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Protein

RanBP2-like and GRIP domain-containing protein 4

Gene

RGPD4

Organism
Homo sapiens (Human)
Status
Reviewed-Annotation score: Annotation score: 2 out of 5-Experimental evidence at transcript leveli

Functioni

GO - Biological processi

Complete GO annotation...

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

HGNCiHGNC:32417. RGPD4.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Pathology & Biotechi

Organism-specific databases

PharmGKBiPA142671073.

Polymorphism and mutation databases

BioMutaiRGPD4.
DMDMi325511381.

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 17581758RanBP2-like and GRIP domain-containing protein 4PRO_0000314141Add
BLAST

Proteomic databases

EPDiQ7Z3J3.
MaxQBiQ7Z3J3.
PaxDbiQ7Z3J3.
PRIDEiQ7Z3J3.

PTM databases

iPTMnetiQ7Z3J3.
PhosphoSiteiQ7Z3J3.

Expressioni

Gene expression databases

BgeeiQ7Z3J3.
CleanExiHS_RGPD4.
GenevisibleiQ7Z3J3. HS.

Organism-specific databases

HPAiHPA049497.
HPA051675.

Interactioni

Protein-protein interaction databases

BioGridi130039. 3 interactions.
IntActiQ7Z3J3. 2 interactions.
STRINGi9606.ENSP00000386810.

Structurei

3D structure databases

ProteinModelPortaliQ7Z3J3.
SMRiQ7Z3J3. Positions 4-145, 1053-1179, 1664-1701.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Repeati60 – 9334TPR 1Add
BLAST
Repeati584 – 61734TPR 2Add
BLAST
Domaini1037 – 1173137RanBD1 1PROSITE-ProRule annotationAdd
BLAST
Domaini1334 – 1470137RanBD1 2PROSITE-ProRule annotationAdd
BLAST
Domaini1703 – 175351GRIPPROSITE-ProRule annotationAdd
BLAST

Sequence similaritiesi

Contains 1 GRIP domain.PROSITE-ProRule annotation
Contains 2 RanBD1 domains.PROSITE-ProRule annotation
Contains 2 TPR repeats.PROSITE-ProRule annotation

Keywords - Domaini

Repeat, TPR repeat

Phylogenomic databases

eggNOGiKOG0864. Eukaryota.
COG5171. LUCA.
GeneTreeiENSGT00840000129823.
HOGENOMiHOG000089994.
HOVERGENiHBG108404.
InParanoidiQ7Z3J3.
KOiK12172.
OMAiCERARDL.
PhylomeDBiQ7Z3J3.
TreeFamiTF314797.

Family and domain databases

Gene3Di1.10.220.60. 1 hit.
1.25.40.10. 2 hits.
2.30.29.30. 2 hits.
InterProiIPR032023. GCC2_Rab_bind.
IPR000237. GRIP_dom.
IPR011993. PH_dom-like.
IPR000156. Ran_bind_dom.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical_dom.
IPR019734. TPR_repeat.
[Graphical view]
PfamiPF01465. GRIP. 1 hit.
PF16704. Rab_bind. 1 hit.
PF00638. Ran_BP1. 2 hits.
[Graphical view]
SMARTiSM00755. Grip. 1 hit.
SM00160. RanBD. 2 hits.
SM00028. TPR. 1 hit.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 1 hit.
SSF50729. SSF50729. 2 hits.
PROSITEiPS50913. GRIP. 1 hit.
PS50196. RANBD1. 2 hits.
PS50005. TPR. 1 hit.
PS50293. TPR_REGION. 1 hit.
[Graphical view]

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)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei1 – 5757Missing in isoform 2. 1 PublicationVSP_030214Add
BLAST
Alternative sequencei213 – 17581546Missing in isoform 2. 1 PublicationVSP_030215Add
BLAST

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

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.
SMRiQ7Z3J3. Positions 4-145, 1053-1179, 1664-1701.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi130039. 3 interactions.
IntActiQ7Z3J3. 2 interactions.
STRINGi9606.ENSP00000386810.

PTM databases

iPTMnetiQ7Z3J3.
PhosphoSiteiQ7Z3J3.

Polymorphism and mutation databases

BioMutaiRGPD4.
DMDMi325511381.

Proteomic databases

EPDiQ7Z3J3.
MaxQBiQ7Z3J3.
PaxDbiQ7Z3J3.
PRIDEiQ7Z3J3.

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.
GeneCardsiRGPD4.
H-InvDBHIX0024221.
HGNCiHGNC:32417. RGPD4.
HPAiHPA049497.
HPA051675.
MIMi612707. gene.
neXtProtiNX_Q7Z3J3.
PharmGKBiPA142671073.
GenAtlasiSearch...

Phylogenomic databases

eggNOGiKOG0864. Eukaryota.
COG5171. LUCA.
GeneTreeiENSGT00840000129823.
HOGENOMiHOG000089994.
HOVERGENiHBG108404.
InParanoidiQ7Z3J3.
KOiK12172.
OMAiCERARDL.
PhylomeDBiQ7Z3J3.
TreeFamiTF314797.

