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Protein

Rab GDP-dissociation inhibitor

Gene

GDI1

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Regulates the GDP/GTP exchange reaction of SEC4 by inhibiting the dissociation of GDP from it, and the subsequent binding of GTP to SEC4. Plays an essential role in the yeast secretory pathway.1 Publication

GO - Molecular functioni

  1. GTPase activator activity Source: UniProtKB-KW
  2. Rab GDP-dissociation inhibitor activity Source: SGD

GO - Biological processi

  1. protein transport Source: UniProtKB-KW
  2. regulation of catalytic activity Source: GOC
  3. vesicle-mediated transport Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

GTPase activation

Keywords - Biological processi

Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-30297-MONOMER.
ReactomeiREACT_240239. Rho GTPase cycle.

Names & Taxonomyi

Protein namesi
Recommended name:
Rab GDP-dissociation inhibitor
Short name:
Rab GDI
Alternative name(s):
Secretory pathway GDP dissociation inhibitor
Gene namesi
Name:GDI1
Synonyms:SEC19
Ordered Locus Names:YER136W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311: Chromosome V

Organism-specific databases

CYGDiYER136w.
SGDiS000000938. GDI1.

Subcellular locationi

Cytoplasm 1 Publication

GO - Cellular componenti

  1. cytoplasm Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 451451Rab GDP-dissociation inhibitorPRO_0000056684Add
BLAST

Proteomic databases

MaxQBiP39958.
PaxDbiP39958.
PeptideAtlasiP39958.

2D gel databases

UCD-2DPAGEP39958.

Expressioni

Gene expression databases

GenevestigatoriP39958.

Interactioni

Subunit structurei

Interacts with the GDP-bound form of Rab GTPase YPT1. Interacts with YPT10.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
YPT1P011235EBI-7517,EBI-29496
YPT10P381464EBI-7517,EBI-29357
YPT31P385556EBI-7517,EBI-29379
YPT52P360183EBI-7517,EBI-29407
YPT6Q992603EBI-7517,EBI-29503

Protein-protein interaction databases

BioGridi36882. 36 interactions.
DIPiDIP-785N.
IntActiP39958. 16 interactions.
MINTiMINT-502785.
STRINGi4932.YER136W.

Structurei

Secondary structure

1
451
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Beta strandi11 – 155Combined sources
Helixi19 – 3012Combined sources
Beta strandi35 – 384Combined sources
Beta strandi40 – 445Combined sources
Helixi46 – 483Combined sources
Helixi53 – 608Combined sources
Helixi67 – 748Combined sources
Helixi77 – 793Combined sources
Beta strandi82 – 854Combined sources
Beta strandi88 – 903Combined sources
Helixi94 – 1018Combined sources
Helixi104 – 1063Combined sources
Beta strandi110 – 1123Combined sources
Beta strandi116 – 1205Combined sources
Beta strandi123 – 1264Combined sources
Helixi131 – 1366Combined sources
Beta strandi138 – 1403Combined sources
Helixi142 – 15716Combined sources
Helixi163 – 1653Combined sources
Turni171 – 1733Combined sources
Helixi176 – 1827Combined sources
Helixi187 – 19610Combined sources
Beta strandi201 – 2033Combined sources
Helixi204 – 2074Combined sources
Beta strandi208 – 2103Combined sources
Helixi211 – 22717Combined sources
Beta strandi231 – 2355Combined sources
Helixi241 – 25212Combined sources
Beta strandi256 – 2583Combined sources
Beta strandi265 – 2684Combined sources
Turni270 – 2723Combined sources
Beta strandi275 – 2806Combined sources
Beta strandi283 – 2864Combined sources
Beta strandi290 – 2923Combined sources
Helixi294 – 2963Combined sources
Helixi298 – 3003Combined sources
Beta strandi301 – 31717Combined sources
Beta strandi322 – 3243Combined sources
Beta strandi326 – 3327Combined sources
Helixi334 – 3363Combined sources
Beta strandi343 – 3497Combined sources
Helixi350 – 3523Combined sources
Beta strandi360 – 3678Combined sources
Helixi373 – 3764Combined sources
Helixi378 – 3814Combined sources
Helixi382 – 3843Combined sources
Beta strandi388 – 40215Combined sources
Turni405 – 4073Combined sources
Beta strandi408 – 4114Combined sources
Beta strandi419 – 4213Combined sources
Helixi422 – 43615Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1UKVX-ray1.50G1-451[»]
2BCGX-ray1.48G1-451[»]
3CPHX-ray2.90G/H1-451[»]
3CPIX-ray2.30G/H1-451[»]
3CPJX-ray2.35G1-451[»]
ProteinModelPortaliP39958.
SMRiP39958. Positions 5-446.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP39958.

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni106 – 1127Interaction with YPT1
Regioni234 – 25926Interaction with YPT1Add
BLAST

Sequence similaritiesi

Belongs to the Rab GDI family.Curated

Phylogenomic databases

eggNOGiCOG5044.
GeneTreeiENSGT00530000063044.
HOGENOMiHOG000163825.
InParanoidiP39958.
KOiK17255.
OMAiDIYVACV.
OrthoDBiEOG72C58R.

Family and domain databases

InterProiIPR018203. GDP_dissociation_inhibitor.
IPR000806. RabGDI.
[Graphical view]
PfamiPF00996. GDI. 1 hit.
[Graphical view]
PRINTSiPR00892. RABGDI.
PR00891. RABGDIREP.

Sequencei

Sequence statusi: Complete.

