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Protein

Vacuolar protein sorting-associated protein 53

Gene

VPS53

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

Involved in retrograde transport from early and late endosomes to late Golgi by linking the vesicle through the t-SNARE TGL1 to the Golgi, leading to the membrane fusion between late Golgi and endosomal vesicles.5 Publications

GO - Biological processi

  • cellular sphingolipid homeostasis Source: SGD
  • Golgi to vacuole transport Source: SGD
  • protein transport Source: UniProtKB-KW
  • retrograde transport, endosome to Golgi Source: SGD
Complete GO annotation...

Keywords - Biological processi

Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-31498-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Vacuolar protein sorting-associated protein 53
Gene namesi
Name:VPS53
Ordered Locus Names:YJL029C
ORF Names:J1258
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome X

Organism-specific databases

EuPathDBiFungiDB:YJL029C.
SGDiS000003566. VPS53.

Subcellular locationi

GO - Cellular componenti

  • cytosol Source: GOC
  • endosome membrane Source: UniProtKB-SubCell
  • GARP complex Source: SGD
  • Golgi apparatus Source: SGD
Complete GO annotation...

Keywords - Cellular componenti

Endosome, Golgi apparatus, Membrane

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002151931 – 822Vacuolar protein sorting-associated protein 53Add BLAST822

Proteomic databases

MaxQBiP47061.
PRIDEiP47061.

PTM databases

iPTMnetiP47061.

Interactioni

Subunit structurei

Component of the Golgi-associated retrograde protein (GARP) complex, also called VFT (VPS fifty-three) complex, composed of VPS51, VPS52, VPS53 and VPS54. Interacts also with TLG1, YPT6 and ARL1.5 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
ARL1P381163EBI-25828,EBI-2869
VPS52P399048EBI-25828,EBI-16418
VPS54Q1207110EBI-25828,EBI-36751

Protein-protein interaction databases

BioGridi33730. 83 interactors.
DIPiDIP-5902N.
IntActiP47061. 8 interactors.
MINTiMINT-619612.

Structurei

Secondary structure

1822
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi567 – 569Combined sources3
Helixi571 – 598Combined sources28
Beta strandi605 – 608Combined sources4
Helixi615 – 638Combined sources24
Helixi639 – 643Combined sources5
Helixi653 – 676Combined sources24
Helixi683 – 693Combined sources11
Helixi700 – 710Combined sources11
Helixi716 – 729Combined sources14
Helixi746 – 750Combined sources5
Helixi752 – 763Combined sources12
Helixi768 – 776Combined sources9

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3NS4X-ray2.90A554-822[»]
ProteinModelPortaliP47061.
SMRiP47061.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP47061.

Family & Domainsi

Coiled coil

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Coiled coili34 – 58Sequence analysisAdd BLAST25
Coiled coili460 – 484Sequence analysisAdd BLAST25

Sequence similaritiesi

Belongs to the VPS53 family.Curated

Keywords - Domaini

Coiled coil

Phylogenomic databases

GeneTreeiENSGT00390000015165.
HOGENOMiHOG000000812.
InParanoidiP47061.
KOiK20299.
OMAiMINTADY.
OrthoDBiEOG092C12WO.

