Ubiquitin-like protein ATG12 - Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)

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P38316 (ATG12_YEAST) Reviewed, UniProtKB/Swiss-Prot

Last modified May 1, 2013. Version 111. History...

Clusters with 100%, 90%, 50% identity |

Documents (4) |

Third-party data

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Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents Customize order

Names and origin

Protein names

Recommended name:
Ubiquitin-like protein ATG12

Alternative name(s):
Autophagy-related protein 12

Gene names

Name:	ATG12
Synonyms:	APG12
Ordered Locus Names:	YBR217W
ORF Names:	YBR1506

Organism

Saccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast) [Reference proteome]

Taxonomic identifier

559292 [NCBI]

Taxonomic lineage

Eukaryota › Fungi › Dikarya › Ascomycota › Saccharomycotina › Saccharomycetes › Saccharomycetales › Saccharomycetaceae › Saccharomyces ›

Protein attributes

Sequence length	186 AA.
Sequence status	Complete.
Protein existence	Evidence at protein level

General annotation (Comments)

Function	Ubiquitin-like protein involved in cytoplasm to vacuole transport (Cvt) and autophagy vesicles formation. Conjugation with ATG5 through an 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. Required for ATG8 association to the vesicle membranes. Forms a thioester bond with the 'Cys-133' of ATG10. Ref.1 Ref.5 Ref.9
Subunit structure	Interacts with the ATG7 C-terminal 40 amino acids domain. The ATG5-ATG12 conjugate forms a complex with several units of ATG16. Ref.6 Ref.7 Ref.8 Ref.10
Subcellular location	Cytoplasm Probable Ref.1.
Miscellaneous	Small amount of ATG5-ATG12 conjugate is enough to perform normal autophagy.
Sequence similarities	Belongs to the ATG12 family.

Ontologies

Keywords
Biological process	Autophagy Protein transport Transport Ubl conjugation pathway
Cellular component	Cytoplasm
PTM	Isopeptide bond Phosphoprotein
Technical term	3D-structure Complete proteome Reference proteome
Gene Ontology (GO)
Biological_process	C-terminal protein lipidation Inferred from direct assay PubMed 17986448. Source: SGD CVT pathway Inferred from mutant phenotype Ref.1. Source: SGD autophagic vacuole assembly Inferred from mutant phenotype PubMed 16874032. Source: SGD mitochondrion degradation Inferred from mutant phenotype PubMed 19793921. Source: SGD piecemeal microautophagy of nucleus Inferred from mutant phenotype PubMed 18701704. Source: SGD
Cellular_component	Atg12-Atg5-Atg16 complex Inferred from direct assay Ref.10. Source: SGD pre-autophagosomal structure Inferred by curator Ref.10. Source: SGD
Molecular_function	protein tag Inferred from physical interaction Ref.7 Ref.6 Ref.1. Source: SGD
Complete GO annotation...

Binary interactions

With	Entry	#Exp.	IntAct
ATG16	Q03818	10	EBI-2692,EBI-27344
ATG5	Q12380	8	EBI-2692,EBI-2664
ATG7	P38862	3	EBI-2692,EBI-2677

Sequence annotation (Features)

Feature key

Position(s)

Length

Description

Graphical view

Feature identifier

Molecule processing

Chain

1 – 186

186

Ubiquitin-like protein ATG12

PRO_0000212485

Amino acid modifications

Modified residue

Phosphoserine Ref.12

Cross-link

186

Glycyl lysine isopeptide (Gly-Lys) (interchain with K-149 in ATG5)

Experimental info

Mutagenesis

186

G → A: Strong decrease of conjugation with ATG5. Ref.1

Secondary structure

186

Helix Strand Turn

Details...

Sequences

Sequence

Length

Mass (Da)

Tools

P38316 [UniParc].