P39958-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MDQETIDTDY DVIVLGTGIT ECILSGLLSV DGKKVLHIDK QDHYGGEAAS
60 70 80 90 100
VTLSQLYEKF KQNPISKEER ESKFGKDRDW NVDLIPKFLM ANGELTNILI
110 120 130 140 150
HTDVTRYVDF KQVSGSYVFK QGKIYKVPAN EIEAISSPLM GIFEKRRMKK
160 170 180 190 200
FLEWISSYKE DDLSTHQGLD LDKNTMDEVY YKFGLGNSTK EFIGHAMALW
210 220 230 240 250
TNDDYLQQPA RPSFERILLY CQSVARYGKS PYLYPMYGLG ELPQGFARLS
260 270 280 290 300
AIYGGTYMLD TPIDEVLYKK DTGKFEGVKT KLGTFKAPLV IADPTYFPEK
310 320 330 340 350
CKSTGQRVIR AICILNHPVP NTSNADSLQI IIPQSQLGRK SDIYVAIVSD
360 370 380 390 400
AHNVCSKGHY LAIISTIIET DKPHIELEPA FKLLGPIEEK FMGIAELFEP
410 420 430 440 450
REDGSKDNIY LSRSYDASSH FESMTDDVKD IYFRVTGHPL VLKQRQEQEK

Q
Length:451
Mass (Da):51,206
Last modified:February 1, 1995 - v1
Checksum:i48CF8D45FC031772
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S69371 Genomic DNA. Translation: AAB30540.1.
U18916 Genomic DNA. Translation: AAC03234.1.
BK006939 Genomic DNA. Translation: DAA07795.1.
PIRiS44446.
RefSeqiNP_011062.1. NM_001179026.1.

Genome annotation databases

EnsemblFungiiYER136W; YER136W; YER136W.
GeneIDi856876.
KEGGisce:YER136W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
S69371 Genomic DNA. Translation: AAB30540.1.
U18916 Genomic DNA. Translation: AAC03234.1.
BK006939 Genomic DNA. Translation: DAA07795.1.
PIRiS44446.
RefSeqiNP_011062.1. NM_001179026.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
1UKVX-ray1.50G1-451[»]
2BCGX-ray1.48G1-451[»]
3CPHX-ray2.90G/H1-451[»]
3CPIX-ray2.30G/H1-451[»]
3CPJX-ray2.35G1-451[»]
ProteinModelPortaliP39958.
SMRiP39958. Positions 5-446.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36882. 36 interactions.
DIPiDIP-785N.
IntActiP39958. 16 interactions.
MINTiMINT-502785.
STRINGi4932.YER136W.

2D gel databases

UCD-2DPAGEP39958.

Proteomic databases

MaxQBiP39958.
PaxDbiP39958.
PeptideAtlasiP39958.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYER136W; YER136W; YER136W.
GeneIDi856876.
KEGGisce:YER136W.

Organism-specific databases

CYGDiYER136w.
SGDiS000000938. GDI1.

Phylogenomic databases

eggNOGiCOG5044.
GeneTreeiENSGT00530000063044.
HOGENOMiHOG000163825.
InParanoidiP39958.
KOiK17255.
OMAiDIYVACV.
OrthoDBiEOG72C58R.

Enzyme and pathway databases

BioCyciYEAST:G3O-30297-MONOMER.
ReactomeiREACT_240239. Rho GTPase cycle.

Miscellaneous databases

EvolutionaryTraceiP39958.
NextBioi983252.
PROiP39958.

Gene expression databases

GenevestigatoriP39958.

Family and domain databases

InterProiIPR018203. GDP_dissociation_inhibitor.
IPR000806. RabGDI.
[Graphical view]
PfamiPF00996. GDI. 1 hit.
[Graphical view]
PRINTSiPR00892. RABGDI.
PR00891. RABGDIREP.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "GDI1 encodes a GDP dissociation inhibitor that plays an essential role in the yeast secretory pathway."
    Garrett M.D., Zahner J.E., Cheney C.M., Novick P.J.
    EMBO J. 13:1718-1728(1994) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  3. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  4. "Characterization of the ORF YBR264c in Saccharomyces cerevisiae, which encodes a new yeast Ypt that is degraded by a proteasome-dependent mechanism."
    Louvet O., Roumanie O., Barthe C., Peypouquet M.-F., Schaeffer J., Doignon F., Crouzet M.
    Mol. Gen. Genet. 261:589-600(1999) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH YPT10.
  5. Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
  6. Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
  7. "Global analysis of Cdk1 substrate phosphorylation sites provides insights into evolution."
    Holt L.J., Tuch B.B., Villen J., Johnson A.D., Gygi S.P., Morgan D.O.
    Science 325:1682-1686(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
  8. "Structure of Rab GDP-dissociation inhibitor in complex with prenylated YPT1 GTPase."
    Rak A., Pylypenko O., Durek T., Watzke A., Kushnir S., Brunsveld L., Waldmann H., Goody R.S., Alexandrov K.
    Science 302:646-650(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: X-RAY CRYSTALLOGRAPHY (1.5 ANGSTROMS) IN COMPLEX WITH YPT1.

Entry informationi

Entry nameiGDI1_YEAST
AccessioniPrimary (citable) accession number: P39958
Secondary accession number(s): D3DM41
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1995
Last sequence update: February 1, 1995
Last modified: January 7, 2015
This is version 120 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 7280 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

Documents

  1. PDB cross-references
    Index of Protein Data Bank (PDB) cross-references
  2. SIMILARITY comments
    Index of protein domains and families
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome V
    Yeast (Saccharomyces cerevisiae) chromosome V: entries and gene names

External Data

Dasty 3

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 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.