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Protein

NEDD8-conjugating enzyme UBC12

Gene

UBC12

Organism
Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Status
Reviewed-Annotation score: -Experimental evidence at protein leveli

Functioni

Accepts the ubiquitin-like protein NEDD8/RUB1 from the UBA3-ULA1 E1 complex and catalyzes its covalent attachment to other proteins. The major substrate is CDC53/Cullin.1 Publication

Catalytic activityi

ATP + NEDD8 + protein lysine = AMP + diphosphate + protein N-NEDD8yllysine.

Pathwayi: protein neddylation

This protein is involved in the pathway protein neddylation, which is part of Protein modification.
View all proteins of this organism that are known to be involved in the pathway protein neddylation and in Protein modification.

Sites

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Active sitei115Glycyl thioester intermediatePROSITE-ProRule annotation1

GO - Molecular functioni

  • ATP binding Source: UniProtKB-KW
  • NEDD8 transferase activity Source: SGD

GO - Biological processi

  • protein neddylation Source: SGD

Keywordsi

Molecular functionTransferase
Biological processUbl conjugation pathway
LigandATP-binding, Nucleotide-binding

Enzyme and pathway databases

BioCyciYEAST:G3O-32394-MONOMER
ReactomeiR-SCE-8951664 Neddylation
R-SCE-983168 Antigen processing: Ubiquitination & Proteasome degradation
UniPathwayiUPA00885

Names & Taxonomyi

Protein namesi
Recommended name:
NEDD8-conjugating enzyme UBC12 (EC:2.3.2.-)
Alternative name(s):
RUB1-conjugating enzyme
Ubiquitin carrier protein 12
Gene namesi
Name:UBC12
Ordered Locus Names:YLR306W
ORF Names:L2142.3
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XII

Organism-specific databases

EuPathDBiFungiDB:YLR306W
SGDiS000004297 UBC12

Subcellular locationi

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00000825011 – 188NEDD8-conjugating enzyme UBC12Add BLAST188

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei1N-acetylmethionine1 Publication1

Post-translational modificationi

The acetylation of Met-1 is cotranslational, and not regulatory. The N-acetylmethionine increases affinity for DCUN1D1 by about 2 orders of magnitude and is crucial for NEDD8 transfer to cullins.1 Publication

Keywords - PTMi

Acetylation

Proteomic databases

MaxQBiP52491
PaxDbiP52491
PRIDEiP52491

PTM databases

iPTMnetiP52491

Interactioni

Subunit structurei

Interacts with DCN1.1 Publication

Binary interactionsi

WithEntry#Exp.IntActNotes
CUL1Q136162EBI-19772,EBI-359390From Homo sapiens.

Protein-protein interaction databases

BioGridi31571, 134 interactors
DIPiDIP-2051N
IntActiP52491, 7 interactors
MINTiP52491
STRINGi4932.YLR306W

Structurei

Secondary structure

1188
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Helixi1 – 19Combined sources19
Beta strandi20 – 22Combined sources3
Helixi27 – 37Combined sources11
Beta strandi45 – 51Combined sources7
Beta strandi63 – 68Combined sources6
Beta strandi71 – 73Combined sources3
Turni74 – 77Combined sources4
Beta strandi80 – 85Combined sources6
Turni88 – 92Combined sources5
Beta strandi96 – 99Combined sources4
Beta strandi112 – 114Combined sources3
Helixi117 – 119Combined sources3
Turni120 – 122Combined sources3
Helixi129 – 141Combined sources13
Helixi151 – 158Combined sources8
Helixi161 – 172Combined sources12

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3O2UX-ray2.00A/B1-188[»]
3TDIX-ray2.30C/D1-24[»]
ProteinModelPortaliP52491
SMRiP52491
ModBaseiSearch...
MobiDBiSearch...

Miscellaneous databases

EvolutionaryTraceiP52491

Family & Domainsi

Sequence similaritiesi

Belongs to the ubiquitin-conjugating enzyme family. UBC12 subfamily.PROSITE-ProRule annotation

Phylogenomic databases

GeneTreeiENSGT00630000089859
HOGENOMiHOG000233456
InParanoidiP52491
KOiK10579
OMAiMIKIWSM
OrthoDBiEOG092C5L1U

Family and domain databases

CDDicd00195 UBCc, 1 hit
Gene3Di3.10.110.10, 1 hit
InterProiView protein in InterPro
IPR000608 UBQ-conjugat_E2
IPR023313 UBQ-conjugating_AS
IPR016135 UBQ-conjugating_enzyme/RWD
PfamiView protein in Pfam
PF00179 UQ_con, 1 hit
SUPFAMiSSF54495 SSF54495, 1 hit
PROSITEiView protein in PROSITE
PS00183 UBIQUITIN_CONJUGAT_1, 1 hit
PS50127 UBIQUITIN_CONJUGAT_2, 1 hit

Sequencei

Sequence statusi: Complete.

P52491-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MLKLRQLQKK KQKENENSSS IQPNLSAARI RLKRDLDSLD LPPTVTLNVI
60 70 80 90 100
TSPDSADRSQ SPKLEVIVRP DEGYYNYGSI NFNLDFNEVY PIEPPKVVCL
110 120 130 140 150
KKIFHPNIDL KGNVCLNILR EDWSPALDLQ SIITGLLFLF LEPNPNDPLN
160 170 180
KDAAKLLCEG EKEFAEAVRL TMSGGSIEHV KYDNIVSP
Length:188
Mass (Da):21,203
Last modified:October 1, 1996 - v1
Checksum:iBEEECF40B82C4BAB
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
X99442 Genomic DNA Translation: CAA67805.1
U17247 Genomic DNA Translation: AAB67357.1
BK006945 Genomic DNA Translation: DAA09615.1
PIRiS51438
RefSeqiNP_013409.1, NM_001182194.1

Genome annotation databases

EnsemblFungiiYLR306W; YLR306W; YLR306W
GeneIDi851015
KEGGisce:YLR306W

Similar proteinsi

Entry informationi

Entry nameiUBC12_YEAST
AccessioniPrimary (citable) accession number: P52491
Secondary accession number(s): D6VYU9
Entry historyiIntegrated into UniProtKB/Swiss-Prot: October 1, 1996
Last sequence update: October 1, 1996
Last modified: May 23, 2018
This is version 155 of the entry and version 1 of the sequence. See complete history.
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

3D-structure, Complete proteome, Reference proteome

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