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Protein

Vacuolar membrane protein PEP3

Gene

PEP3

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

Required for vacuolar biogenesis and for trafficking of hydrolase precursors to the vacuole. Mediates transport at the vacuolar membrane where it may be responsible for tethering transport vesicles on the target membranes. Acts as component of the HOPS complex that acts during the docking stage of vacuole fusion. HOPS is an effector for the vacuolar Rab GTPase YPT7 and is required for vacuolar SNARE complex assembly. It remains bound to SNARE complexes after vacuole fusion.2 Publications

Regions

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri826 – 851RING-type; atypicalAdd BLAST26

GO - Molecular functioni

  • metal ion binding Source: UniProtKB-KW
  • protein binding, bridging Source: SGD

GO - Biological processi

  • endosome organization Source: GO_Central
  • Golgi to endosome transport Source: SGD
  • intracellular protein transport Source: InterPro
  • late endosome to vacuole transport Source: SGD
  • lysosome organization Source: GO_Central
  • regulation of SNARE complex assembly Source: SGD
  • regulation of vacuole fusion, non-autophagic Source: SGD
  • vacuole fusion, non-autophagic Source: SGD
  • vesicle docking involved in exocytosis Source: SGD
  • vesicle tethering Source: SGD
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Keywords - Ligandi

Metal-binding, Zinc

Enzyme and pathway databases

BioCyciYEAST:G3O-32284-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar membrane protein PEP3
Alternative name(s):
Carboxypeptidase Y-deficient protein 3
Vacuolar morphogenesis protein 8
Vacuolar protein sorting-associated protein 18
Vacuolar protein-targeting protein 18
Gene namesi
Name:PEP3
Synonyms:VAM8, VPS18, VPT18
Ordered Locus Names:YLR148W
ORF Names:L9634.2
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR148W.
SGDiS000004138. PEP3.

Subcellular locationi

GO - Cellular componenti

  • CORVET complex Source: SGD
  • cytosol Source: GOC
  • extrinsic component of vacuolar membrane Source: SGD
  • fungal-type vacuole membrane Source: SGD
  • HOPS complex Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Membrane, Vacuole

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000559931 – 918Vacuolar membrane protein PEP3Add BLAST918

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei907PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP27801.
PRIDEiP27801.

PTM databases

iPTMnetiP27801.

Interactioni

Subunit structurei

Component of the HOPS complex which is composed of PEP5, VPS16, PEP3, VPS33, VPS39 and VPS41. HOPS associates with phosphoinositides and the PX domain of VAM7. Interacts with PEP5, PEP7 and VAM7.2 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
PEP5P128687EBI-13130,EBI-6450
VPS33P207957EBI-13130,EBI-20395

GO - Molecular functioni

  • protein binding, bridging Source: SGD

Protein-protein interaction databases

BioGridi31417. 72 interactors.
DIPiDIP-5912N.
IntActiP27801. 15 interactors.
MINTiMINT-615177.

Structurei

Secondary structure

1918
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi3 – 9Combined sources7
Turni15 – 17Combined sources3
Beta strandi22 – 26Combined sources5
Beta strandi29 – 33Combined sources5
Beta strandi35 – 42Combined sources8
Beta strandi49 – 53Combined sources5
Beta strandi58 – 60Combined sources3
Beta strandi63 – 68Combined sources6
Beta strandi75 – 79Combined sources5
Beta strandi84 – 88Combined sources5
Beta strandi91 – 94Combined sources4
Helixi96 – 98Combined sources3
Beta strandi103 – 118Combined sources16
Beta strandi123 – 129Combined sources7
Beta strandi134 – 141Combined sources8
Beta strandi149 – 155Combined sources7
Beta strandi158 – 163Combined sources6
Beta strandi166 – 171Combined sources6
Beta strandi178 – 180Combined sources3
Beta strandi184 – 188Combined sources5
Beta strandi199 – 203Combined sources5
Beta strandi206 – 219Combined sources14
Turni237 – 240Combined sources4
Beta strandi242 – 245Combined sources4
Helixi246 – 248Combined sources3
Beta strandi260 – 265Combined sources6
Beta strandi267 – 274Combined sources8
Beta strandi277 – 282Combined sources6
Turni283 – 285Combined sources3
Beta strandi288 – 293Combined sources6
Beta strandi310 – 316Combined sources7
Turni317 – 320Combined sources4
Beta strandi321 – 328Combined sources8
Beta strandi330 – 337Combined sources8
Helixi338 – 346Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4UUYX-ray2.14A/B2-348[»]
ProteinModelPortaliP27801.
SMRiP27801.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Domains and Repeats

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Repeati585 – 741CHCRAdd BLAST157

Sequence similaritiesi

Belongs to the VPS18 family.Curated
Contains 1 CHCR (clathrin heavy-chain) repeat.PROSITE-ProRule annotation
Contains 1 RING-type zinc finger.Curated

Zinc finger

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Zinc fingeri826 – 851RING-type; atypicalAdd BLAST26

