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Protein

Rab5 GDP/GTP exchange factor

Gene

RABGEF1

Organism
Bos taurus (Bovine)
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 and RAB5A. Involved in endocytic membrane fusion and membrane trafficking of recycling endosomes. Stimulates nucleotide exchange on RAB5A. Can act as a ubiquitin ligase.2 Publications

Regions

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

GO - Molecular functioni

GO - Biological processi

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
OrganismiBos taurus (Bovine)
Taxonomic identifieri9913 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaLaurasiatheriaCetartiodactylaRuminantiaPecoraBovidaeBovinaeBos
Proteomesi
  • UP000009136 Componenti: Unplaced

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Endosome

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi25 – 251Y → A or P: Strongly reduced ubiquitin binding. Loss of ubiquitin binding; when associated with D-58. Loss of ubiquitin ligase activity; when associated with A-26. 1 Publication
Mutagenesisi26 – 261Y → A or P: Strongly reduced ubiquitin binding. Loss of ubiquitin ligase activity; when associated with A-25. 1 Publication
Mutagenesisi57 – 571L → D: Strongly reduced ubiquitin binding. 1 Publication
Mutagenesisi58 – 581A → D: Strongly reduced ubiquitin binding. Loss of ubiquitin binding; when associated with A-25. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 492492Rab5 GDP/GTP exchange factorPRO_0000191314Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei125 – 1251PhosphoserineBy similarity
Modified residuei133 – 1331PhosphoserineBy similarity
Modified residuei152 – 1521N6-acetyllysineBy similarity
Modified residuei171 – 1711N6-acetyllysineBy similarity
Modified residuei374 – 3741PhosphoserineBy similarity
Modified residuei378 – 3781PhosphoserineBy similarity
Modified residuei391 – 3911PhosphoserineBy similarity

Post-translational modificationi

Monoubiquitinated.

Keywords - PTMi

Acetylation, Phosphoprotein, Ubl conjugation

Proteomic databases

PaxDbiO18973.
PRIDEiO18973.

Expressioni

Tissue specificityi

Detected in brain.1 Publication

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. Interacts with RGS14; the interaction is GTP-dependent (By similarity).By similarity

Binary interactionsi

WithEntry#Exp.IntActNotes
GGA1Q9UJY52EBI-447376,EBI-447141From a different organism.

Protein-protein interaction databases

BioGridi159596. 4 interactions.
DIPiDIP-29059N.
IntActiO18973. 6 interactions.
STRINGi9913.ENSBTAP00000005011.

Structurei

Secondary structure

1
492
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi23 – 264Combined sources
Helixi29 – 313Combined sources
Helixi36 – 7035Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2FIDX-ray2.80B9-73[»]
2FIFX-ray2.49B/D/F9-73[»]
ProteinModelPortaliO18973.
SMRiO18973. Positions 14-73, 135-388.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiO18973.

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Domaini233 – 376144VPS9PROSITE-ProRule annotationAdd
BLAST

Region

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

Coiled coil

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Coiled coili408 – 44942Sequence 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.
HOGENOMiHOG000070180.
HOVERGENiHBG062584.
InParanoidiO18973.

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.

O18973-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSLKSERRGI HVDQSELLCK KGCGYYGNPA WQGFCSKCWR EEYHKARQKQ
60 70 80 90 100
IQEDWELAER LQREEEEAFA SSQSSQGAQS LTFSKFEEKK TNEKTRKVTT
110 120 130 140 150
VKKFFSASSR VGAKKAEIQE AKAPSPSINR QTSIETDRVS KEFIEFLKTF
160 170 180 190 200
HKTGQEIYKQ TKLFLEAMHY KRDLSIEEQS ECTQDFYQNV AERMQTRGKV
210 220 230 240 250
PPERVEKIMD QIEKYIMTRL YKYVFCPETT DDEKKDLAIQ KRIRALHWVT
260 270 280 290 300
PQMLCVPVNE EIPEVSDMVV KAITDIIEMD SKRVPRDKLA CITKCSKHIF
310 320 330 340 350
NAIKITKNEP ASADDFLPTL IYIVLKGNPP RLQSNIQYIT RFCNPSRLMT
360 370 380 390 400
GEDGYYFTNL CCAVAFIEKL DAQSLNLSQE DFDRYMSGQT SPRKQESENW
410 420 430 440 450
SPDACLGVKQ MYKNLDLLSQ LNERQERIMN EAKKLEKDLI DWTDGIAKEV
460 470 480 490
QDIVEKYPLE IRPPNQSVAA IDSENVENDK LPPPLQPQVY AG
Length:492
Mass (Da):57,009
Last modified:January 1, 1998 - v1
Checksum:i98828A4344B15EE7
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ001119 mRNA. Translation: CAA04545.1.
RefSeqiNP_777016.1. NM_174591.1.
UniGeneiBt.317.

Genome annotation databases

GeneIDi282335.
KEGGibta:282335.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AJ001119 mRNA. Translation: CAA04545.1.
RefSeqiNP_777016.1. NM_174591.1.
UniGeneiBt.317.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
2FIDX-ray2.80B9-73[»]
2FIFX-ray2.49B/D/F9-73[»]
ProteinModelPortaliO18973.
SMRiO18973. Positions 14-73, 135-388.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi159596. 4 interactions.
DIPiDIP-29059N.
IntActiO18973. 6 interactions.
STRINGi9913.ENSBTAP00000005011.

Proteomic databases

PaxDbiO18973.
PRIDEiO18973.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

GeneIDi282335.
KEGGibta:282335.

Organism-specific databases

CTDi27342.

Phylogenomic databases

eggNOGiKOG2319. Eukaryota.
KOG3173. Eukaryota.
ENOG410YGAZ. LUCA.
HOGENOMiHOG000070180.
HOVERGENiHBG062584.
InParanoidiO18973.

Miscellaneous databases

EvolutionaryTraceiO18973.

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...

Publicationsi

  1. "A novel Rab5 GDP/GTP exchange factor complexed to Rabaptin-5 links nucleotide exchange to effector recruitment and function."
    Horiuchi H., Lippe R., McBride H.M., Rubino M., Woodman P., Stenmark H., Rybin V., Wilm M., Ashman K., Mann M., Zerial M.
    Cell 90:1149-1159(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [MRNA], PROTEIN SEQUENCE OF 50-60; 142-148; 181-189; 272-283; 332-341 AND 414-427, FUNCTION, INTERACTION WITH RABEP1, IDENTIFICATION BY MASS SPECTROMETRY, SUBCELLULAR LOCATION, TISSUE SPECIFICITY.
    Tissue: Brain.
  2. Cited for: X-RAY CRYSTALLOGRAPHY (2.8 ANGSTROMS) OF 9-73 IN COMPLEX WITH UBIQUITIN, FUNCTION, UBIQUITINATION, MUTAGENESIS OF TYR-25; TYR-26; LEU-57 AND ALA-58.

Entry informationi

Entry nameiRABX5_BOVIN
AccessioniPrimary (citable) accession number: O18973
Entry historyi
Integrated into UniProtKB/Swiss-Prot: July 5, 2004
Last sequence update: January 1, 1998
Last modified: June 8, 2016
This is version 98 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

3D-structure, Complete proteome, Direct protein sequencing, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  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.