Rab GDP-dissociation inhibitor - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P39958 (GDI1_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified April 3, 2013. Version 107. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Rab GDP-dissociation inhibitor
Short name=Rab GDI

Alternative name(s):
Secretory pathway GDP dissociation inhibitor

Gene names

Name:	GDI1
Synonyms:	SEC19
Ordered Locus Names:	YER136W

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›

Protein attributes

Sequence length	451 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	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. Ref.1
Subunit structure	Interacts with the GDP-bound form of Rab GTPase YPT1. Interacts with YPT10. Ref.4
Subcellular location	Cytoplasm Ref.5.
Miscellaneous	Present with 7280 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the Rab GDI family.

Ontologies

Keywords
Biological process	Protein transport Transport
Cellular component	Cytoplasm
Molecular function	GTPase activation
PTM	Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	positive regulation of GTPase activity Inferred from electronic annotation. Source: GOC protein transport Inferred from electronic annotation. Source: UniProtKB-KW vesicle-mediated transport Inferred from mutant phenotype Ref.1. Source: SGD
Cellular_component	cytoplasm Inferred from electronic annotation. Source: UniProtKB-SubCell
Molecular_function	GTPase activator activity Inferred from electronic annotation. Source: UniProtKB-KW Rab GDP-dissociation inhibitor activity Inferred from direct assay Ref.1. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct
SEC4	P07560	4	EBI-7517,EBI-16858
VPS21	P36017	8	EBI-7517,EBI-29399
YPT1	P01123	8	EBI-7517,EBI-29496
YPT10	P38146	7	EBI-7517,EBI-29357
YPT31	P38555	8	EBI-7517,EBI-29379
YPT32	P51996	4	EBI-7517,EBI-29384
YPT52	P36018	5	EBI-7517,EBI-29407
YPT6	Q99260	7	EBI-7517,EBI-29503
YPT7	P32939	4	EBI-7517,EBI-29509

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 451

451

Rab GDP-dissociation inhibitor

PRO_0000056684

Regions

Region

106 – 112

Interaction with YPT1

Region

234 – 259

Interaction with YPT1

Amino acid modifications

Modified residue

Phosphoserine Ref.8

Modified residue

230

Phosphoserine Ref.7

Secondary structure

451

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P39958 [UniParc].

Last modified February 1, 1995. Version 1.
Checksum: 48CF8D45FC031772
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FASTA

451

51,206

        10         20         30         40         50         60 
MDQETIDTDY DVIVLGTGIT ECILSGLLSV DGKKVLHIDK QDHYGGEAAS VTLSQLYEKF 

        70         80         90        100        110        120 
KQNPISKEER ESKFGKDRDW NVDLIPKFLM ANGELTNILI HTDVTRYVDF KQVSGSYVFK 

       130        140        150        160        170        180 
QGKIYKVPAN EIEAISSPLM GIFEKRRMKK FLEWISSYKE DDLSTHQGLD LDKNTMDEVY 

       190        200        210        220        230        240 
YKFGLGNSTK EFIGHAMALW TNDDYLQQPA RPSFERILLY CQSVARYGKS PYLYPMYGLG 

       250        260        270        280        290        300 
ELPQGFARLS AIYGGTYMLD TPIDEVLYKK DTGKFEGVKT KLGTFKAPLV IADPTYFPEK 

       310        320        330        340        350        360 
CKSTGQRVIR AICILNHPVP NTSNADSLQI IIPQSQLGRK SDIYVAIVSD AHNVCSKGHY 

       370        380        390        400        410        420 
LAIISTIIET DKPHIELEPA FKLLGPIEEK FMGIAELFEP REDGSKDNIY LSRSYDASSH 

       430        440        450 
FESMTDDVKD IYFRVTGHPL VLKQRQEQEK Q

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[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]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome V." Dietrich F.S., Mulligan J.T., Hennessy K.M., Yelton M.A., Allen E., Araujo R., Aviles E., Berno A., Brennan T., Carpenter J., Chen E., Cherry J.M., Chung E., Duncan M., Guzman E., Hartzell G., Hunicke-Smith S., Hyman R.W. Davis R.W. Nature 387:78-81(1997) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204511 / S288c / AB972.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases 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]	"Global analysis of protein localization in budding yeast." Huh W.-K., Falvo J.V., Gerke L.C., Carroll A.S., Howson R.W., Weissman J.S., O'Shea E.K. Nature 425:686-691(2003) [PubMed] [Europe PMC] [Abstract] Cited for: SUBCELLULAR LOCATION [LARGE SCALE ANALYSIS].
[6]	"Global analysis of protein expression in yeast." Ghaemmaghami S., Huh W.-K., Bower K., Howson R.W., Belle A., Dephoure N., O'Shea E.K., Weissman J.S. Nature 425:737-741(2003) [PubMed] [Europe PMC] [Abstract] Cited for: LEVEL OF PROTEIN EXPRESSION [LARGE SCALE ANALYSIS].
[7]	"Proteome-wide identification of in vivo targets of DNA damage checkpoint kinases." Smolka M.B., Albuquerque C.P., Chen S.H., Zhou H. Proc. Natl. Acad. Sci. U.S.A. 104:10364-10369(2007) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-230, MASS SPECTROMETRY.
[8]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-54, MASS SPECTROMETRY.
[9]	"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.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

S69371 Genomic DNA. Translation: AAB30540.1.
U18916 Genomic DNA. Translation: AAC03234.1.
BK006939 Genomic DNA. Translation: DAA07795.1.

PIR

S44446.

RefSeq

NP_011062.1. NM_001179026.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
1UKV	X-ray	1.50	G	1-451	[»]
2BCG	X-ray	1.48	G	1-451	[»]
3CPH	X-ray	2.90	G/H	1-451	[»]
3CPI	X-ray	2.30	G/H	1-451	[»]
3CPJ	X-ray	2.35	G	1-451	[»]

ProteinModelPortal

P39958.

SMR

P39958. Positions 5-446.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-785N.

IntAct

P39958. 19 interactions.

MINT

MINT-502785.

STRING

4932.YER136W.

2D gel databases

UCD-2DPAGE

P39958.

Proteomic databases

PaxDb

P39958.

PeptideAtlas

P39958.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YER136W; YER136W; YER136W.

GeneID

856876.

KEGG

sce:YER136W.

Organism-specific databases

CYGD

YER136w.

SGD

S000000938. GDI1.

Phylogenomic databases

eggNOG

COG5044.

GeneTree

ENSGT00530000063044.

HOGENOM

HOG000163825.

OMA

HPIANTG.

OrthoDB

EOG4XSPZC.

Gene expression databases

Genevestigator

P39958.

GermOnline

YER136W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR018203. GDP_dissociation_inhibitor.
IPR000806. RabGDI.
[Graphical view]

Pfam

PF00996. GDI. 1 hit.
[Graphical view]

PRINTS

PR00892. RABGDI.
PR00891. RABGDIREP.

ProtoNet

Search...

Other

EvolutionaryTrace

P39958.

NextBio

983252.

Entry information

Entry name

GDI1_YEAST

Accession

Primary (citable) accession number: P39958
Secondary accession number(s): D3DM41

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	February 1, 1995
Last modified:	April 3, 2013
This is version 107 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome V

Yeast (Saccharomyces cerevisiae) chromosome V: entries and gene names

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Regions

Amino acid modifications

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

2D gel databases

Proteomic databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents