PomBase home

protein coding gene - atg13 (SPAC4F10.07c) - autophagy associated protein Atg13

Gene summary

Standard name
atg13
Systematic ID
SPAC4F10.07c
Product
autophagy associated protein Atg13
Organism
Schizosaccharomyces pombe (fission yeast)
Synonyms
apg13, mug78
UniProt ID
O36019
ORFeome ID
38/38E11
Characterisation status
biological role published
Feature type
mRNA gene
Genomic location
chromosome I: 4840485..4843603 reverse strand

Annotation

GO biological process

GO:0000045 - autophagosome assembly

References:

GO:0016236 - macroautophagy

References:

GO:0000423 - mitophagy

References:

GO:0034727 - piecemeal microautophagy of the nucleus

References:

GO cellular component

GO:1990316 - Atg1/ULK1 kinase complex

References:

GO:0005776 - autophagosome

References:

GO:0005737 - cytoplasm

References:

GO:0005829 - cytosol

References:

GO:0000407 - phagophore assembly site

References:

GO molecular function

GO:0005515 - protein binding

References:

GO:0019887 - protein kinase regulator activity

References:

Modification

MOD:00046 - O-phospho-L-serine

References:

MOD:00047 - O-phospho-L-threonine

References:

MOD:00696 - phosphorylated residue

References:

Multi-locus phenotype

FYPO:0001178 - loss of viability upon nitrogen starvation

References:

Genotypes:

FYPO:0007629 - normal viability during G0

References:

Genotypes:

FYPO:0003376 - resistance to nitrogen starvation

References:

Genotypes:

Qualitative gene expression

PomGeneEx:0000011 - RNA level increased

References:

Quantitative gene expression

PBO:0006310 - protein level

References:

PBO:0011963 - RNA level

References:

Single locus phenotype

FYPO:0004670 - abnormal macroautophagy during nitrogen starvation

References:

Genotypes:

FYPO:0003139 - abnormal sporulation resulting in formation of ascus containing anucleate spores

References:

Genotypes:

FYPO:0000380 - abolished macroautophagy

References:

Genotypes:

FYPO:0006295 - abolished macroautophagy during nitrogen starvation

References:

Genotypes:

FYPO:0000705 - abolished protein-protein interaction

References:

Genotypes:

FYPO:0000082 - decreased cell population growth at high temperature

References:

Genotypes:

FYPO:0009091 - decreased cell population growth on lysine and proline nitrogen source

References:

Genotypes:

FYPO:0000708 - decreased mating efficiency

References:

Genotypes:

FYPO:0002798 - decreased protein degradation during nitrogen starvation

References:

Genotypes:

FYPO:0001838 - decreased protein phosphorylation during vegetative growth

References:

Genotypes:

FYPO:0001645 - decreased protein-protein interaction

References:

Genotypes:

FYPO:0000584 - decreased sporulation frequency

References:

Genotypes:

FYPO:0001908 - increased pre-mRNA level

References:

Genotypes:

FYPO:0008427 - increased protein level during cellular response to sulfur starvation

References:

Genotypes:

FYPO:0000238 - inviable cell upon G0 to G1 transition

References:

Genotypes:

FYPO:0000245 - loss of viability in stationary phase

References:

Genotypes:

FYPO:0006660 - loss of viability upon G0 to G1 transition

References:

Genotypes:

FYPO:0001178 - loss of viability upon nitrogen starvation

References:

Genotypes:

FYPO:0000674 - normal cell population growth at high temperature

References:

Genotypes:

FYPO:0003075 - normal protein kinase activity

References:

Genotypes:

FYPO:0006293 - normal protein localization via NVT pathway

References:

Genotypes:

FYPO:0000590 - normal sporulation

References:

Genotypes:

FYPO:0001357 - normal vegetative cell population growth

References:

Genotypes:

FYPO:0007629 - normal viability during G0

References:

Genotypes:

FYPO:0000763 - resistance to cadmium

References:

Genotypes:

FYPO:0000764 - resistance to cycloheximide

References:

Genotypes:

FYPO:0009087 - resistance to magnesium chloride and sodium dodecyl sulfate

References:

Genotypes:

FYPO:0009039 - resistance to potassium chloride

References:

Genotypes:

FYPO:0009043 - resistance to potassium chloride and sodium dodecyl sulfate

References:

Genotypes:

FYPO:0003383 - resistance to tert-butyl hydroperoxide

References:

Genotypes:

FYPO:0000799 - sensitive to diamide

References:

Genotypes:

FYPO:0007931 - sensitive to egtazic acid

References:

Genotypes:

FYPO:0001719 - sensitive to lithium

References:

Genotypes:

FYPO:0000280 - sterile

References:

Genotypes:

FYPO:0002060 - viable vegetative cell population

References:

Genotypes:

FYPO:0002177 - viable vegetative cell with normal cell morphology

References:

Genotypes:

Taxonomic conservation

PBO:0011065 - conserved in eukaryotes

PBO:0011071 - conserved in eukaryotes only

PBO:0011064 - conserved in fungi

PBO:0011069 - conserved in metazoa

PBO:0011070 - conserved in vertebrates

PBO:0006222 - predominantly single copy (one to one)

Protein features

IDNameInterPro nameDB name
PF10033ATG13Atg13_NPFAM
G3DSA:3.30.900.10:FF:000013FUNFAM
G3DSA:3.30.900.10HORMA domainHORMA_dom_sfGENE3D
PTHR13430ATG13PANTHER
mobidb-lite-Disorderdisorder_predictionMOBIDB-Disorder
mobidb-lite-Polardisorder_predictionMOBIDB-Polar

Orthologs

References / Literature

PMID:17295836 - Fission yeast autophagy induced by nitrogen starvation generates a nitrogen source that drives adaptation processes.
Kohda TA et al. Genes Cells 2007 Feb;12(2):155-70
PMID:16303567 - A large-scale screen in S. pombe identifies seven novel genes required for critical meiotic events.
Martín-Castellanos C et al. Curr Biol 2005 Nov 22;15(22):2056-62
PMID:26030876 - Structure of the Atg101-Atg13 complex reveals essential roles of Atg101 in autophagy initiation.
Suzuki H et al. Nat Struct Mol Biol 2015 Jul;22(7):572-80
PMID:34296454 - The TOR-dependent phosphoproteome and regulation of cellular protein synthesis.
Mak T et al. EMBO J 2021 Aug 16;40(16):e107911
PMID:26771498 - A Proteome-wide Fission Yeast Interactome Reveals Network Evolution Principles from Yeasts to Human.
Vo TV et al. Cell 2016 Jan 14;164(1-2):310-323
PMID:37787768 - Broad functional profiling of fission yeast proteins using phenomics and machine learning.
Rodríguez-López M et al. Elife 2023 Oct 03;12
PMID:38269097 - Rapamycin-sensitive mechanisms confine the growth of fission yeast below the temperatures detrimental to cell physiology.
Morozumi Y et al. iScience 2024 Jan 19;27(1):108777
GO_REF:0000024 - Manual transfer of experimentally-verified manual GO annotation data to orthologs by curator judgment of sequence similarity.
PMID:29330317 - tRNA production links nutrient conditions to the onset of sexual differentiation through the TORC1 pathway.
Otsubo Y et al. EMBO Rep 2018 Mar;19(3)
PMID:19778961 - Autophagy-deficient Schizosaccharomyces pombe mutants undergo partial sporulation during nitrogen starvation.
Mukaiyama H et al. Microbiology (Reading) 2009 Dec;155(Pt 12):3816-3826
PMID:26365378 - ESCRTs Cooperate with a Selective Autophagy Receptor to Mediate Vacuolar Targeting of Soluble Cargos.
Liu XM et al. Mol Cell 2015 Sep 17;59(6):1035-42
PMID:12161753 - The transcriptional program of meiosis and sporulation in fission yeast.
Mata J et al. Nat Genet 2002 Sep;32(1):143-7
PMID:29432178 - General amino acid control in fission yeast is regulated by a nonconserved transcription factor, with functions analogous to Gcn4/Atf4.
Duncan CDS et al. Proc Natl Acad Sci U S A 2018 Feb 20;115(8):E1829-E1838
PMID:39705284 - Proteomic and phosphoproteomic analyses reveal that TORC1 is reactivated by pheromone signaling during sexual reproduction in fission yeast.
Bérard M et al. PLoS Biol 2024 Dec 20;22(12):e3002963
PMID:24763107 - Absolute proteome and phosphoproteome dynamics during the cell cycle of Schizosaccharomyces pombe (Fission Yeast).
Carpy A et al. Mol Cell Proteomics 2014 Aug;13(8):1925-36
PMID:33064910 - Sulfur depletion induces autophagy through Ecl1 family genes in fission yeast.
Shimasaki T et al. Genes Cells 2020 Dec;25(12):825-830
PMID:22681890 - Hierarchical modularity and the evolution of genetic interactomes across species.
