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Protein

Ubiquitin fusion degradation protein 1

Gene

UFD1

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

Functions at a post-ubiquitation step in the ubiquitin fusion degradation (UFD) pathway. Has a role in the endoplasmic reticulum-associated degradation (ERAD) pathway. Required for the proteasome-dependent processing/activation of MGA2 and SPT23 transcription factors leading to the subsequent expression of OLE1. Has an additional role in the turnover of OLE1 where it targets ubiquitinated OLE1 and other proteins to the ERAD.4 Publications

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Sitei37Monoubiquitin-binding1
Sitei39Monoubiquitin-binding1
Sitei109Monoubiquitin-binding1

GO - Molecular functioni

  • polyubiquitin binding Source: SGD
  • ubiquitin binding Source: SGD

GO - Biological processi

  • cytoplasm-associated proteasomal ubiquitin-dependent protein catabolic process Source: SGD
  • ER-associated misfolded protein catabolic process Source: SGD
  • ER-associated ubiquitin-dependent protein catabolic process Source: SGD
  • negative regulation of telomerase activity Source: SGD
  • nonfunctional rRNA decay Source: SGD
  • positive regulation of protein localization to nucleus Source: SGD
  • proteasome-mediated ubiquitin-dependent protein catabolic process Source: SGD
  • retrograde protein transport, ER to cytosol Source: SGD
  • ribosome-associated ubiquitin-dependent protein catabolic process Source: SGD
Complete GO annotation...

Keywords - Biological processi

Ubl conjugation pathway

Enzyme and pathway databases

BioCyciYEAST:G3O-30766-MONOMER.
ReactomeiR-SCE-110320. Translesion Synthesis by POLH.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin fusion degradation protein 1
Short name:
UB fusion protein 1
Alternative name(s):
Polymerase-interacting protein 3
Gene namesi
Name:UFD1
Synonyms:PIP3
Ordered Locus Names:YGR048W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome VII

Organism-specific databases

EuPathDBiFungiDB:YGR048W.
SGDiS000003280. UFD1.

Subcellular locationi

GO - Cellular componenti

  • Doa10p ubiquitin ligase complex Source: SGD
  • Hrd1p ubiquitin ligase ERAD-L complex Source: SGD
  • nucleus Source: SGD
  • RQC complex Source: SGD
  • VCP-NPL4-UFD1 AAA ATPase complex Source: SGD
Complete GO annotation...

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi94V → D in UFD1-1; grows more slowly. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001949891 – 361Ubiquitin fusion degradation protein 1Add BLAST361

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei354PhosphoserineCombined sources1

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiP53044.
PRIDEiP53044.

PTM databases

iPTMnetiP53044.

Interactioni

Subunit structurei

Component of the HRD1 complex which contains HRD1, HRD3, USA1, DER1, YOS9, CDC48, NPL4, UFD1 AND UBX2/SEL1. The complex is composed of the core membrane complex, consisting of the E3 ligase HRD1 and its cofactors HRD3, DER1 and USA1, the substrate recruiting factor YOS9, and the heterotrimeric UFD1-NPL4-CDC48/p97 (UNC) ATPase complex recruited by UBX2/SEL1. Interacts with NPL4, CDC48 AND UBX2.3 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
DER1P383073EBI-19997,EBI-5761
NPL4P3375511EBI-19997,EBI-12193
UBX2Q042285EBI-19997,EBI-27730

GO - Molecular functioni

  • polyubiquitin binding Source: SGD
  • ubiquitin binding Source: SGD

Protein-protein interaction databases

BioGridi33295. 78 interactors.
DIPiDIP-1476N.
IntActiP53044. 16 interactors.
MINTiMINT-393265.

Structurei

Secondary structure

1361
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi19 – 29Combined sources11
Helixi30 – 32Combined sources3
Turni35 – 37Combined sources3
Helixi40 – 44Combined sources5
Beta strandi45 – 50Combined sources6
Helixi52 – 60Combined sources9
Beta strandi69 – 72Combined sources4
Turni74 – 76Combined sources3
Beta strandi79 – 87Combined sources9
Beta strandi93 – 96Combined sources4
Helixi98 – 104Combined sources7
Beta strandi111 – 118Combined sources8
Beta strandi123 – 128Combined sources6
Helixi131 – 135Combined sources5
Helixi140 – 150Combined sources11
Beta strandi154 – 164Combined sources11
Beta strandi167 – 177Combined sources11
Beta strandi188 – 190Combined sources3
Beta strandi192 – 196Combined sources5

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZC1NMR-A1-208[»]
ProteinModelPortaliP53044.
SMRiP53044.
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP53044.

