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Protein

Ubiquitin-like-conjugating enzyme ATG10

Gene

ATG10

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

E2-like enzyme required for the cytoplasm to vacuole transport (Cvt), autophagy and nucleophagy. Acts as an E2-like enzyme that catalyzes the conjugation of ATG12 to ATG5. ATG12 conjugation to ATG5 is required for proper localization of ATG8 to the preautophagosomal structure (PAS). Likely serves as an ATG5-recognition molecule.7 Publications

Sites

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Active sitei133 – 1331Glycyl thioester intermediate

GO - Molecular functioni

  1. Atg12 transferase activity Source: SGD
  2. ligase activity Source: UniProtKB-KW

GO - Biological processi

  1. cellular protein modification process Source: SGD
  2. CVT pathway Source: SGD
  3. late nucleophagy Source: SGD
  4. macroautophagy Source: SGD
  5. mitochondrion degradation Source: SGD
  6. piecemeal microautophagy of nucleus Source: SGD
Complete GO annotation...

Keywords - Molecular functioni

Ligase

Keywords - Biological processi

Autophagy, Protein transport, Transport, Ubl conjugation pathway

Enzyme and pathway databases

BioCyciYEAST:G3O-32143-MONOMER.

Names & Taxonomyi

Protein namesi
Recommended name:
Ubiquitin-like-conjugating enzyme ATG10 (EC:6.3.2.-)
Alternative name(s):
Autophagy-related protein 10
Gene namesi
Name:ATG10
Synonyms:APG10
Ordered Locus Names:YLL042C
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
ProteomesiUP000002311 Componenti: Chromosome XII

Organism-specific databases

CYGDiYLL042c.
EuPathDBiFungiDB:YLL042C.
SGDiS000003965. ATG10.

Subcellular locationi

  1. Preautophagosomal structure membrane 1 Publication; Peripheral membrane protein 1 Publication

GO - Cellular componenti

  1. pre-autophagosomal structure membrane Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Membrane

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Mutagenesisi26 – 261C → S: No effect on conjugating activity. Normal autophagic activity. 1 Publication
Mutagenesisi133 – 1331C → A: Complete loss of covalent binding to ATG12. 1 Publication
Mutagenesisi133 – 1331C → S: Strong decrease of binding to ATG12. No more formation of ATG12-ATG5 conjugate. Defect in autophagy. 1 Publication
Mutagenesisi137 – 1371C → S: No effect on conjugating activity. Normal autophagic activity. 1 Publication

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 167167Ubiquitin-like-conjugating enzyme ATG10PRO_0000096190Add
BLAST

Expressioni

Gene expression databases

GenevestigatoriQ07879.

Interactioni

Subunit structurei

Forms homooligomers. Interacts with ATG7 and ATG12.6 Publications

Protein-protein interaction databases

BioGridi31271. 38 interactions.
DIPiDIP-4842N.
IntActiQ07879. 2 interactions.
MINTiMINT-487830.
STRINGi4932.YLL042C.

Structurei

Secondary structure

1
167
Legend: HelixTurnBeta strand
Show more details
Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Helixi4 – 1613Combined sources
Turni17 – 226Combined sources
Beta strandi26 – 316Combined sources
Beta strandi33 – 364Combined sources
Beta strandi38 – 425Combined sources
Helixi46 – 549Combined sources
Beta strandi61 – 7010Combined sources
Turni71 – 744Combined sources
Beta strandi75 – 8814Combined sources
Beta strandi91 – 966Combined sources
Helixi99 – 1068Combined sources
Turni107 – 1104Combined sources
Beta strandi115 – 1228Combined sources
Beta strandi125 – 1295Combined sources
Helixi135 – 1373Combined sources
Helixi146 – 1494Combined sources
Helixi150 – 1578Combined sources
Helixi159 – 1624Combined sources

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4EBRX-ray2.70A/B1-167[»]
4GSKX-ray2.90Y/Z1-167[»]
ProteinModelPortaliQ07879.
SMRiQ07879. Positions 1-165.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Sequence similaritiesi

Belongs to the ATG10 family.Curated

Phylogenomic databases

eggNOGiNOG70099.
InParanoidiQ07879.
KOiK08338.
OrthoDBiEOG7FBRXB.

