Coatomer subunit epsilon - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P40509 (COPE_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 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:
Coatomer subunit epsilon

Alternative name(s):
Epsilon-coat protein
Short name=Epsilon-COP

Gene names

Name:	SEC28
Ordered Locus Names:	YIL076W

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	296 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	The coatomer is a cytosolic protein complex that binds to dilysine motifs and reversibly associates with Golgi non-clathrin-coated vesicles, which further mediate biosynthetic protein transport from the ER, via the Golgi up to the trans Golgi network. Coatomer complex is required for budding from Golgi membranes, and is essential for the retrograde Golgi-to-ER transport of dilysine-tagged proteins. In mammals, the coatomer can only be recruited by membranes associated to ADP-ribosylation factors (ARFs), which are small GTP-binding proteins; the complex also influences the Golgi structural integrity, as well as the processing, activity, and endocytic recycling of LDL receptors By similarity. Ref.1 Ref.7
Subunit structure	Oligomeric complex that consists of at least the alpha, beta, beta', gamma, delta, epsilon and zeta subunits. Interacts with the ESCRT-0 subunit VPS27. Ref.7
Subcellular location	Cytoplasm By similarity. Golgi apparatus membrane; Peripheral membrane protein; Cytoplasmic side By similarity. Cytoplasmic vesicle › COPI-coated vesicle membrane; Peripheral membrane protein; Cytoplasmic side By similarity. Note: The coatomer is cytoplasmic or polymerized on the cytoplasmic side of the Golgi, as well as on the vesicles/buds originating from it By similarity. Ref.4 Ref.7
Miscellaneous	Present with 23100 molecules/cell in log phase SD medium.
Sequence similarities	Belongs to the COPE family.
Sequence caution	The sequence CAA86094.1 differs from that shown. Reason: Erroneous initiation.

Ontologies

Keywords
Biological process	ER-Golgi transport Protein transport Transport
Cellular component	Cytoplasm Cytoplasmic vesicle Golgi apparatus Membrane
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	ER to Golgi vesicle-mediated transport Inferred from mutant phenotype PubMed 10532354. Source: SGD late endosome to vacuole transport via multivesicular body sorting pathway Inferred from mutant phenotype Ref.7. Source: SGD protein transport Inferred from electronic annotation. Source: UniProtKB-KW retrograde vesicle-mediated transport, Golgi to ER Inferred from electronic annotation. Source: InterPro vesicle coating Inferred from mutant phenotype Ref.1. Source: SGD
Cellular_component	COPI vesicle coat Inferred from mutant phenotype Ref.1. Source: SGD
Molecular_function	structural molecule activity Inferred from electronic annotation. Source: InterPro
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct
COP1	P53622	9	EBI-4884,EBI-4860
SEC27	P41811	7	EBI-4884,EBI-4898
VPS27	P40343	2	EBI-4884,EBI-20380

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 296

296

Coatomer subunit epsilon

PRO_0000193856

Secondary structure

296

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P40509 [UniParc].

Last modified December 15, 1998. Version 2.
Checksum: 95ACA8BB647817DB
Show »

FASTA

296

33,829

        10         20         30         40         50         60 
MDYFNIKQNY YTGNFVQCLQ EIEKFSKVTD NTLLFYKAKT LLALGQYQSQ DPTSKLGKVL 

        70         80         90        100        110        120 
DLYVQFLDTK NIEELENLLK DKQNSPYELY LLATAQAILG DLDKSLETCV EGIDNDEAEG 

       130        140        150        160        170        180 
TTELLLLAIE VALLNNNVST ASTIFDNYTN AIEDTVSGDN EMILNLAESY IKFATNKETA 

       190        200        210        220        230        240 
TSNFYYYEEL SQTFPTWKTQ LGLLNLHLQQ RNIAEAQGIV ELLLSDYYSV EQKENAVLYK 

       250        260        270        280        290 
PTFLANQITL ALMQGLDTED LTNQLVKLDH EHAFIKHHQE IDAKFDELVR KYDTSN

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"Epsilon-COP is a structural component of coatomer that functions to stabilize alpha-COP." Duden R., Kajikawa L., Wuestehube L., Schekman R. EMBO J. 17:985-995(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], IDENTIFICATION OF INITIATION SITE, FUNCTION.
[2]	"The nucleotide sequence of Saccharomyces cerevisiae chromosome IX." Churcher C.M., Bowman S., Badcock K., Bankier A.T., Brown D., Chillingworth T., Connor R., Devlin K., Gentles S., Hamlin N., Harris D.E., Horsnell T., Hunt S., Jagels K., Jones M., Lye G., Moule S., Odell C. Barrell B.G. Nature 387:84-87(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]	"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].
[5]	"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].
[6]	"Mapping of transcription start sites in Saccharomyces cerevisiae using 5' SAGE." Zhang Z., Dietrich F.S. Nucleic Acids Res. 33:2838-2851(2005) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION OF PROBABLE INITIATION SITE.
[7]	"Involvement of specific COPI subunits in protein sorting from the late endosome to the vacuole in yeast." Gabriely G., Kama R., Gerst J.E. Mol. Cell. Biol. 27:526-540(2007) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION, SUBCELLULAR LOCATION, INTERACTION WITH VPS27.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AF043582 Genomic DNA. Translation: AAC14023.1.
Z37997 Genomic DNA. Translation: CAA86094.1. Different initiation.
BK006942 Genomic DNA. Translation: DAA08474.1.

PIR

S48368.

RefSeq

NP_012189.2. NM_001179426.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3MV2	X-ray	2.90	B/D/F	1-296	[»]
3MV3	X-ray	3.25	B/D/F	1-296	[»]

ProteinModelPortal

P40509.

SMR

P40509. Positions 1-293.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-4711N.

IntAct

P40509. 17 interactions.

MINT

MINT-429031.

STRING

4932.YIL076W.

Proteomic databases

PaxDb

P40509.

PeptideAtlas

P40509.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YIL076W; YIL076W; YIL076W.

GeneID

854734.

KEGG

sce:YIL076W.

Organism-specific databases

CYGD

YIL076w.

SGD

S000001338. SEC28.

Phylogenomic databases

eggNOG

NOG252891.

HOGENOM

HOG000000967.

OMA

ASTMFEN.

OrthoDB

EOG41RT44.

Gene expression databases

Genevestigator

P40509.

GermOnline

YIL076W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR006822. Coatomer_esu.
[Graphical view]

Pfam

PF04733. Coatomer_E. 1 hit.
[Graphical view]

PIRSF

PIRSF016478. Coatomer_esu. 1 hit.

ProtoNet

Search...

Other

EvolutionaryTrace

P40509.

NextBio

977434.

Entry information

Entry name

COPE_YEAST

Accession

Primary (citable) accession number: P40509
Secondary accession number(s): D6VVK8

Entry history

Integrated into UniProtKB/Swiss-Prot:	February 1, 1995
Last sequence update:	December 15, 1998
Last modified:	May 1, 2013
This is version 107 of the entry and version 2 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 IX

Yeast (Saccharomyces cerevisiae) chromosome IX: 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

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction 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