Keywords - Domaini

Zinc-finger

Phylogenomic databases

GeneTreeiENSGT00390000015233.
HOGENOMiHOG000001125.
InParanoidiP27801.
KOiK20181.
OMAiWYESLKI.
OrthoDBiEOG092C0I12.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR000547. Clathrin_H-chain/VPS_repeat.
IPR007810. Pep3_Vps18.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00637. Clathrin. 1 hit.
PF05131. Pep3_Vps18. 1 hit.
[Graphical view]
SMARTiSM00299. CLH. 1 hit.
[Graphical view]
PROSITEiPS50236. CHCR. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P27801-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIKTRIEEVQ LQFLTGNTEL THLKVSNDQL IVTTQRTIYR INLQDPAIVN
60 70 80 90 100
HFDCPLSKEL ETIMNVHVSP MGSVILIRTN FGRYMLLKDG EFTQLNKIKN
110 120 130 140 150
LDLSSLHWIN ETTFLMGIKK TPKLYRVELT GKDITTKLWY ENKKLSGGID
160 170 180 190 200
GIAYWEGSLL LTIKDNILYW RDVTNMKFPL VLPDESEQFE RLKHHAIKKF
210 220 230 240 250
DSYNGLFAWV TSNGIVFGDL KEKQMEKDPA SNNFGKFLSS SKVLLNFELP
260 270 280 290 300
DYQNDKDHLI KDIVLTAFHI LLLRKNTVTM VSQLNNDVVF HETIPRHQLT
310 320 330 340 350
GSNTDSNEKF LGLVRDSVKE TFWCFSNINV FEIIIENEPN SVWNLLVRDN
360 370 380 390 400
KFDKALSLKG LTVREIESVK LSKAMYLFHT AKDFHSAAQT LGSMKDLSHF
410 420 430 440 450
GEIALNFLQI KDYNDLNVIL IKQLDNVPWK STQVVLSSWI IWNFMKQLND
460 470 480 490 500
IELKINTTKP ASTDEDNLLN WNLNLKEKSN ELTKFLESHL EKLDNETVYQ
510 520 530 540 550
IMSKQNRQNE LLIFASLIND MKFLLSFWID QGNWYESLKI LLTINNHDLV
560 570 580 590 600
YKYSLILLLN SPEATVSTWM KIKDLDPNKL IPTILKFFTN WQNNSKLITN
610 620 630 640 650
ISEYPENYSL TYLKWCVREV PKMCNPIVYN SILYMMITDP RNDMILENDI
660 670 680 690 700
IKFMKSNENK YDLNFQLRLS LKFKKTKTSI FLLTRLNLFE DAIDLALKNN
710 720 730 740 750
LIDDCKVIVN DEILIEDYKL RKRLWLKIAK HLLLSMKDID IKQLIRTILN
760 770 780 790 800
DSNEILTIKD LLPFFNEYTT IANLKEELIK FLENHNMKMN EISEDIINSK
810 820 830 840 850
NLKVEINTEI SKFNEIYRIL EPGKSCDECG KFLQIKKFIV FPCGHCFHWN
860 870 880 890 900
CIIRVILNSN DYNLRQKTEN FLKAKSKHNL NDLENIIVEK CGLCSDININ
910
KIDQPISIDE TELAKWNE
Length:918
Mass (Da):107,398
Last modified:August 1, 1992 - v1
Checksum:i37AE3C34AE0470B8
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M65144 Genomic DNA. Translation: AAA34852.1.
Z73320 Genomic DNA. Translation: CAA97720.1.
U53879 Genomic DNA. Translation: AAB82382.1.
BK006945 Genomic DNA. Translation: DAA09459.1.
PIRiA41943.
RefSeqiNP_013249.1. NM_001182035.1.

Genome annotation databases

EnsemblFungiiYLR148W; YLR148W; YLR148W.
GeneIDi850840.
KEGGisce:YLR148W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
M65144 Genomic DNA. Translation: AAA34852.1.
Z73320 Genomic DNA. Translation: CAA97720.1.
U53879 Genomic DNA. Translation: AAB82382.1.
BK006945 Genomic DNA. Translation: DAA09459.1.
PIRiA41943.
RefSeqiNP_013249.1. NM_001182035.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
4UUYX-ray2.14A/B2-348[»]
ProteinModelPortaliP27801.
SMRiP27801.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31417. 72 interactors.
DIPiDIP-5912N.
IntActiP27801. 15 interactors.
MINTiMINT-615177.

PTM databases

iPTMnetiP27801.

Proteomic databases

MaxQBiP27801.
PRIDEiP27801.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLR148W; YLR148W; YLR148W.
GeneIDi850840.
KEGGisce:YLR148W.

Organism-specific databases

EuPathDBiFungiDB:YLR148W.
SGDiS000004138. PEP3.

Phylogenomic databases

GeneTreeiENSGT00390000015233.
HOGENOMiHOG000001125.
InParanoidiP27801.
KOiK20181.
OMAiWYESLKI.
OrthoDBiEOG092C0I12.

Enzyme and pathway databases

BioCyciYEAST:G3O-32284-MONOMER.

Miscellaneous databases

PROiP27801.

Family and domain databases

Gene3Di3.30.40.10. 1 hit.
InterProiIPR000547. Clathrin_H-chain/VPS_repeat.
IPR007810. Pep3_Vps18.
IPR013083. Znf_RING/FYVE/PHD.
[Graphical view]
PfamiPF00637. Clathrin. 1 hit.
PF05131. Pep3_Vps18. 1 hit.
[Graphical view]
SMARTiSM00299. CLH. 1 hit.
[Graphical view]
PROSITEiPS50236. CHCR. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiPEP3_YEAST
AccessioniPrimary (citable) accession number: P27801
Secondary accession number(s): D6VYE3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: August 1, 1992
Last sequence update: August 1, 1992
Last modified: November 2, 2016
This is version 152 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 2020 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 XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: 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.