Family and domain databases

InterProiIPR016524. Autophagy-rel_prot_10.
IPR007135. Autophagy-rel_prot_3.
[Graphical view]
PfamiPF03987. Autophagy_act_C. 1 hit.
[Graphical view]
PIRSFiPIRSF007802. Autophagy-rel_ATG10. 1 hit.

Sequencei

Sequence statusi: Complete.

Q07879-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MIPYQEWHSQ LQSLYDSQIF HNWALCQDVH LNDEKDGLLL RLIPTRQLQK
60 70 80 90 100
NTERIENKLL NHIELYLTYS KVYNEPLLLL RIWEEKSIDG IPMTKLMLPT
110 120 130 140 150
DIESLLDVQG KFQLGLDTII NLEGSVWYSF HPCDTSCIVG DQAEFMSTYL
160
RRWVSIFIFS WLGYEDS
Length:167
Mass (Da):19,760
Last modified:November 1, 1996 - v1
Checksum:i9B90684B8D3D26C5
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z73147 Genomic DNA. Translation: CAA97493.1.
AY558190 Genomic DNA. Translation: AAS56516.1.
BK006945 Genomic DNA. Translation: DAA09280.1.
PIRiS64794.
RefSeqiNP_013058.1. NM_001181862.1.

Genome annotation databases

EnsemblFungiiYLL042C; YLL042C; YLL042C.
GeneIDi850684.
KEGGisce:YLL042C.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
Z73147 Genomic DNA. Translation: CAA97493.1.
AY558190 Genomic DNA. Translation: AAS56516.1.
BK006945 Genomic DNA. Translation: DAA09280.1.
PIRiS64794.
RefSeqiNP_013058.1. NM_001181862.1.

3D structure databases

Select the link destinations:
PDBei
RCSB PDBi
PDBji
Links Updated
EntryMethodResolution (Å)ChainPositionsPDBsum
4EBRX-ray2.70A/B1-167[»]
4GSKX-ray2.90Y/Z1-167[»]
ProteinModelPortaliQ07879.
SMRiQ07879. Positions 1-165.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi31271. 38 interactions.
DIPiDIP-4842N.
IntActiQ07879. 2 interactions.
MINTiMINT-487830.
STRINGi4932.YLL042C.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYLL042C; YLL042C; YLL042C.
GeneIDi850684.
KEGGisce:YLL042C.

Organism-specific databases

CYGDiYLL042c.
EuPathDBiFungiDB:YLL042C.
SGDiS000003965. ATG10.

Phylogenomic databases

eggNOGiNOG70099.
InParanoidiQ07879.
KOiK08338.
OrthoDBiEOG7FBRXB.

Enzyme and pathway databases

BioCyciYEAST:G3O-32143-MONOMER.

Miscellaneous databases

NextBioi966689.
PROiQ07879.

Gene expression databases

GenevestigatoriQ07879.

Family and domain databases

InterProiIPR016524. Autophagy-rel_prot_10.
IPR007135. Autophagy-rel_prot_3.
[Graphical view]
PfamiPF03987. Autophagy_act_C. 1 hit.
[Graphical view]
PIRSFiPIRSF007802. Autophagy-rel_ATG10. 1 hit.
ProtoNetiSearch...

