDDVHVNIR LVELYRSTKR LKDAVARCHE AERNIALRSS
210 220 230 240 250
LEWNSCVVQT LKEYLESLQC LESDKSDWRA TNTDLLLAYA NLMLLTLSTR
260 270 280 290 300
DVQESRELLE SFDSALQSAK SSLGGNDELS ATFLEMKGHF YMHAGSLLLK
310 320 330 340 350
MGQHGNNVQW RALSELAALC YLIAFQVPRP KIKLIKGEAG QNLLEMMACD
360 370 380 390 400
RLSQSGHMLL NLSRGKQDFL KVVVETFANK SGQSALYDAL FSSQSPKDTS
410 420 430 440 450
FLGSDDIGNI DVQEPELEDL ARYDVGAIRA HNGSLQHLTW LGLQWNSLPA
460 470 480 490 500
LPGIRKWLKQ LFHHLPQETS RLETNAPESI CILDLEVFLL GVVYTSHLQL
510 520 530 540 550
KEKCNSHHSS YQPLCLPLPV CKQLCTERQK SWWDAVCTLI HRKAVPGNSA
560 570 580 590 600
KLRLLVQHEI NTLRAQEKHG LQPALLVHWA KCLQKMGSGL NSFYDQREYI
610 620 630 640 650
GRSVHYWKKV LPLLKIIKKK NSIPEPIDPL FKHFHSVDIQ ASEIVEYEED
660 670 680 690 700
AHVTFAILDA VNGNIEDAMT AFESIKSVVS YWNLALIFHR KAEDIANDAL
710 720 730 740 750
SPEEQEECKN YLRKTRGYLI KILDDSDSNL SVVKKLPVPL ESVKEMLKSV
760 770 780 790 800
MQELENYSEG DPLYKNGSLR NADSEIKHST PSPTKYSLSP SKSYKYSPKT
810 820 830 840 850
PPRWAEDQNS LLKMIRQEVK AIKEEMQELK LNSSKSASHH RWPTENYGPD
860 870 880 890 900
SVPDGYQGSQ TFHGAPLTVA TTGPSVYYSQ SPAYNSQYLL RPAANVTPTK
910 920 930 940 950
GSSNTEFKST KEGFSIPVSA DGFKFGISEP GNQEKESEKP LENDTGFQAQ
960 970 980 990 1000
DISGQKNGRG VIFGQTSSTF TFADVAKSTS GEGFQFGKKD PNFKGFSGAG
1010 1020 1030 1040 1050
EKLFSSQCGK MANKANTSGD FEKDDDAYKT EDSDDIHFEP VVQMPEKVEL
1060 1070 1080 1090 1100
VIGEEGEKVL YSQGVKLFRF DAEVRQWKER GLGNLKILKN EVNGKPRMLM
1110 1120 1130 1140 1150
RREQVLKVCA NHWITTTMNL KPLSGSDRAW MWSASDFSDG DAKLERLAAK
1160 1170 1180 1190 1200
FKTPELAEEF KQKFEECQQL LLDIPLQTPH KLVDTGRAAK LIQRAEEMKS
1210 1220 1230 1240 1250
GLKDFKTFLT NDQTKVTEEE NKGSGTGAAG ASDTTIKPNP ENTGPTLEWD
1260 1270 1280 1290 1300
NCDLREDALD DSVSSSSVHA SPLASSPVRK NLFHFGESTT GSNFSFKSAL
1310 1320 1330 1340 1350
SPSKSPAKLN QSGTSVGTDE ESDVTQEEER DGQYFEPVVP LPDLVEVSSG
1360 1370 1380 1390 1400
EENEKVVFSH RAELYRYDKD VGQWKERGIG DIKILQNYDN KQVRIVMRRD
1410 1420 1430 1440 1450
QVLKLCANHT ITPDMSLQNM KGTERVWVWT ACDFADGERK VEHLAVRFKL
1460 1470 1480 1490 1500
QDVADSFKKI FDEAKTAQEK DSLITPHVSR SSTPRESPCG KIAVAVLEET
1510 1520 1530 1540 1550
TRERTDVIQG DDVADAASEV EVSSTSETTT KAVVSPPKFV FGSESVKRIF
1560 1570 1580 1590 1600
SSEKSKPFAF GNSSATGSLF GFSFNASLKS NNSETSSVAQ SGSESKVEPK
1610 1620 1630 1640 1650
KCELSKNSDI EQSSDSKVKN LSASFPMEES SINYTFKTPE KEPPLWHAEF
1660 1670 1680 1690 1700
TKEELVQKLS STTKSADHLN GLLREAEATS AVLMEQIKLL KSEIRRLERN
1710 1720 1730 1740 1750
QEQEESAANV EHLKNVLLQF IFLKPGSERE RLLPVINTML QLSPEEKGKL

AAVAQGEE
Length:1,758
Mass (Da):197,289
Last modified:March 8, 2011 - v3
Checksum:i03C915030A2F1BD3
GO
Isoform 2 (identifier: Q7Z3J3-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     1-57: Missing.
     213-1758: Missing.

