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P07560 (SEC4_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified July 9, 2014. Version 166. Feed History...

Clusters with 100%, 90%, 50% identity | Documents (4) | Third-party data text xml rdf/xml gff fasta
to top of pageNames·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·DocumentsCustomize order

Names and origin

Protein namesRecommended name:
Ras-related protein SEC4
Alternative name(s):
Suppressor of RHO3 protein 6
Gene names
Name:SEC4
Synonyms:SRO6
Ordered Locus Names:YFL005W
OrganismSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]
Taxonomic identifier559292 [NCBI]
Taxonomic lineageEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces

Protein attributes

Sequence length215 AA.
Sequence statusComplete.
Protein existenceEvidence at protein level

General annotation (Comments)

Function

Involved in exocytosis. Maybe by regulating the binding and fusion of secretory vesicles with the cell surface. The GTP-bound form of SEC4 may interact with an effector, thereby stimulating its activity and leading to exocytotic fusion. SEC4 may be an upstream activator of the 19.5S SEC8/SEC15 particle. SEC4 probably interacts directly with SEC8; it could serve as the attachment site for the SEC8/SEC15 particle. Ref.9

Subunit structure

Interacts with the guanyl-nucleotide exchange factor SEC2. Interacts with SRO7, YIF1, YIP3, YIP4 and YIP5. Ref.6 Ref.7 Ref.8 Ref.9

Subcellular location

Cytoplasmic vesiclesecretory vesicle membrane; Lipid-anchor; Cytoplasmic side. Cell membrane; Lipid-anchor; Cytoplasmic side. Cytoplasm. Note: A small fraction is soluble.

Sequence similarities

Belongs to the small GTPase superfamily. Rab family.

Ontologies

Keywords
   Biological processExocytosis
Protein transport
Transport
   Cellular componentCell membrane
Cytoplasm
Cytoplasmic vesicle
Membrane
   LigandGTP-binding
Nucleotide-binding
   PTMLipoprotein
Phosphoprotein
Prenylation
   Technical term3D-structure
Complete proteome
Reference proteome
Gene Ontology (GO)
   Biological_processGTP catabolic process

Inferred from direct assay PubMed 2111819. Source: GOC

Golgi to plasma membrane transport

Inferred from mutant phenotype PubMed 9017592. Source: SGD

ascospore-type prospore assembly

Inferred from mutant phenotype PubMed 9425151. Source: SGD

autophagy

Inferred from mutant phenotype PubMed 20444978. Source: SGD

bipolar cellular bud site selection

Traceable author statement PubMed 10652251. Source: SGD

exocytosis

Inferred from direct assay PubMed 15772160. Source: SGD

membrane addition at site of cytokinesis

Inferred from mutant phenotype PubMed 12456647. Source: SGD

protein transport

Inferred from electronic annotation. Source: UniProtKB-KW

small GTPase mediated signal transduction

Traceable author statement PubMed 10652251. Source: SGD

vesicle fusion

Inferred from mutant phenotype PubMed 9017592. Source: SGD

   Cellular_componentactin cap

Traceable author statement PubMed 10652251. Source: SGD

incipient cellular bud site

Inferred from direct assay PubMed 9128251. Source: SGD

plasma membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

transport vesicle

Inferred from direct assay PubMed 23079598. Source: SGD

transport vesicle membrane

Inferred from electronic annotation. Source: UniProtKB-SubCell

vesicle

Inferred from direct assay PubMed 12456647. Source: SGD

   Molecular_functionGTP binding

Inferred from direct assay PubMed 2111819. Source: SGD

GTPase activity

Inferred from direct assay PubMed 2111819. Source: SGD

protein binding

Inferred from physical interaction Ref.7Ref.8. Source: IntAct

Complete GO annotation...

Binary interactions

Sequence annotation (Features)

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifier

Molecule processing

Chain1 – 215215Ras-related protein SEC4
PRO_0000121330

Regions

Nucleotide binding27 – 348GTP
Nucleotide binding75 – 795GTP
Nucleotide binding133 – 1364GTP By similarity
Motif49 – 579Effector region Probable

Amino acid modifications

Modified residue2011Phosphoserine Ref.10 Ref.11 Ref.12
Modified residue2041Phosphoserine Ref.10 Ref.12
Lipidation2141S-geranylgeranyl cysteine By similarity
Lipidation2151S-geranylgeranyl cysteine By similarity

Secondary structure

....................................... 215
Helix Strand Turn

Details...