Miscellaneous databases

GenomeRNAii285190.
PROiQ7Z3J3.
SOURCEiSearch...

Gene expression databases

BgeeiQ7Z3J3.
CleanExiHS_RGPD4.
GenevisibleiQ7Z3J3. HS.

Family and domain databases

Gene3Di1.10.220.60. 1 hit.
1.25.40.10. 2 hits.
2.30.29.30. 2 hits.
InterProiIPR032023. GCC2_Rab_bind.
IPR000237. GRIP_dom.
IPR011993. PH_dom-like.
IPR000156. Ran_bind_dom.
IPR013026. TPR-contain_dom.
IPR011990. TPR-like_helical_dom.
IPR019734. TPR_repeat.
[Graphical view]
PfamiPF01465. GRIP. 1 hit.
PF16704. Rab_bind. 1 hit.
PF00638. Ran_BP1. 2 hits.
[Graphical view]
SMARTiSM00755. Grip. 1 hit.
SM00160. RanBD. 2 hits.
SM00028. TPR. 1 hit.
[Graphical view]
SUPFAMiSSF48452. SSF48452. 1 hit.
SSF50729. SSF50729. 2 hits.
PROSITEiPS50913. GRIP. 1 hit.
PS50196. RANBD1. 2 hits.
PS50005. TPR. 1 hit.
PS50293. TPR_REGION. 1 hit.
[Graphical view]
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Tissue: Retina.
  2. "Generation and annotation of the DNA sequences of human chromosomes 2 and 4."
    Hillier L.W., Graves T.A., Fulton R.S., Fulton L.A., Pepin K.H., Minx P., Wagner-McPherson C., Layman D., Wylie K., Sekhon M., Becker M.C., Fewell G.A., Delehaunty K.D., Miner T.L., Nash W.E., Kremitzki C., Oddy L., Du H.
    , Sun H., Bradshaw-Cordum H., Ali J., Carter J., Cordes M., Harris A., Isak A., van Brunt A., Nguyen C., Du F., Courtney L., Kalicki J., Ozersky P., Abbott S., Armstrong J., Belter E.A., Caruso L., Cedroni M., Cotton M., Davidson T., Desai A., Elliott G., Erb T., Fronick C., Gaige T., Haakenson W., Haglund K., Holmes A., Harkins R., Kim K., Kruchowski S.S., Strong C.M., Grewal N., Goyea E., Hou S., Levy A., Martinka S., Mead K., McLellan M.D., Meyer R., Randall-Maher J., Tomlinson C., Dauphin-Kohlberg S., Kozlowicz-Reilly A., Shah N., Swearengen-Shahid S., Snider J., Strong J.T., Thompson J., Yoakum M., Leonard S., Pearman C., Trani L., Radionenko M., Waligorski J.E., Wang C., Rock S.M., Tin-Wollam A.-M., Maupin R., Latreille P., Wendl M.C., Yang S.-P., Pohl C., Wallis J.W., Spieth J., Bieri T.A., Berkowicz N., Nelson J.O., Osborne J., Ding L., Meyer R., Sabo A., Shotland Y., Sinha P., Wohldmann P.E., Cook L.L., Hickenbotham M.T., Eldred J., Williams D., Jones T.A., She X., Ciccarelli F.D., Izaurralde E., Taylor J., Schmutz J., Myers R.M., Cox D.R., Huang X., McPherson J.D., Mardis E.R., Clifton S.W., Warren W.C., Chinwalla A.T., Eddy S.R., Marra M.A., Ovcharenko I., Furey T.S., Miller W., Eichler E.E., Bork P., Suyama M., Torrents D., Waterston R.H., Wilson R.K.
    Nature 434:724-731(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
  3. "Complex genomic rearrangements lead to novel primate gene function."
    Ciccarelli F.D., von Mering C., Suyama M., Harrington E.D., Izaurralde E., Bork P.
    Genome Res. 15:343-351(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: RANBP2 CLUSTER.

Entry informationi

Entry nameiRGPD4_HUMAN
AccessioniPrimary (citable) accession number: Q7Z3J3
Secondary accession number(s): B9A029
Entry historyi
Integrated into UniProtKB/Swiss-Prot: January 15, 2008
Last sequence update: March 8, 2011
Last modified: June 8, 2016
This is version 100 of the entry and version 3 of the sequence. [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

Miscellaneous

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

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
  3. SIMILARITY comments
    Index of protein domains and families

Similar proteinsi

Links to similar proteins from the UniProt Reference Clusters (UniRef) at 100%, 90% and 50% sequence identity:
100%UniRef100 combines identical sequences and sub-fragments with 11 or more residues from any organism into one UniRef entry.
90%UniRef90 is built by clustering UniRef100 sequences that have at least 90% sequence identity to, and 80% overlap with, the longest sequence (a.k.a seed sequence).
50%UniRef50 is built by clustering UniRef90 seed sequences that have at least 50% sequence identity to, and 80% overlap with, the longest sequence in the cluster.