Publicationsi

« Hide 'large scale' publications
  1. "The nucleotide sequence of Saccharomyces cerevisiae chromosome XII."
    Johnston M., Hillier L.W., Riles L., Albermann K., Andre B., Ansorge W., Benes V., Brueckner M., Delius H., Dubois E., Duesterhoeft A., Entian K.-D., Floeth M., Goffeau A., Hebling U., Heumann K., Heuss-Neitzel D., Hilbert H.
    , Hilger F., Kleine K., Koetter P., Louis E.J., Messenguy F., Mewes H.-W., Miosga T., Moestl D., Mueller-Auer S., Nentwich U., Obermaier B., Piravandi E., Pohl T.M., Portetelle D., Purnelle B., Rechmann S., Rieger M., Rinke M., Rose M., Scharfe M., Scherens B., Scholler P., Schwager C., Schwarz S., Underwood A.P., Urrestarazu L.A., Vandenbol M., Verhasselt P., Vierendeels F., Voet M., Volckaert G., Voss H., Wambutt R., Wedler E., Wedler H., Zimmermann F.K., Zollner A., Hani J., Hoheisel J.D.
    Nature 387:87-90(1997) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: ATCC 204508 / S288c.
  2. Cited for: GENOME REANNOTATION.
    Strain: ATCC 204508 / S288c.
  3. Cited for: NUCLEOTIDE SEQUENCE [GENOMIC DNA].
  4. "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.
  5. 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: FUNCTION, INTERACTION WITH ATG7 AND ATG12, MUTAGENESIS OF CYS-26; CYS-133 AND CYS-137.
  7. "The pre-autophagosomal structure organized by concerted functions of APG genes is essential for autophagosome formation."
    Suzuki K., Kirisako T., Kamada Y., Mizushima N., Noda T., Ohsumi Y.
    EMBO J. 20:5971-5981(2001) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  8. Cited for: NOMENCLATURE.
  9. "Structure-function relationship of Atg12, a ubiquitin-like modifier essential for autophagy."
    Hanada T., Ohsumi Y.
    Autophagy 1:110-118(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ATG12.
  10. "Crystallization and preliminary X-ray analysis of Atg10."
    Yamaguti M., Suzuki N.N., Fujioka Y., Ohsumi Y., Inagaki F.
    Acta Crystallogr. F 63:443-445(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: CRYSTALLIZATION.
  11. "Hierarchy of Atg proteins in pre-autophagosomal structure organization."
    Suzuki K., Kubota Y., Sekito T., Ohsumi Y.
    Genes Cells 12:209-218(2007) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBCELLULAR LOCATION.
  12. "In vivo reconstitution of autophagy in Saccharomyces cerevisiae."
    Cao Y., Cheong H., Song H., Klionsky D.J.
    J. Cell Biol. 182:703-713(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  13. "Piecemeal microautophagy of the nucleus requires the core macroautophagy genes."
    Krick R., Muehe Y., Prick T., Bremer S., Schlotterhose P., Eskelinen E.L., Millen J., Goldfarb D.S., Thumm M.
    Mol. Biol. Cell 19:4492-4505(2008) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  14. "Purification and characterization of a ubiquitin-like system for autophagosome formation."
    Bae J.Y., Park H.H.
    J. Microbiol. Biotechnol. 20:1647-1652(2010) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBUNIT.
  15. "Noncanonical E2 recruitment by the autophagy E1 revealed by Atg7-Atg3 and Atg7-Atg10 structures."
    Kaiser S.E., Mao K., Taherbhoy A.M., Yu S., Olszewski J.L., Duda D.M., Kurinov I., Deng A., Fenn T.D., Klionsky D.J., Schulman B.A.
    Nat. Struct. Mol. Biol. 19:1242-1249(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ATG7.
  16. "Insights into noncanonical E1 enzyme activation from the structure of autophagic E1 Atg7 with Atg8."
    Hong S.B., Kim B.W., Lee K.E., Kim S.W., Jeon H., Kim J., Song H.K.
    Nat. Struct. Mol. Biol. 18:1323-1330(2011) [PubMed] [Europe PMC] [Abstract]
    Cited for: INTERACTION WITH ATG7.
  17. "A late form of nucleophagy in Saccharomyces cerevisiae."
    Mijaljica D., Prescott M., Devenish R.J.
    PLoS ONE 7:E40013-E40013(2012) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION.
  18. Cited for: X-RAY CRYSTALLOGRAPHY (2.7 ANGSTROMS), INTERACTION WITH ATG7.

Entry informationi

Entry nameiATG10_YEAST
AccessioniPrimary (citable) accession number: Q07879
Secondary accession number(s): D6VXW4
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2005
Last sequence update: November 1, 1996
Last modified: April 29, 2015
This is version 99 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 XII
    Yeast (Saccharomyces cerevisiae) chromosome XII: entries and gene names

External Data

Dasty 3

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 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.