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Protein

Ubiquitin-like protein ATG12

Gene

ATG12

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

Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt), autophagy vesicles formation, mitophagy, and nucleophagy. Conjugation with ATG5 through a ubiquitin-like conjugating system involving also ATG7 as an E1-like activating enzyme and ATG10 as an E2-like conjugating enzyme, is essential for its function. The ATG12-ATG5 conjugate acts as an E3-like enzyme which is required for lipidation of ATG8 and ATG8 association to the vesicle membranes. ATG12-ATG5 rearranges the ATG3 catalytic center and enhances its E2 activity.14 Publications

GO - Molecular functioni

  • enzyme activator activity Source: SGD
  • protein tag Source: SGD

GO - Biological processi

  • autophagosome assembly Source: SGD
  • C-terminal protein lipidation Source: SGD
  • CVT pathway Source: SGD
  • late nucleophagy Source: SGD
  • mitophagy Source: SGD
  • piecemeal microautophagy of nucleus Source: SGD
Complete GO annotation...

Keywords - Biological processi

Autophagy, Protein transport, Transport, Ubl conjugation pathway

Enzyme and pathway databases

BioCyciYEAST:G3O-29154-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-like protein ATG12
Alternative name(s):
Autophagy-related protein 12
Gene namesi
Name:ATG12
Synonyms:APG12
Ordered Locus Names:YBR217W
ORF Names:YBR1506
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome II

Organism-specific databases

EuPathDBiFungiDB:YBR217W.
SGDiS000000421. ATG12.

Subcellular locationi

GO - Cellular componenti

  • Atg12-Atg5-Atg16 complex Source: SGD
  • pre-autophagosomal structure Source: SGD
  • pre-autophagosomal structure membrane Source: GO_Central
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi106I → A: Decreases protein stability. 1 Publication1
Mutagenesisi108F → A: Decreases protein stability. 1 Publication1
Mutagenesisi149Y → A: Impairs conjugation to ATG5 and autophagic activity. 1 Publication1
Mutagenesisi154F → A: Impairs conjugation to ATG5 and autophagic activity. 1 Publication1
Mutagenesisi186G → A: Strong decrease of conjugation with ATG5. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00002124851 – 186Ubiquitin-like protein ATG12Add BLAST186

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Cross-linki186Glycyl lysine isopeptide (Gly-Lys) (interchain with K-149 in ATG5)

Keywords - PTMi

Isopeptide bond, Phosphoprotein

Interactioni

Subunit structurei

Forms a conjugate with ATG5. Forms a thioester bond with the 'Cys-133' of ATG10. Interacts with the ATG7 C-terminal 40 amino acids domain. The ATG12-ATG5 conjugate forms a complex with several units of ATG16. The ATG12-ATG5 conjugate associates also with ATG3. Interacts with COG2.7 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
ATG16Q0381811EBI-2692,EBI-27344
ATG5Q1238010EBI-2692,EBI-2664
ATG7P388623EBI-2692,EBI-2677

Protein-protein interaction databases

BioGridi32914. 74 interactors.
DIPiDIP-1189N.
IntActiP38316. 62 interactors.
MINTiMINT-388309.

Structurei

Secondary structure

1186
Legend: HelixTurnBeta strandPDB Structure known for this area
Show more details
Feature keyPosition(s)DescriptionActionsGraphical viewLength
Beta strandi103 – 110Combined sources8
Beta strandi121 – 125Combined sources5
Helixi130 – 141Combined sources12
Beta strandi147 – 150Combined sources4
Turni151 – 153Combined sources3
Helixi162 – 169Combined sources8
Beta strandi174 – 180Combined sources7

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3W1SX-ray2.60C100-186[»]
ProteinModelPortaliP38316.
SMRiP38316.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ATG12 family.Curated

Phylogenomic databases

HOGENOMiHOG000234863.
InParanoidiP38316.
KOiK08336.
OMAiCYINNSF.
OrthoDBiEOG092C5K82.

Family and domain databases

CDDicd01612. APG12_C. 1 hit.
InterProiIPR007242. Atg12.
IPR029071. Ubiquitin-rel_dom.
[Graphical view]
PANTHERiPTHR13385. PTHR13385. 1 hit.
PfamiPF04110. APG12. 1 hit.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 1 hit.

Sequencei

Sequence statusi: Complete.

P38316-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MSRILESENE TESDESSIIS TNNGTAMERS RNNQELRSSP HTVQNRLELF
60 70 80 90 100
SRRLSQLGLA SDISVDQQVE DSSSGTYEQE ETIKTNAQTS KQKSHKDEKN
110 120 130 140 150
IQKIQIKFQP IGSIGQLKPS VCKISMSQSF AMVILFLKRR LKMDHVYCYI
160 170 180
NNSFAPSPQQ NIGELWMQFK TNDELIVSYC ASVAFG
Length:186
Mass (Da):21,106
Last modified:October 1, 1994 - v1
Checksum:i74B3C9FD3CEA9265
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB017924 Genomic DNA. Translation: BAA33473.1.
Z36086 Genomic DNA. Translation: CAA85181.1.
AY557706 Genomic DNA. Translation: AAS56032.1.
BK006936 Genomic DNA. Translation: DAA07333.1.
PIRiS46093.
RefSeqiNP_009776.1. NM_001178565.1.

Genome annotation databases

EnsemblFungiiYBR217W; YBR217W; YBR217W.
GeneIDi852518.
KEGGisce:YBR217W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AB017924 Genomic DNA. Translation: BAA33473.1.
Z36086 Genomic DNA. Translation: CAA85181.1.
AY557706 Genomic DNA. Translation: AAS56032.1.
BK006936 Genomic DNA. Translation: DAA07333.1.
PIRiS46093.
RefSeqiNP_009776.1. NM_001178565.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
PDB entryMethodResolution (Å)ChainPositionsPDBsum
3W1SX-ray2.60C100-186[»]
ProteinModelPortaliP38316.
SMRiP38316.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi32914. 74 interactors.
DIPiDIP-1189N.
IntActiP38316. 62 interactors.
MINTiMINT-388309.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYBR217W; YBR217W; YBR217W.
GeneIDi852518.
KEGGisce:YBR217W.

Organism-specific databases

EuPathDBiFungiDB:YBR217W.
SGDiS000000421. ATG12.

Phylogenomic databases

HOGENOMiHOG000234863.
InParanoidiP38316.
KOiK08336.
OMAiCYINNSF.
OrthoDBiEOG092C5K82.

Enzyme and pathway databases

BioCyciYEAST:G3O-29154-MONOMER.

Miscellaneous databases

PROiP38316.

Family and domain databases

CDDicd01612. APG12_C. 1 hit.
InterProiIPR007242. Atg12.
IPR029071. Ubiquitin-rel_dom.
[Graphical view]
PANTHERiPTHR13385. PTHR13385. 1 hit.
PfamiPF04110. APG12. 1 hit.
[Graphical view]
SUPFAMiSSF54236. SSF54236. 1 hit.
ProtoNetiSearch...

Entry informationi

Entry nameiATG12_YEAST
AccessioniPrimary (citable) accession number: P38316
Secondary accession number(s): D6VQL3
Entry historyi
Integrated into UniProtKB/Swiss-Prot: October 1, 1994
Last sequence update: October 1, 1994
Last modified: November 2, 2016
This is version 141 of the entry and version 1 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programFungal Protein Annotation Program

Miscellaneousi

Miscellaneous

Small amount of ATG5-ATG12 conjugate is enough to perform normal autophagy.

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 II
    Yeast (Saccharomyces cerevisiae) chromosome II: 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.