Last modified October 1, 1994. Version 1.
Checksum: 74B3C9FD3CEA9265
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FASTA

186

21,106

        10         20         30         40         50         60 
MSRILESENE TESDESSIIS TNNGTAMERS RNNQELRSSP HTVQNRLELF SRRLSQLGLA 

        70         80         90        100        110        120 
SDISVDQQVE DSSSGTYEQE ETIKTNAQTS KQKSHKDEKN IQKIQIKFQP IGSIGQLKPS 

       130        140        150        160        170        180 
VCKISMSQSF AMVILFLKRR LKMDHVYCYI NNSFAPSPQQ NIGELWMQFK TNDELIVSYC 


ASVAFG

« Hide

References

	« Hide 'large scale' referencesShow 'large scale' references »
[1]	"A protein conjugation system essential for autophagy." Mizushima N., Noda T., Yoshimori T., Tanaka Y., Ishii T., George M.D., Klionsky D.J., Ohsumi M., Ohsumi Y. Nature 395:395-398(1998) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA], FUNCTION, PHOSPHORYLATION, CONJUGATION TO ATG5, SUBCELLULAR LOCATION, MUTAGENESIS OF GLY-186. Strain: ATCC 26109 / X2180.
[2]	"Complete DNA sequence of yeast chromosome II." Feldmann H., Aigle M., Aljinovic G., Andre B., Baclet M.C., Barthe C., Baur A., Becam A.-M., Biteau N., Boles E., Brandt T., Brendel M., Brueckner M., Bussereau F., Christiansen C., Contreras R., Crouzet M., Cziepluch C. Kleine K. EMBO J. 13:5795-5809(1994) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[3]	Saccharomyces Genome Database Submitted (DEC-2009) to the EMBL/GenBank/DDBJ databases Cited for: GENOME REANNOTATION. Strain: ATCC 204508 / S288c.
[4]	"Approaching a complete repository of sequence-verified protein-encoding clones for Saccharomyces cerevisiae." Hu Y., Rolfs A., Bhullar B., Murthy T.V.S., Zhu C., Berger M.F., Camargo A.A., Kelley F., McCarron S., Jepson D., Richardson A., Raphael J., Moreira D., Taycher E., Zuo D., Mohr S., Kane M.F., Williamson J. LaBaer J. Genome Res. 17:536-543(2007) [PubMed] [Europe PMC] [Abstract] Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA]. Strain: ATCC 204508 / S288c.
[5]	"Isolation and characterization of autophagy-defective mutants of Saccharomyces cerevisiae." Tsukada M., Ohsumi Y. FEBS Lett. 333:169-174(1993) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[6]	"Apg10p, a novel protein-conjugating enzyme essential for autophagy in yeast." Shintani T., Mizushima N., Ogawa Y., Matsuura A., Noda T., Ohsumi Y. EMBO J. 18:5234-5241(1999) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH ATG10.
[7]	"Apg7p/Cvt2p: a novel protein-activating enzyme essential for autophagy." Tanida I., Mizushima N., Kiyooka M., Ohsumi M., Ueno T., Ohsumi Y., Kominami E. Mol. Biol. Cell 10:1367-1379(1999) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH ATG7.
[8]	"The C-terminal region of an Apg7p/Cvt2p is required for homodimerization and is essential for its E1 activity and E1-E2 complex formation." Komatsu M., Tanida I., Ueno T., Ohsumi M., Ohsumi Y., Kominami E. J. Biol. Chem. 276:9846-9854(2001) [PubMed] [Europe PMC] [Abstract] Cited for: INTERACTION WITH ATG7.
[9]	"Membrane recruitment of Aut7p in the autophagy and cytoplasm to vacuole targeting pathways requires Aut1p, Aut2p, and the autophagy conjugation complex." Kim J., Huang W.-P., Klionsky D.J. J. Cell Biol. 152:51-64(2001) [PubMed] [Europe PMC] [Abstract] Cited for: FUNCTION.
[10]	"Formation of the approximately 350-kDa Apg12-Apg5.Apg16 multimeric complex, mediated by Apg16 oligomerization, is essential for autophagy in yeast." Kuma A., Mizushima N., Ishihara N., Ohsumi Y. J. Biol. Chem. 277:18619-18625(2002) [PubMed] [Europe PMC] [Abstract] Cited for: IDENTIFICATION IN A COMPLEX WITH ATG5 AND ATG16.
[11]	"A unified nomenclature for yeast autophagy-related genes." Klionsky D.J., Cregg J.M., Dunn W.A. Jr., Emr S.D., Sakai Y., Sandoval I.V., Sibirny A., Subramani S., Thumm M., Veenhuis M., Ohsumi Y. Dev. Cell 5:539-545(2003) [PubMed] [Europe PMC] [Abstract] Cited for: NOMENCLATURE.
[12]	"A multidimensional chromatography technology for in-depth phosphoproteome analysis." Albuquerque C.P., Smolka M.B., Payne S.H., Bafna V., Eng J., Zhou H. Mol. Cell. Proteomics 7:1389-1396(2008) [PubMed] [Europe PMC] [Abstract] Cited for: PHOSPHORYLATION [LARGE SCALE ANALYSIS] AT SER-55, MASS SPECTROMETRY.
+	Additional computationally mapped references.

