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Protein

Autophagy-related protein 13

Gene

ATG13

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

Activates the ATG1 kinase in a nutritional condition dependent manner through the TOR pathway, leading to autophagy. Required for autophosphorylation of ATG1 at 'Thr-226' and its dimerization. May also be involved in the regulation of autophagy through SNF1. Involved in ATG9 and ATG23 cycling through the pre-autophagosomal structure. Also involved in cytoplasm to vacuole transport (Cvt) and more specifically in Cvt vesicle formation. Seems to play a role in the switching machinery regulating the conversion between the Cvt pathway and autophagy. Finally, ATG13 is also required for glycogen storage during stationary phase.23 Publications

GO - Molecular functioni

  • protein kinase regulator activity Source: SGD

GO - Biological processi

  • activation of protein kinase activity Source: SGD
  • autophagy Source: UniProtKB
  • CVT pathway Source: SGD
  • late nucleophagy Source: SGD
  • macroautophagy Source: SGD
  • mitophagy Source: SGD
  • piecemeal microautophagy of nucleus Source: SGD
  • protein localization to pre-autophagosomal structure Source: SGD
Complete GO annotation...

Keywords - Biological processi

Autophagy, Protein transport, Transport

Enzyme and pathway databases

BioCyciYEAST:G3O-34308-MONOMER.

Protein family/group databases

TCDBi9.A.15.1.1. the autophagy-related phagophore-formation transporter (apt) family.

Names & Taxonomyi

Protein namesi
Recommended name:
Autophagy-related protein 13
Gene namesi
Name:ATG13
Synonyms:APG13
Ordered Locus Names:YPR185W
OrganismiSaccharomyces cerevisiae (strain ATCC 204508 / S288c) (Baker's yeast)
Taxonomic identifieri559292 [NCBI]
Taxonomic lineageiEukaryotaFungiDikaryaAscomycotaSaccharomycotinaSaccharomycetesSaccharomycetalesSaccharomycetaceaeSaccharomyces
Proteomesi
  • UP000002311 Componenti: Chromosome XVI

Organism-specific databases

EuPathDBiFungiDB:YPR185W.
SGDiS000006389. ATG13.

Subcellular locationi

GO - Cellular componenti

  • ATG1/ULK1 kinase complex Source: SGD
  • extrinsic component of membrane Source: SGD
  • pre-autophagosomal structure Source: UniProtKB-SubCell
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

Pathology & Biotechi

Mutagenesis

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Mutagenesisi344S → A: Decreases phosphorylation by PKA. 1 Publication1
Mutagenesisi348S → A: Leads to constitutive activation of autophagy; when associated with A-437; A-438; A-496; A-535; A-541; A-646 and A-649. 1 Publication1
Mutagenesisi437S → A: Decreases phosphorylation by PKA. Leads to constitutive activation of autophagy; when associated with A-348; A-438; A-496; A-535; A-541; A-646 and A-649. 2 Publications1
Mutagenesisi438S → A: Leads to constitutive activation of autophagy; when associated with A-348; A-437; A-496; A-535; A-541; A-646 and A-649. 1 Publication1
Mutagenesisi468F → A: Impairs binding to ATG1; when associated with A-469. 1 Publication1
Mutagenesisi469V → A: Impairs binding to ATG1; when associated with A-468. 1 Publication1
Mutagenesisi496S → A: Leads to constitutive activation of autophagy; when associated with A-348; A-437; A-438; A-535; A-541; A-646 and A-649. 1 Publication1
Mutagenesisi535S → A: Leads to constitutive activation of autophagy; when associated with A-348; A-437; A-438; A-496; A-541; A-646 and A-649. 1 Publication1
Mutagenesisi541S → A: Leads to constitutive activation of autophagy; when associated with A-348; A-437; A-438; A-496; A-535; A-646 and A-649. 1 Publication1
Mutagenesisi581S → A: Decreases phosphorylation by PKA. 1 Publication1
Mutagenesisi646S → A: Leads to constitutive activation of autophagy; when associated with A-348; A-437; A-438; A-496; A-535; A-541 and A-649. 1 Publication1
Mutagenesisi649S → A: Leads to constitutive activation of autophagy; when associated with A-348; A-437; A-438; A-496; A-535; A-541, and A-646. 1 Publication1

