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Protein

Coatomer subunit delta

Gene

RET2

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

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 (By similarity).By similarity

GO - Biological processi

  • ER to Golgi vesicle-mediated transport Source: SGD
  • Golgi inheritance Source: SGD
  • Golgi localization Source: SGD
  • protein transport Source: UniProtKB-KW
  • retrograde vesicle-mediated transport, Golgi to ER Source: SGD
Complete GO annotation...

Keywords - Biological processi

ER-Golgi transport, Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-30497-MONOMER.
ReactomeiR-SCE-6807878. COPI-mediated anterograde transport.
R-SCE-6811434. COPI-dependent Golgi-to-ER retrograde traffic.

Names & Taxonomyi

Protein namesi
Recommended name:
Coatomer subunit delta
Alternative name(s):
Delta-coat protein
Short name:
Delta-COP
Gene namesi
Name:RET2
Ordered Locus Names:YFR051C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VI

Organism-specific databases

EuPathDBiFungiDB:YFR051C.
SGDiS000001947. RET2.

Subcellular locationi

GO - Cellular componenti

  • COPI vesicle coat Source: SGD
  • Golgi membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm, Cytoplasmic vesicle, Golgi apparatus, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Initiator methionineiRemoved1 Publication
ChainiPRO_00001938482 – 546Coatomer subunit deltaAdd BLAST545

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei277PhosphothreonineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP43621.
PRIDEiP43621.

PTM databases

iPTMnetiP43621.

Interactioni

Subunit structurei

Oligomeric complex that consists of at least the alpha, beta, beta', gamma, delta, epsilon and zeta subunits. Interacts with DSL1.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
RET3P536003EBI-4876,EBI-4905

Protein-protein interaction databases

BioGridi31209. 176 interactors.
DIPiDIP-5255N.
IntActiP43621. 37 interactors.
MINTiMINT-548122.

Structurei

Secondary structure

1546
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi289 – 303Combined sources15
Beta strandi309 – 322Combined sources14
Helixi325 – 327Combined sources3
Beta strandi328 – 334Combined sources7
Helixi343 – 345Combined sources3
Helixi355 – 361Combined sources7
Beta strandi362 – 364Combined sources3
Beta strandi366 – 368Combined sources3
Beta strandi380 – 389Combined sources10
Beta strandi398 – 407Combined sources10
Beta strandi409 – 422Combined sources14
Beta strandi428 – 436Combined sources9
Helixi447 – 449Combined sources3
Turni451 – 454Combined sources4
Beta strandi456 – 458Combined sources3
Beta strandi463 – 473Combined sources11
Beta strandi478 – 486Combined sources9
Helixi490 – 493Combined sources4
Beta strandi495 – 499Combined sources5
Beta strandi501 – 505Combined sources5
Beta strandi517 – 524Combined sources8
Beta strandi525 – 529Combined sources5
Beta strandi533 – 545Combined sources13

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5FJWX-ray2.80A/B/C/D/E/F/G/H288-546[»]
5FJXX-ray2.45A/B/C282-546[»]
5FJZX-ray1.90A/B/C/D282-546[»]
5FK0X-ray3.00A/B/C/D/E/F/G/H282-546[»]
ProteinModelPortaliP43621.
SMRiP43621.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Domaini288 – 546MHDPROSITE-ProRule annotationAdd BLAST259

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni190 – 440Interaction with DSL11 PublicationAdd BLAST251

Sequence similaritiesi

Contains 1 MHD (mu homology) domain.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00390000017207.
HOGENOMiHOG000203984.
InParanoidiP43621.
KOiK20471.
OMAiMTVRFNK.
OrthoDBiEOG092C50I9.

Family and domain databases

InterProiIPR022775. AP_mu_sigma_su.
IPR027059. Coatomer_dsu.
IPR011012. Longin-like_dom.
IPR028565. MHD.
[Graphical view]
PANTHERiPTHR10121. PTHR10121. 1 hit.
PfamiPF01217. Clat_adaptor_s. 1 hit.
[Graphical view]
SUPFAMiSSF49447. SSF49447. 1 hit.
SSF64356. SSF64356. 1 hit.
PROSITEiPS51072. MHD. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Sequence processingi: The displayed sequence is further processed into a mature form.