Cross-references

Sequence databases

EMBL
GenBank
DDBJ

AB017924 Genomic DNA. Translation: BAA33473.1.
Z36086 Genomic DNA. Translation: CAA85181.1.
AY557706 Genomic DNA. Translation: AAS56032.1.
BK006936 Genomic DNA. Translation: DAA07333.1.

PIR

S46093.

RefSeq

NP_009776.1. NM_001178565.1.

3D structure databases

PDBe
RCSB PDB
PDBj

Entry	Method	Resolution (Å)	Chain	Positions	PDBsum
3W1S	X-ray	2.60	C	100-186	[»]

ProteinModelPortal

P38316.

SMR

P38316. Positions 101-181.

ModBase

Search...

Protein-protein interaction databases

DIP

DIP-1189N.

IntAct

P38316. 105 interactions.

MINT

MINT-388309.

STRING

4932.YBR217W.

Protocols and materials databases

StructuralBiologyKnowledgebase

Search...

Genome annotation databases

EnsemblFungi

YBR217W; YBR217W; YBR217W.

GeneID

852518.

KEGG

sce:YBR217W.

Organism-specific databases

CYGD

YBR217w.

SGD

S000000421. ATG12.

Phylogenomic databases

eggNOG

NOG236266.

GeneTree

ENSGT00390000016654.

HOGENOM

HOG000234863.

K08336.

OMA

ELIVSYC.

OrthoDB

EOG4B2X6W.

Gene expression databases

Genevestigator

P38316.

GermOnline

YBR217W. Saccharomyces cerevisiae.

Family and domain databases

InterPro

IPR007242. Atg12.
[Graphical view]

PANTHER

PTHR13385. PTHR13385. 1 hit.

Pfam

PF04110. APG12. 1 hit.
[Graphical view]

ProtoNet

Search...

Other

NextBio

971550.

Entry information

Entry name

ATG12_YEAST

Accession

Primary (citable) accession number: P38316
Secondary accession number(s): D6VQL3

Entry history

Integrated into UniProtKB/Swiss-Prot:	October 1, 1994
Last sequence update:	October 1, 1994
Last modified:	May 1, 2013
This is version 111 of the entry and version 1 of the sequence. [Complete history]

Entry status

Reviewed (UniProtKB/Swiss-Prot)

Annotation program

Fungal Protein Annotation Program

Relevant documents

Yeast

Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD

Yeast chromosome II

Yeast (Saccharomyces cerevisiae) chromosome II: entries and gene names

PDB cross-references

Index of Protein Data Bank (PDB) cross-references

SIMILARITY comments

Index of protein domains and families

Names·Attributes·General annotation·Ontologies·Interactions·Sequence annotation·Sequences·References·Cross-refs·Entry info·Documents

Preferred order of sections

Names and origin

Protein attributes

General annotation (Comments)

Ontologies

Binary interactions

With

Entry

#Exp.

IntAct

Notes

Sequence annotation (Features)

Molecule processing

Amino acid modifications

Experimental info

Secondary structure

Sequences

References

Cross-references

Sequence databases

3D structure databases

Protein-protein interaction databases

Protocols and materials databases

Genome annotation databases

Organism-specific databases

Phylogenomic databases

Gene expression databases

Family and domain databases

Other

Entry information

Relevant documents