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Protein

Rab5 GDP/GTP exchange factor

Gene

Rabgef1

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Rab effector protein acting as linker between gamma-adaptin, RAB4A or RAB5A. Involved in endocytic membrane fusion and membrane trafficking of recycling endosomes. Stimulates nucleotide exchange on RAB5A (By similarity). Can act as a ubiquitin ligase (By similarity).By similarity

Regions

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri13 – 4735A20-typePROSITE-ProRule annotationAdd
BLAST

GO - Molecular functioni

GO - Biological processi

  • endocytosis Source: UniProtKB-KW
  • negative regulation of inflammatory response Source: MGI
  • negative regulation of interleukin-6 secretion Source: MGI
  • negative regulation of Kit signaling pathway Source: MGI
  • negative regulation of leukocyte migration Source: MGI
  • negative regulation of mast cell activation Source: MGI
  • negative regulation of mast cell degranulation Source: MGI
  • negative regulation of protein phosphorylation Source: MGI
  • negative regulation of Ras protein signal transduction Source: MGI
  • negative regulation of receptor-mediated endocytosis Source: MGI
  • protein targeting to membrane Source: MGI
  • regulation of Fc receptor mediated stimulatory signaling pathway Source: MGI
Complete GO annotation...

Keywords - Biological processi

Endocytosis, Protein transport, Transport, Ubl conjugation pathway

Keywords - Ligandi

Metal-binding, Zinc

Names & Taxonomyi

Protein namesi
Recommended name:
Rab5 GDP/GTP exchange factor
Alternative name(s):
Rabex-5
Gene namesi
Name:Rabgef1
Synonyms:Rabex5
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 5

Organism-specific databases

MGIiMGI:1929459. Rabgef1.

Subcellular locationi

GO - Cellular componenti

  • early endosome Source: MGI
  • recycling endosome Source: UniProtKB-SubCell
  • vesicle Source: MGI
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 491491Rab5 GDP/GTP exchange factorPRO_0000191316Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei124 – 1241PhosphoserineBy similarity
Modified residuei132 – 1321PhosphoserineBy similarity
Modified residuei151 – 1511N6-acetyllysineBy similarity
Modified residuei170 – 1701N6-acetyllysineBy similarity
Modified residuei373 – 3731PhosphoserineBy similarity
Modified residuei377 – 3771PhosphoserineBy similarity
Modified residuei390 – 3901PhosphoserineCombined sources

Post-translational modificationi

Monoubiquitinated.By similarity

Keywords - PTMi

Acetylation, Phosphoprotein, Ubl conjugation

Proteomic databases

EPDiQ9JM13.
MaxQBiQ9JM13.
PaxDbiQ9JM13.
PeptideAtlasiQ9JM13.
PRIDEiQ9JM13.

PTM databases

iPTMnetiQ9JM13.
PhosphoSiteiQ9JM13.

Expressioni

Tissue specificityi

Expressed in the white matter tracts of the cerebellum, the fimbria hippocampi and the corpus callosum.1 Publication

Gene expression databases

BgeeiENSMUSG00000025340.
CleanExiMM_RABGEF1.
ExpressionAtlasiQ9JM13. baseline and differential.
GenevisibleiQ9JM13. MM.

Interactioni

Subunit structurei

Heterodimer with RABEP1. The heterodimer binds RAB4A and RAB5A that have been activated by GTP-binding. Binds TSC2, GGA1, GGA2, GGA3, AP1G1 and AP1G2 (By similarity). Interacts with RAB21, and with 100-fold lower affinity also with RAB22 (By similarity). Interacts with ubiquitinated EGFR (By similarity). Interacts with RGS14; the interaction is GTP-dependent.By similarity1 Publication

GO - Molecular functioni

Protein-protein interaction databases

BioGridi208140. 3 interactions.
STRINGi10090.ENSMUSP00000026390.

Structurei

3D structure databases

ProteinModelPortaliQ9JM13.
SMRiQ9JM13. Positions 14-73, 134-455.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini232 – 375144VPS9PROSITE-ProRule annotationAdd
BLAST

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni1 – 7474Interaction with ubiquitinated proteinsBy similarityAdd
BLAST

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili407 – 44842Sequence analysisAdd
BLAST

Sequence similaritiesi

Contains 1 A20-type zinc finger.PROSITE-ProRule annotation
Contains 1 VPS9 domain.PROSITE-ProRule annotation

Zinc finger

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Zinc fingeri13 – 4735A20-typePROSITE-ProRule annotationAdd
BLAST

Keywords - Domaini

Coiled coil, Zinc-finger

Phylogenomic databases

eggNOGiKOG2319. Eukaryota.
KOG3173. Eukaryota.
ENOG410YGAZ. LUCA.
GeneTreeiENSGT00530000063341.
HOGENOMiHOG000070180.
HOVERGENiHBG062584.
InParanoidiQ9JM13.
KOiK20131.
OMAiWTDGIAR.
OrthoDBiEOG091G059N.
PhylomeDBiQ9JM13.
TreeFamiTF321331.