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni27 – 28Monoubiquitin-binding2
Regioni30 – 32Monoubiquitin-binding3
Regioni99 – 101Monoubiquitin-binding3

Sequence similaritiesi

Belongs to the UFD1 family.Curated

Phylogenomic databases

GeneTreeiENSGT00390000002408.
HOGENOMiHOG000212737.
InParanoidiP53044.
KOiK14016.
OMAiPQWMMES.
OrthoDBiEOG092C4VXI.

Family and domain databases

InterProiIPR004854. UFD1.
[Graphical view]
PANTHERiPTHR12555. PTHR12555. 1 hit.
PfamiPF03152. UFD1. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

P53044-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MFSGFSSFGG GNGFVNMPQT FEEFFRCYPI AMMNDRIRKD DANFGGKIFL
60 70 80 90 100
PPSALSKLSM LNIRYPMLFK LTANETGRVT HGGVLEFIAE EGRVYLPQWM
110 120 130 140 150
METLGIQPGS LLQISSTDVP LGQFVKLEPQ SVDFLDISDP KAVLENVLRN
160 170 180 190 200
FSTLTVDDVI EISYNGKTFK IKILEVKPES SSKSICVIET DLVTDFAPPV
210 220 230 240 250
GYVEPDYKAL KAQQDKEKKN SFGKGQVLDP SVLGQGSMST RIDYAGIANS
260 270 280 290 300
SRNKLSKFVG QGQNISGKAP KAEPKQDIKD MKITFDGEPA KLDLPEGQLF
310 320 330 340 350
FGFPMVLPKE DEESAAGSKS SEQNFQGQGI SLRKSNKRKT KSDHDSSKSK
360
APKSPEVIEI D
Length:361
Mass (Da):39,810
Last modified:October 1, 1996 - v1
Checksum:i198E0CD48B863B98
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U22153 Genomic DNA. Translation: AAC49023.1.
U17264 Genomic DNA. Translation: AAB46627.1.
DQ115391 Genomic DNA. Translation: AAZ22463.1.
Z72833 Genomic DNA. Translation: CAA97047.1.
AY692806 Genomic DNA. Translation: AAT92825.1.
BK006941 Genomic DNA. Translation: DAA08146.1.
PIRiS59814.
RefSeqiNP_011562.1. NM_001181177.1.

Genome annotation databases

EnsemblFungiiYGR048W; YGR048W; YGR048W.
GeneIDi852939.
KEGGisce:YGR048W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U22153 Genomic DNA. Translation: AAC49023.1.
U17264 Genomic DNA. Translation: AAB46627.1.
DQ115391 Genomic DNA. Translation: AAZ22463.1.
Z72833 Genomic DNA. Translation: CAA97047.1.
AY692806 Genomic DNA. Translation: AAT92825.1.
BK006941 Genomic DNA. Translation: DAA08146.1.
PIRiS59814.
RefSeqiNP_011562.1. NM_001181177.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
1ZC1NMR-A1-208[»]
ProteinModelPortaliP53044.
SMRiP53044.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi33295. 78 interactors.
DIPiDIP-1476N.
IntActiP53044. 16 interactors.
MINTiMINT-393265.

PTM databases

iPTMnetiP53044.

Proteomic databases

MaxQBiP53044.
PRIDEiP53044.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYGR048W; YGR048W; YGR048W.
GeneIDi852939.
KEGGisce:YGR048W.

Organism-specific databases

EuPathDBiFungiDB:YGR048W.
SGDiS000003280. UFD1.

Phylogenomic databases

GeneTreeiENSGT00390000002408.
HOGENOMiHOG000212737.
InParanoidiP53044.
KOiK14016.
OMAiPQWMMES.
OrthoDBiEOG092C4VXI.

Enzyme and pathway databases

BioCyciYEAST:G3O-30766-MONOMER.
ReactomeiR-SCE-110320. Translesion Synthesis by POLH.

Miscellaneous databases

EvolutionaryTraceiP53044.
PROiP53044.

Family and domain databases

InterProiIPR004854. UFD1.
[Graphical view]
PANTHERiPTHR12555. PTHR12555. 1 hit.
PfamiPF03152. UFD1. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiUFD1_YEAST
AccessioniPrimary (citable) accession number: P53044
Secondary accession number(s): D6VUI5, Q45U36
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: November 2, 2016
This is version 140 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 3530 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 VII
    Yeast (Saccharomyces cerevisiae) chromosome VII: 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.