P43621-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVVLAASITT RQGKPLLSRQ FKDLSKDRVL ELLSNFQNLV SEISSDHTFV
60 70 80 90 100
EDKHVRYVYR PFDNYYIILI TNRQSNIIKD LATLNLFSQT INSYLSSFQD
110 120 130 140 150
QEIFHNAFEI LSSFDEIVSM GGYKENLSFT QVQTYLSMES HEERIQEIIE
160 170 180 190 200
RNKEIEATEE RKRRAKEIAR KEHERKHGFM SSNGDYDGAN RFMGSKDPNV
210 220 230 240 250
TNAINSYYSH ASPAAQQSYL QSSHAAAAEV APVASPMATS QRAGHSATGG
260 270 280 290 300
MKLGGGAGRR AGAAPRPSAI SSASSGTPPP PEEDVPENNG ILISIKEVIN
310 320 330 340 350
AEFSRDGTIH SSELKGVLEL RINDHDLSHS NLKLADSIDV RDKSFQFKTH
360 370 380 390 400
PNIDKQSFLS TKLISLRDKS KAFPANDQSL GVLRWRKVAP AEDDSLIPLT
410 420 430 440 450
LTTWVSPSES QQGFDVIIEY ESVLETELAD VIFTIPVFPQ EPVDINTESS
460 470 480 490 500
TCSDAEVVNM DQEMGTSIKI SKIAANDAGA LAFTIEAPYE DALYPMTVSF
510 520 530 540
QESTRDKLAK SFTGMAIQSV VMANDHDQEL PYDVITSLKS DEYLVQ
Length:546
Mass (Da):60,628
Last modified:January 23, 2007 - v3
Checksum:iAA730F046655EE5A
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50617 Genomic DNA. Translation: BAA09290.1.
BK006940 Genomic DNA. Translation: DAA12494.1.
PIRiS56306.
RefSeqiNP_116709.3. NM_001180016.3.

Genome annotation databases

EnsemblFungiiBAA09290; BAA09290; BAA09290.
YFR051C; YFR051C; YFR051C.
GeneIDi850612.
KEGGisce:YFR051C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
D50617 Genomic DNA. Translation: BAA09290.1.
BK006940 Genomic DNA. Translation: DAA12494.1.
PIRiS56306.
RefSeqiNP_116709.3. NM_001180016.3.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
5FJWX-ray2.80A/B/C/D/E/F/G/H288-546[»]
5FJXX-ray2.45A/B/C282-546[»]
5FJZX-ray1.90A/B/C/D282-546[»]
5FK0X-ray3.00A/B/C/D/E/F/G/H282-546[»]
ProteinModelPortaliP43621.
SMRiP43621.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31209. 176 interactors.
DIPiDIP-5255N.
IntActiP43621. 37 interactors.
MINTiMINT-548122.

PTM databases

iPTMnetiP43621.

Proteomic databases

MaxQBiP43621.
PRIDEiP43621.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiBAA09290; BAA09290; BAA09290.
YFR051C; YFR051C; YFR051C.
GeneIDi850612.
KEGGisce:YFR051C.

Organism-specific databases

EuPathDBiFungiDB:YFR051C.
SGDiS000001947. RET2.

Phylogenomic databases

GeneTreeiENSGT00390000017207.
HOGENOMiHOG000203984.
InParanoidiP43621.
KOiK20471.
OMAiMTVRFNK.
OrthoDBiEOG092C50I9.

Enzyme and pathway databases

BioCyciYEAST:G3O-30497-MONOMER.
ReactomeiR-SCE-6807878. COPI-mediated anterograde transport.
R-SCE-6811434. COPI-dependent Golgi-to-ER retrograde traffic.

Miscellaneous databases

PROiP43621.

Family and domain databases

InterProiIPR022775. AP_mu_sigma_su.
IPR027059. Coatomer_dsu.
IPR011012. Longin-like_dom.
IPR028565. MHD.
[Graphical view]
PANTHERiPTHR10121. PTHR10121. 1 hit.
PfamiPF01217. Clat_adaptor_s. 1 hit.
[Graphical view]
SUPFAMiSSF49447. SSF49447. 1 hit.
SSF64356. SSF64356. 1 hit.
PROSITEiPS51072. MHD. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiCOPD_YEAST
AccessioniPrimary (citable) accession number: P43621
Secondary accession number(s): D6VTT4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: November 1, 1995
Last sequence update: January 23, 2007
Last modified: November 2, 2016
This is version 156 of the entry and version 3 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Present with 18000 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

3D-structure, Complete proteome, Direct protein sequencing, 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 VI
    Yeast (Saccharomyces cerevisiae) chromosome VI: 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.