PTM / Processingi

Molecule processing

Feature keyPosition(s)DescriptionActionsGraphical viewLength
ChainiPRO_00001579721 – 738Autophagy-related protein 13Add BLAST738

Amino acid modifications

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Modified residuei344Phosphoserine; by PKA1 Publication1
Modified residuei348Phosphoserine; by TORC11 Publication1
Modified residuei355PhosphoserineCombined sources1
Modified residuei437Phosphoserine; by TORC1 and PKA2 Publications1
Modified residuei438Phosphoserine; by TORC11 Publication1
Modified residuei461PhosphoserineCombined sources1
Modified residuei496Phosphoserine; by TORC11 Publication1
Modified residuei535Phosphoserine; by TORC11 Publication1
Modified residuei541Phosphoserine; by TORC11 Publication1
Modified residuei554PhosphoserineCombined sources1
Modified residuei581Phosphoserine; by PKA1 Publication1
Modified residuei646Phosphoserine; by TORC11 Publication1
Modified residuei649Phosphoserine; by TORC1Combined sources1 Publication1

Post-translational modificationi

Phosphorylated; hyperphosphorylated by the TORC1 kinase complex to repress the induction of autophagy. Starvation and TOR inactivation results in ATG13 partial dephosphorylation leading to ATG1-binding. Rephosphorylated by ATG1 during prolonged nitrogen starvation. Also phosphorylated by PKA. PKA phosphorylation regulates the association of ATG13 with the PAS. Within this regulatory network, mitochondrial respiratory deficiency suppresses autophagic flux. Hyperphosphorylation in rich medium is impaired in the absence of VAC8.11 Publications

Keywords - PTMi

Phosphoprotein

Proteomic databases

MaxQBiQ06628.
PRIDEiQ06628.
TopDownProteomicsiQ06628.

PTM databases

iPTMnetiQ06628.

Interactioni

Subunit structurei

Hypophosphorylated form interacts with ATG1 to form the ATG1-ATG13 kinase complex. The ATG1-ATG13 complex interacts with the ATG17-ATG29-ATG31 complex through direct interaction with ATG17. Interacts with VAC8.13 Publications

Binary interactionsi

WithEntry#Exp.IntActNotes
ATG1P5310413EBI-36188,EBI-2657
VAC8P399685EBI-36188,EBI-20212

Protein-protein interaction databases

BioGridi36357. 97 interactors.
DIPiDIP-1191N.
IntActiQ06628. 9 interactors.
MINTiMINT-384768.

Structurei

3D structure databases

ProteinModelPortaliQ06628.
SMRiQ06628.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Regioni432 – 520Interaction with ATG1Add BLAST89

Compositional bias

Feature keyPosition(s)DescriptionActionsGraphical viewLength
Compositional biasi306 – 338Poly-GlnAdd BLAST33
Compositional biasi622 – 625Poly-Asp4
Compositional biasi699 – 708Poly-Asn10

Sequence similaritiesi

Belongs to the ATG13 family. Fungi subfamily.Curated

Phylogenomic databases

HOGENOMiHOG000034130.
InParanoidiQ06628.
KOiK08331.
OMAiFFMSDMN.
OrthoDBiEOG092C1W5S.

Family and domain databases

InterProiIPR018731. Atg13.
[Graphical view]
PfamiPF10033. ATG13. 1 hit.
[Graphical view]

Sequencei

Sequence statusi: Complete.