Family and domain databases

InterProiIPR003123. VPS9.
IPR002653. Znf_A20.
[Graphical view]
PfamiPF02204. VPS9. 1 hit.
PF01754. zf-A20. 1 hit.
[Graphical view]
SMARTiSM00167. VPS9. 1 hit.
SM00259. ZnF_A20. 1 hit.
[Graphical view]
PROSITEiPS51205. VPS9. 1 hit.
PS51036. ZF_A20. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q9JM13-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLKSERRGI HVDQSELLCK KGCGYYGNPA WQGFCSKCWR EEYHKARQRQ
60 70 80 90 100
IQEDWELAER LQREEEEAFA SSQSSQGAQS LTFSKFEEKK TNEKTRKVTT
110 120 130 140 150
VKKFFSASSR AGSKKEIQEA KAPSPSINRQ TSIETDRVTK EFIDFLKTFH
160 170 180 190 200
KTGQEVYKQT KMFLEAMPYK RDLSIEEQSE CTQDFYQNVA ERMQTRGKVP
210 220 230 240 250
PEKVEKIMDQ IEKHIMTRLY KFVFCPETTD DEKKDLAIQK RIRALHWVTP
260 270 280 290 300
QMLCVPVNEE IPEVSDMVVK AITDIIEMDS KRVPRDKLAC ITRCSKHIFN
310 320 330 340 350
AIKITKNEPA SADDFLPTLI YIVLKGNPPR LQSNIQYITR FCNPSRLMTG
360 370 380 390 400
EDGYYFTNLC CAVAFIEKLD AQSLNLSQED FDRYMSGQTS PRKQESESWP
410 420 430 440 450
PEACLGVKQM YKNLDLLSQL NERQERIMNE AKKLEKDLID WTDGIAKEVQ
460 470 480 490
DIVEKYPLEI KPPNQPLAAI DSENVENDKL PPPLQPQVYA G
Length:491
Mass (Da):56,869
Last modified:October 1, 2000 - v1
Checksum:i4CC795C192D235F0
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF093590 mRNA. Translation: AAF28738.1.
AK044568 mRNA. Translation: BAC31984.1.
AK146734 mRNA. Translation: BAE27396.1.
BC018229 mRNA. Translation: AAH18229.1.
CCDSiCCDS19708.1.
RefSeqiNP_001185988.1. NM_001199059.1.
NP_064367.1. NM_019983.2.
UniGeneiMm.288639.

Genome annotation databases

EnsembliENSMUST00000026390; ENSMUSP00000026390; ENSMUSG00000025340.
ENSMUST00000119797; ENSMUSP00000114103; ENSMUSG00000025340.
GeneIDi56715.
KEGGimmu:56715.
UCSCiuc008zuf.2. mouse.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AF093590 mRNA. Translation: AAF28738.1.
AK044568 mRNA. Translation: BAC31984.1.
AK146734 mRNA. Translation: BAE27396.1.
BC018229 mRNA. Translation: AAH18229.1.
CCDSiCCDS19708.1.
RefSeqiNP_001185988.1. NM_001199059.1.
NP_064367.1. NM_019983.2.
UniGeneiMm.288639.

3D structure databases

ProteinModelPortaliQ9JM13.
SMRiQ9JM13. Positions 14-73, 134-455.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi208140. 3 interactions.
STRINGi10090.ENSMUSP00000026390.

PTM databases

iPTMnetiQ9JM13.
PhosphoSiteiQ9JM13.

Proteomic databases

EPDiQ9JM13.
MaxQBiQ9JM13.
PaxDbiQ9JM13.
PeptideAtlasiQ9JM13.
PRIDEiQ9JM13.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000026390; ENSMUSP00000026390; ENSMUSG00000025340.
ENSMUST00000119797; ENSMUSP00000114103; ENSMUSG00000025340.
GeneIDi56715.
KEGGimmu:56715.
UCSCiuc008zuf.2. mouse.

Organism-specific databases

CTDi27342.
MGIiMGI:1929459. Rabgef1.

Phylogenomic databases

eggNOGiKOG2319. Eukaryota.
KOG3173. Eukaryota.
ENOG410YGAZ. LUCA.
GeneTreeiENSGT00530000063341.
HOGENOMiHOG000070180.
HOVERGENiHBG062584.
InParanoidiQ9JM13.
KOiK20131.
OMAiWTDGIAR.
OrthoDBiEOG091G059N.
PhylomeDBiQ9JM13.
TreeFamiTF321331.

Miscellaneous databases

ChiTaRSiRabgef1. mouse.
PROiQ9JM13.
SOURCEiSearch...

Gene expression databases

BgeeiENSMUSG00000025340.
CleanExiMM_RABGEF1.
ExpressionAtlasiQ9JM13. baseline and differential.
GenevisibleiQ9JM13. MM.

Family and domain databases

InterProiIPR003123. VPS9.
IPR002653. Znf_A20.
[Graphical view]
PfamiPF02204. VPS9. 1 hit.
PF01754. zf-A20. 1 hit.
[Graphical view]
SMARTiSM00167. VPS9. 1 hit.
SM00259. ZnF_A20. 1 hit.
[Graphical view]
PROSITEiPS51205. VPS9. 1 hit.
PS51036. ZF_A20. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiRABX5_MOUSE
AccessioniPrimary (citable) accession number: Q9JM13
Secondary accession number(s): Q3UIW0
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 5, 2004
Last sequence update: October 1, 2000
Last modified: September 7, 2016
This is version 108 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. 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.