Show »
Length:155
Mass (Da):18,065
Checksum:i5E0243B7276A4CF3
GO

Alternative sequence

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Alternative sequenceiVSP_0302141 – 57Missing in isoform 2. 1 PublicationAdd BLAST57
Alternative sequenceiVSP_030215213 – 1758Missing in isoform 2. 1 PublicationAdd BLAST1546

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX537861 mRNA Translation: CAD97866.1
AC009963 Genomic DNA No translation available.
AC096655 Genomic DNA No translation available.
CCDSiCCDS46381.1 [Q7Z3J3-1]
RefSeqiNP_872394.2, NM_182588.2 [Q7Z3J3-1]
UniGeneiHs.449164

Genome annotation databases

EnsembliENST00000408999; ENSP00000386810; ENSG00000196862 [Q7Z3J3-1]
GeneIDi285190
KEGGihsa:285190
UCSCiuc010ywk.3 human [Q7Z3J3-1]

Keywords - Coding sequence diversityi

Alternative splicing

Similar proteinsi

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
BX537861 mRNA Translation: CAD97866.1
AC009963 Genomic DNA No translation available.
AC096655 Genomic DNA No translation available.
CCDSiCCDS46381.1 [Q7Z3J3-1]
RefSeqiNP_872394.2, NM_182588.2 [Q7Z3J3-1]
UniGeneiHs.449164

3D structure databases

ProteinModelPortaliQ7Z3J3
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi130039, 4 interactors
IntActiQ7Z3J3, 2 interactors
STRINGi9606.ENSP00000386810

PTM databases

iPTMnetiQ7Z3J3
PhosphoSitePlusiQ7Z3J3

Polymorphism and mutation databases

BioMutaiRGPD4
DMDMi325511381

Proteomic databases

EPDiQ7Z3J3
MaxQBiQ7Z3J3
PaxDbiQ7Z3J3
PeptideAtlasiQ7Z3J3
PRIDEiQ7Z3J3
ProteomicsDBi69057
69058 [Q7Z3J3-2]

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENST00000408999; ENSP00000386810; ENSG00000196862 [Q7Z3J3-1]
GeneIDi285190
KEGGihsa:285190
UCSCiuc010ywk.3 human [Q7Z3J3-1]

Organism-specific databases

CTDi285190
EuPathDBiHostDB:ENSG00000196862.9
GeneCardsiRGPD4
H-InvDBiHIX0024221
HGNCiHGNC:32417 RGPD4
HPAiHPA049497
HPA051675
HPA067564
MIMi612707 gene
neXtProtiNX_Q7Z3J3
OpenTargetsiENSG00000196862
PharmGKBiPA142671073
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0864 Eukaryota
COG5171 LUCA
GeneTreeiENSGT00760000119119
HOGENOMiHOG000089994
HOVERGENiHBG108404
InParanoidiQ7Z3J3
KOiK12172
OMAiCERARDL
OrthoDBiEOG091G0BGL
PhylomeDBiQ7Z3J3
TreeFamiTF314797

Miscellaneous databases

ChiTaRSiRGPD4 human
GenomeRNAii285190
PROiPR:Q7Z3J3
SOURCEiSearch...

Gene expression databases

BgeeiENSG00000196862 Expressed in 7 organ(s), highest expression level in testis
CleanExiHS_RGPD4
GenevisibleiQ7Z3J3 HS

Family and domain databases

Gene3Di1.25.40.10, 1 hit
2.30.29.30, 2 hits
InterProiView protein in InterPro
IPR032023 GCC2_Rab_bind
IPR000237 GRIP_dom
IPR011993 PH-like_dom_sf
IPR000156 Ran_bind_dom
IPR013026 TPR-contain_dom
IPR011990 TPR-like_helical_dom_sf
IPR019734 TPR_repeat
PfamiView protein in Pfam
PF01465 GRIP, 1 hit
PF16704 Rab_bind, 1 hit
PF00638 Ran_BP1, 2 hits
SMARTiView protein in SMART
SM00755 Grip, 1 hit
SM00160 RanBD, 2 hits
SM00028 TPR, 1 hit
SUPFAMiSSF48452 SSF48452, 1 hit
PROSITEiView protein in PROSITE
PS50913 GRIP, 1 hit
PS50196 RANBD1, 2 hits
PS50005 TPR, 1 hit
PS50293 TPR_REGION, 1 hit
ProtoNetiSearch...

Entry informationi

Entry nameiRGPD4_HUMAN
AccessioniPrimary (citable) accession number: Q7Z3J3
Secondary accession number(s): B9A029
Entry historyiIntegrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: March 8, 2011
Last modified: November 7, 2018
This is version 121 of the entry and version 3 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program
DisclaimerAny medical or genetic information present in this entry is provided for research, educational and informational purposes only. It is not in any way intended to be used as a substitute for professional medical advice, diagnosis, treatment or care.

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. Human chromosome 2
    Human chromosome 2: entries, gene names and cross-references to MIM
  2. MIM cross-references
    Online Mendelian Inheritance in Man (MIM) cross-references in UniProtKB/Swiss-Prot
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