Sequences

Sequence LengthMass (Da)Tools
P07560 [UniParc].

Last modified August 1, 1988. Version 1.
Checksum: 7DEDF7DCC7533BA7

FASTA21523,506
        10         20         30         40         50         60 
MSGLRTVSAS SGNGKSYDSI MKILLIGDSG VGKSCLLVRF VEDKFNPSFI TTIGIDFKIK 

        70         80         90        100        110        120 
TVDINGKKVK LQLWDTAGQE RFRTITTAYY RGAMGIILVY DVTDERTFTN IKQWFKTVNE 

       130        140        150        160        170        180 
HANDEAQLLL VGNKSDMETR VVTADQGEAL AKELGIPFIE SSAKNDDNVN EIFFTLAKLI 

       190        200        210 
QEKIDSNKLV GVGNGKEGNI SINSGSGNSS KSNCC 

« Hide

References

« Hide 'large scale' references
[1]"A ras-like protein is required for a post-Golgi event in yeast secretion."
Salminen A., Novick P.J.
Cell 49:527-538(1987) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
[2]"Analysis of the nucleotide sequence of chromosome VI from Saccharomyces cerevisiae."
Murakami Y., Naitou M., Hagiwara H., Shibata T., Ozawa M., Sasanuma S., Sasanuma M., Tsuchiya Y., Soeda E., Yokoyama K., Yamazaki M., Tashiro H., Eki T.
Nat. Genet. 10:261-268(1995) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[3]"The reference genome sequence of Saccharomyces cerevisiae: Then and now."
Engel S.R., Dietrich F.S., Fisk D.G., Binkley G., Balakrishnan R., Costanzo M.C., Dwight S.S., Hitz B.C., Karra K., Nash R.S., Weng S., Wong E.D., Lloyd P., Skrzypek M.S., Miyasato S.R., Simison M., Cherry J.M.
G3 (Bethesda) 4:389-398(2014) [PubMed] [Europe PMC] [Abstract]
Cited for: GENOME REANNOTATION.
Strain: ATCC 204508 / S288c.
[4]"Sequencing of a 23 kb fragment from Saccharomyces cerevisiae chromosome VI."
Naitou M., Ozawa M., Sasanuma S., Kobayashi M., Hagiwara H., Shibata T., Hanaoka F., Watanabe K., Ono A., Yamazaki M., Tashiro H., Eki T., Murakami Y.
Yeast 12:77-84(1996) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 204511 / S288c / AB972.
[5]"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae."
Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. expand/collapse author list , Simpson A.J.G., Bulyk M.L., Harlow E., Marsischky G., Kolodner R.D., LaBaer J.
Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
Strain: ATCC 204508 / S288c.
[6]"Sec2p mediates nucleotide exchange on Sec4p and is involved in polarized delivery of post-Golgi vesicles."
Walch-Solimena C., Collins R.N., Novick P.J.
J. Cell Biol. 137:1495-1509(1997) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH SEC2.
[7]"Saccharomyces cerevisiae Pra1p/Yip3p interacts with Yip1p and Rab proteins."
Calero M., Collins R.N.
Biochem. Biophys. Res. Commun. 290:676-681(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH YIP3.
[8]"Identification of the novel proteins Yip4p and Yip5p as Rab GTPase interacting factors."
Calero M., Winand N.J., Collins R.N.
FEBS Lett. 515:89-98(2002) [PubMed] [Europe PMC] [Abstract]
Cited for: INTERACTION WITH YIF1; YIP4 AND YIP5.
[9]"The yeast lgl family member Sro7p is an effector of the secretory Rab GTPase Sec4p."
Grosshans B.L., Andreeva A., Gangar A., Niessen S., Yates J.R. III, Brennwald P., Novick P.
J. Cell Biol. 172:55-66(2006) [PubMed] [Europe PMC] [Abstract]
Cited for: FUNCTION, INTERACTION WITH SRO7.
[10]"Large-scale phosphorylation analysis of alpha-factor-arrested Saccharomyces cerevisiae."
Li X., Gerber S.A., Rudner A.D., Beausoleil S.A., Haas W., Villen J., Elias J.E., Gygi S.P.
J. Proteome Res. 6:1190-1197(2007) [PubMed] [Europe PMC] [Abstract]
Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-201 AND SER-204, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
Strain: ADR376.
[11]"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-201, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[12]"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: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-201 AND SER-204, IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
[13]"Crystal structures of a Rab protein in its inactive and active conformations."
Stroupe C., Brunger A.T.
J. Mol. Biol. 304:585-598(2000) [PubMed] [Europe PMC] [Abstract]
Cited for: X-RAY CRYSTALLOGRAPHY (1.8 ANGSTROMS) OF 18-187 IN COMPLEX WITH GDP AND GTP ANALOG.
+Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ
M16507 Genomic DNA. Translation: AAA35032.1.
D50617 Genomic DNA. Translation: BAA09233.1.
AY692843 Genomic DNA. Translation: AAT92862.1.
BK006940 Genomic DNA. Translation: DAA12434.1.
PIRTVBYQ4. A25959.
RefSeqNP_116650.1. NM_001179961.1.