Family and domain databases

InterProiIPR031745. Vps53_C.
IPR007234. Vps53_N.
[Graphical view]
PfamiPF16854. VPS53_C. 1 hit.
PF04100. Vps53_N. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P47061-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLEGTVDYDP LEDITNILFS KESLNNIDEL ISITRSYKKQ LQEDILKEEN
60 70 80 90 100
ELKEHPKNSA EIEASLRKVF QDFKETQDVS ASTELTISNL TEGISYLDIA
110 120 130 140 150
KKNLTHSLTL FQNLKILTDS YIQCNELLSQ GSFKKMVSPY KIMCSLAENT
160 170 180 190 200
FISYKSLDEI NYLLSSISRL KGDTLSKIKQ NYNALFSGGN ISEHDTALTM
210 220 230 240 250
ELREGACELL DCDTSTRAQM IDWCLDKLLF EMKEIFRVDD EAGSLENLSR
260 270 280 290 300
RYIYFKKILN NFNSKFADYF LKDWEMAVRL TTTFYHITHK DLQTLLKREF
310 320 330 340 350
KDKNPSIDLF MTALQSTLDF EKYIDVRFSK KIKEPKLSSC FEPYLTLWVS
360 370 380 390 400
HQNQMMEKKF LSYMSEPKYP SNETESLVLP SSADLFRTYR SVLTQTLELI
410 420 430 440 450
DNNANDSILT SLANFFSRWL QTYSQKILLP LLLPDNIEVQ DKLEAAKYTV
460 470 480 490 500
LLINTADYCA TTIDQLEDKL SEFSGNREKL ANSFTKTKNI YDDLLAKGTS
510 520 530 540 550
FLLNRVIPLD LNFVWREFIN NDWSNAAIED YSRYMVTLKS VLKMPALTDA
560 570 580 590 600
SIKQQQEQPS TLAFILSQFN RDVYKWNFLD KVIDIITTNF VSNTIRLLQP
610 620 630 640 650
VPPFSLAGSK RKFETRTVVN IGEQLLLDLE LLKEIFHTLP ESVSNDSDLR
660 670 680 690 700
ENTSYKRVKR HADNNIDQLL KFIKLLMAPL DSADDYYETY SKLTNNNPDS
710 720 730 740 750
AVWSFVLALK GIPWDLALWK KLWSAYNLET DDTDEGSRPD SNRDLFIFKW
760 770 780 790 800
DKVLLGQFEN NLARMQDPNW SKFVRQDLKI SPPVMKRIVS TPQIQQQKEE
810 820
QKKQSLSVKD FVSHSRFFNR GT
Length:822
Mass (Da):95,449
Last modified:February 1, 1996 - v1
Checksum:iC75F19FA57157481
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49304 Genomic DNA. Translation: CAA89320.1.
BK006943 Genomic DNA. Translation: DAA08769.1.
PIRiS56801.
RefSeqiNP_012505.1. NM_001181463.1.

Genome annotation databases

EnsemblFungiiYJL029C; YJL029C; YJL029C.
GeneIDi853423.
KEGGisce:YJL029C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z49304 Genomic DNA. Translation: CAA89320.1.
BK006943 Genomic DNA. Translation: DAA08769.1.
PIRiS56801.
RefSeqiNP_012505.1. NM_001181463.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3NS4X-ray2.90A554-822[»]
ProteinModelPortaliP47061.
SMRiP47061.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33730. 83 interactors.
DIPiDIP-5902N.
IntActiP47061. 8 interactors.
MINTiMINT-619612.

PTM databases

iPTMnetiP47061.

Proteomic databases

MaxQBiP47061.
PRIDEiP47061.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYJL029C; YJL029C; YJL029C.
GeneIDi853423.
KEGGisce:YJL029C.

Organism-specific databases

EuPathDBiFungiDB:YJL029C.
SGDiS000003566. VPS53.

Phylogenomic databases

GeneTreeiENSGT00390000015165.
HOGENOMiHOG000000812.
InParanoidiP47061.
KOiK20299.
OMAiMINTADY.
OrthoDBiEOG092C12WO.

Enzyme and pathway databases

BioCyciYEAST:G3O-31498-MONOMER.

Miscellaneous databases

EvolutionaryTraceiP47061.
PROiP47061.

Family and domain databases

InterProiIPR031745. Vps53_C.
IPR007234. Vps53_N.
[Graphical view]
PfamiPF16854. VPS53_C. 1 hit.
PF04100. Vps53_N. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiVPS53_YEAST
AccessioniPrimary (citable) accession number: P47061
Secondary accession number(s): D6VWF3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: February 1, 1996
Last sequence update: February 1, 1996
Last modified: November 2, 2016
This is version 118 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

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 X
    Yeast (Saccharomyces cerevisiae) chromosome X: 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.