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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

GO - Biological processi

  • protein transport Source: UniProtKB-KW
  • small GTPase mediated signal transduction Source: InterPro
  • 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.
ReactomeiR-SCE-194840. Rho GTPase cycle.
R-SCE-6798695. Neutrophil degranulation.
R-SCE-6803205. TP53 regulates transcription of several additional cell death genes whose specific roles in p53-dependent apoptosis remain uncertain.
R-SCE-8876198. RAB GEFs exchange GTP for GDP on RABs.

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
Proteomesi
  • UP000002311 Componenti: Chromosome V

Organism-specific databases

EuPathDBiFungiDB:YER136W.
SGDiS000000938. GDI1.

Subcellular locationi

GO - Cellular componenti

Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000566841 – 451Rab GDP-dissociation inhibitorAdd BLAST451

Proteomic databases

MaxQBiP39958.
PRIDEiP39958.

2D gel databases

UCD-2DPAGEP39958.

PTM databases

iPTMnetiP39958.

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. 37 interactors.
DIPiDIP-785N.
IntActiP39958. 16 interactors.
MINTiMINT-502785.

Structurei

Secondary structure

1451
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi11 – 15Combined sources5
Helixi19 – 30Combined sources12
Beta strandi35 – 38Combined sources4
Beta strandi40 – 44Combined sources5
Helixi46 – 48Combined sources3
Helixi53 – 60Combined sources8
Helixi67 – 74Combined sources8
Helixi77 – 79Combined sources3
Beta strandi82 – 85Combined sources4
Beta strandi88 – 90Combined sources3
Helixi94 – 101Combined sources8
Helixi104 – 106Combined sources3
Beta strandi110 – 112Combined sources3
Beta strandi116 – 120Combined sources5
Beta strandi123 – 126Combined sources4
Helixi131 – 136Combined sources6
Beta strandi138 – 140Combined sources3
Helixi142 – 157Combined sources16
Helixi163 – 165Combined sources3
Turni171 – 173Combined sources3
Helixi176 – 182Combined sources7
Helixi187 – 196Combined sources10
Beta strandi201 – 203Combined sources3
Helixi204 – 207Combined sources4
Beta strandi208 – 210Combined sources3
Helixi211 – 227Combined sources17
Beta strandi231 – 235Combined sources5
Helixi241 – 252Combined sources12
Beta strandi256 – 258Combined sources3
Beta strandi265 – 268Combined sources4
Turni270 – 272Combined sources3
Beta strandi275 – 280Combined sources6
Beta strandi283 – 286Combined sources4
Beta strandi290 – 292Combined sources3
Helixi294 – 296Combined sources3
Helixi298 – 300Combined sources3
Beta strandi301 – 317Combined sources17
Beta strandi322 – 324Combined sources3
Beta strandi326 – 332Combined sources7
Helixi334 – 336Combined sources3
Beta strandi343 – 349Combined sources7
Helixi350 – 352Combined sources3
Beta strandi360 – 367Combined sources8
Helixi373 – 376Combined sources4
Helixi378 – 381Combined sources4
Helixi382 – 384Combined sources3
Beta strandi388 – 402Combined sources15
Turni405 – 407Combined sources3
Beta strandi408 – 411Combined sources4
Beta strandi419 – 421Combined sources3
Helixi422 – 436Combined sources15

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP39958.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni106 – 112Interaction with YPT17
Regioni234 – 259Interaction with YPT1Add BLAST26

Sequence similaritiesi

Belongs to the Rab GDI family.Curated

Phylogenomic databases

GeneTreeiENSGT00530000063044.
HOGENOMiHOG000163825.
InParanoidiP39958.
KOiK17255.
OMAiGSKDNIY.
OrthoDBiEOG092C22C1.

Family and domain databases

Gene3Di3.50.50.60. 2 hits.
InterProiIPR023753. FAD/NAD-binding_dom.
IPR018203. GDP_dissociation_inhibitor.
IPR000806. RabGDI.
[Graphical view]
PfamiPF00996. GDI. 1 hit.
[Graphical view]
PRINTSiPR00892. RABGDI.
PR00891. RABGDIREP.
SUPFAMiSSF51905. SSF51905. 2 hits.

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
PDB 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.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36882. 37 interactors.
DIPiDIP-785N.
IntActiP39958. 16 interactors.
MINTiMINT-502785.

PTM databases

iPTMnetiP39958.

2D gel databases

UCD-2DPAGEP39958.

Proteomic databases

MaxQBiP39958.
PRIDEiP39958.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

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

Organism-specific databases

EuPathDBiFungiDB:YER136W.
SGDiS000000938. GDI1.

Phylogenomic databases

GeneTreeiENSGT00530000063044.
HOGENOMiHOG000163825.
InParanoidiP39958.
KOiK17255.
OMAiGSKDNIY.
OrthoDBiEOG092C22C1.

Enzyme and pathway databases

BioCyciYEAST:G3O-30297-MONOMER.
ReactomeiR-SCE-194840. Rho GTPase cycle.
R-SCE-6798695. Neutrophil degranulation.
R-SCE-6803205. TP53 regulates transcription of several additional cell death genes whose specific roles in p53-dependent apoptosis remain uncertain.
R-SCE-8876198. RAB GEFs exchange GTP for GDP on RABs.

Miscellaneous databases

EvolutionaryTraceiP39958.
PROiP39958.

Family and domain databases

Gene3Di3.50.50.60. 2 hits.
InterProiIPR023753. FAD/NAD-binding_dom.
IPR018203. GDP_dissociation_inhibitor.
IPR000806. RabGDI.
[Graphical view]
PfamiPF00996. GDI. 1 hit.
[Graphical view]
PRINTSiPR00892. RABGDI.
PR00891. RABGDIREP.
SUPFAMiSSF51905. SSF51905. 2 hits.
ProtoNetiSearch...

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: November 30, 2016
This is version 136 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

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.