3D structure databases

PDBe
RCSB-PDB
PDBj
EntryMethodResolution (Å)ChainPositionsPDBsum
1G16X-ray1.80A/B/C/D18-187[»]
1G17X-ray2.00A/B18-187[»]
2EQBX-ray2.70A19-187[»]
2OCYX-ray3.30C18-187[»]
3CPHX-ray2.90A1-213[»]
ProteinModelPortalP07560.
SMRP07560. Positions 19-187.
ModBaseSearch...
MobiDBSearch...

Protein-protein interaction databases

BioGrid31141. 108 interactions.
DIPDIP-2492N.
IntActP07560. 11 interactions.
MINTMINT-689902.
STRING4932.YFL005W.

Proteomic databases

MaxQBP07560.
PaxDbP07560.
PeptideAtlasP07560.
PRIDEP07560.

Protocols and materials databases

StructuralBiologyKnowledgebaseSearch...

Genome annotation databases

EnsemblFungiYFL005W; YFL005W; YFL005W.
GeneID850543.
KEGGsce:YFL005W.

Organism-specific databases

CYGDYFL005w.
SGDS000001889. SEC4.

Phylogenomic databases

eggNOGCOG1100.
GeneTreeENSGT00740000115017.
HOGENOMHOG000233968.
KOK07901.
OMAKVQREQA.
OrthoDBEOG7BGHXR.

Enzyme and pathway databases

BioCycYEAST:G3O-30450-MONOMER.

Gene expression databases

GenevestigatorP07560.

Family and domain databases

Gene3D3.40.50.300. 1 hit.
InterProIPR027417. P-loop_NTPase.
IPR005225. Small_GTP-bd_dom.
IPR001806. Small_GTPase.
IPR003579. Small_GTPase_Rab_type.
[Graphical view]
PfamPF00071. Ras. 1 hit.
[Graphical view]
PRINTSPR00449. RASTRNSFRMNG.
SMARTSM00175. RAB. 1 hit.
[Graphical view]
SUPFAMSSF52540. SSF52540. 1 hit.
TIGRFAMsTIGR00231. small_GTP. 1 hit.
PROSITEPS51419. RAB. 1 hit.
[Graphical view]
ProtoNetSearch...

Other

EvolutionaryTraceP07560.
NextBio966307.

Entry information

Entry nameSEC4_YEAST
AccessionPrimary (citable) accession number: P07560
Secondary accession number(s): D6VTM4
Entry history
Integrated into UniProtKB/Swiss-Prot: August 1, 1988
Last sequence update: August 1, 1988
Last modified: July 9, 2014
This is version 166 of the entry and version 1 of the sequence. [Complete history]
Entry statusReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Relevant documents

Yeast chromosome VI

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

Yeast

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

SIMILARITY comments

Index of protein domains and families

PDB cross-references

Index of Protein Data Bank (PDB) cross-references