Q06628-1 [UniParc]FASTAAdd to basket

« Hide

        10         20         30         40         50
MVAEEDIEKQ VLQLIDSFFL KTTLLICSTE SSRYQSSTEN IFLFDDTWFE
60 70 80 90 100
DHSELVSELP EIISKWSHYD GRKELPPLVV ETYLDLRQLN SSHLVRLKDH
110 120 130 140 150
EGHLWNVCKG TKKQEIVMER WLIELDNSSP TFKSYSEDET DVNELSKQLV
160 170 180 190 200
LLFRYLLTLI QLLPTTELYQ LLIKSYNGPQ NEGSSNPITS TGPLVSIRTC
210 220 230 240 250
VLDGSKPILS KGRIGLSKPI INTYSNALNE SNLPAHLDQK KITPVWTKFG
260 270 280 290 300
LLRVSVSYRR DWKFEINNTN DELFSARHAS VSHNSQGPQN QPEQEGQSDQ
310 320 330 340 350
DIGKRQPQFQ QQQQPQQQQQ QQQQQQRQHQ VQTQQQRQIP DRRSLSLSPC
360 370 380 390 400
TRANSFEPQS WQKKVYPISR PVQPFKVGSI GSQSASRNPS NSSFFNQPPV
410 420 430 440 450
HRPSMSSNYG PQMNIEGTSV GSTSKYSSSF GNIRRHSSVK TTENAEKVSK
460 470 480 490 500
AVKSPLQPQE SQEDLMDFVK LLEEKPDLTI KKTSGNNPPN INISDSLIRY
510 520 530 540 550
QNLKPSNDLL SEDLSVSLSM DPNHTYHRGR SDSHSPLPSI SPSMHYGSLN
560 570 580 590 600
SRMSQGANAS HLIARGGGNS STSALNSRRN SLDKSSNKQG MSGLPPIFGG
610 620 630 640 650
ESTSYHHDNK IQKYNQLGVE EDDDDENDRL LNQMGNSATK FKSSISPRSI
660 670 680 690 700
DSISSSFIKS RIPIRQPYHY SQPTTAPFQA QAKFHKPANK LIDNGNRSNS
710 720 730
NNNNHNGNDA VGVMHNDEDD QDDDLVFFMS DMNLSKEG
Length:738
Mass (Da):83,281
Last modified:November 1, 1996 - v1
Checksum:i45CD16F69B795E62
GO

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U25842 Genomic DNA. Translation: AAB68118.1.
D88025 Genomic DNA. Translation: BAA21485.1.
BK006949 Genomic DNA. Translation: DAA11601.1.
PIRiS59842.
RefSeqiNP_015511.1. NM_001184282.1.

Genome annotation databases

EnsemblFungiiYPR185W; YPR185W; YPR185W.
GeneIDi856315.
KEGGisce:YPR185W.

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
U25842 Genomic DNA. Translation: AAB68118.1.
D88025 Genomic DNA. Translation: BAA21485.1.
BK006949 Genomic DNA. Translation: DAA11601.1.
PIRiS59842.
RefSeqiNP_015511.1. NM_001184282.1.

3D structure databases

ProteinModelPortaliQ06628.
SMRiQ06628.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

BioGridi36357. 97 interactors.
DIPiDIP-1191N.
IntActiQ06628. 9 interactors.
MINTiMINT-384768.

Protein family/group databases

TCDBi9.A.15.1.1. the autophagy-related phagophore-formation transporter (apt) family.

PTM databases

iPTMnetiQ06628.

Proteomic databases

MaxQBiQ06628.
PRIDEiQ06628.
TopDownProteomicsiQ06628.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsemblFungiiYPR185W; YPR185W; YPR185W.
GeneIDi856315.
KEGGisce:YPR185W.

Organism-specific databases

EuPathDBiFungiDB:YPR185W.
SGDiS000006389. ATG13.

Phylogenomic databases

HOGENOMiHOG000034130.
InParanoidiQ06628.
KOiK08331.
OMAiFFMSDMN.
OrthoDBiEOG092C1W5S.

Enzyme and pathway databases

BioCyciYEAST:G3O-34308-MONOMER.

Miscellaneous databases

PROiQ06628.

Family and domain databases

InterProiIPR018731. Atg13.
[Graphical view]
PfamiPF10033. ATG13. 1 hit.
[Graphical view]
ProtoNetiSearch...

Entry informationi

Entry nameiATG13_YEAST
AccessioniPrimary (citable) accession number: Q06628
Secondary accession number(s): D6W4I5
Entry historyi
Integrated into UniProtKB/Swiss-Prot: March 15, 2005
Last sequence update: November 1, 1996
Last modified: November 2, 2016
This is version 126 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 149 molecules/cell in log phase SD medium.1 Publication

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. SIMILARITY comments
    Index of protein domains and families
  2. Uncharacterized protein families (UPF)
    List of uncharacterized protein family (UPF) entries
  3. Yeast
    Yeast (Saccharomyces cerevisiae): entries, gene names and cross-references to SGD
  4. Yeast chromosome XVI
    Yeast (Saccharomyces cerevisiae) chromosome XVI: 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.