Ryan CJ et al. Mol Cell 2012 Jun 08;46(5):691-704
PMID:34499173 - Visual detection of binary, ternary and quaternary protein interactions in fission yeast using a Pil1 co-tethering assay.
Yu ZQ et al. J Cell Sci 2021 Oct 01;134(19)
PMID:33823663 - A TOR (target of rapamycin) and nutritional phosphoproteome of fission yeast reveals novel targets in networks conserved in humans.
Halova L et al. Open Biol 2021 Apr;11(4):200405
PMID:26389686 - Open and closed HORMAs regulate autophagy initiation.
Suzuki H et al. Autophagy 2015 Nov 02;11(11):2123-2124
PMID:27172183 - Interconnections Between RNA-Processing Pathways Revealed by a Sequencing-Based Genetic Screen for Pre-mRNA Splicing Mutants in Fission Yeast.
Larson A et al. G3 (Bethesda) 2016 Jun 01;6(6):1513-23
PMID:34147496 - Regulation of inorganic polyphosphate is required for proper vacuolar proteolysis in fission yeast.
Sawada N et al. J Biol Chem 2021 Jul;297(1):100891
PMID:34499159 - Fission yeast TOR complex 1 phosphorylates Psk1 through an evolutionarily conserved interaction mediated by the TOS motif.
Morozumi Y et al. J Cell Sci 2021 Oct 01;134(19)
PMID:16823372 - ORFeome cloning and global analysis of protein localization in the fission yeast Schizosaccharomyces pombe.
Matsuyama A et al. Nat Biotechnol 2006 Jul;24(7):841-7
PMID:34250083 - Barcode sequencing and a high-throughput assay for chronological lifespan uncover ageing-associated genes in fission yeast.
Romila CA et al. Microb Cell 2021 Jul 05;8(7):146-160
PMID:23950735 - Global analysis of fission yeast mating genes reveals new autophagy factors.
Sun LL et al. PLoS Genet 2013;9(8):e1003715
PMID:40395999 - Cdc13 (cyclin B) is degraded by autophagy under sulfur depletion in fission yeast.
Ohtsuka H et al. Autophagy Rep 2022;1(1):51-64
PMID:21511999 - Comparative functional genomics of the fission yeasts.
Rhind N et al. Science 2011 May 20;332(6032):930-6
PMID:23697806 - A genome-wide resource of cell cycle and cell shape genes of fission yeast.
Hayles J et al. Open Biol 2013 May 22;3(5):130053
PMID:23101633 - Quantitative analysis of fission yeast transcriptomes and proteomes in proliferating and quiescent cells.
Marguerat S et al. Cell 2012 Oct 26;151(3):671-83
PMID:25720772 - Quantitative phosphoproteomics reveals pathways for coordination of cell growth and division by the conserved fission yeast kinase pom1.
Kettenbach AN et al. Mol Cell Proteomics 2015 May;14(5):1275-87
PMID:31941401 - Atg38-Atg8 interaction in fission yeast establishes a positive feedback loop to promote autophagy.
Yu ZQ et al. Autophagy 2020 Nov;16(11):2036-2051
PMID:40931865 - Evolutionary diversification of the autophagy initiation complex: reduced Atg101 dependency and changes in Atg9 binding to Atg13.
Lai Z et al. Autophagy 2025 Sep 18;:1-18
PMID:19547744 - Evolution of phosphoregulation: comparison of phosphorylation patterns across yeast species.
Beltrao P et al. PLoS Biol 2009 Jun 16;7(6):e1000134
PMID:20473289 - Analysis of a genome-wide set of gene deletions in the fission yeast Schizosaccharomyces pombe.
Kim DU et al. Nat Biotechnol 2010 Jun;28(6):617-623
GO_REF:0000033 - Annotation inferences using phylogenetic trees
PMID:28976798 - Conserved and unique features of the fission yeast core Atg1 complex.
Nanji T et al. Autophagy 2017;13(12):2018-2027
PMID:26098123 - Promoter nucleosome dynamics regulated by signalling through the CTD code.
Materne P et al. Elife 2015 Jun 22;4:e09008
PMID:28671615 - TORC1-Dependent Phosphorylation Targets in Fission Yeast.
Otsubo Y et al. Biomolecules 2017 Jul 03;7(3)
PMID:27737912 - Atg20- and Atg24-family proteins promote organelle autophagy in fission yeast.
Zhao D et al. J Cell Sci 2016 Nov 15;129(22):4289-4304
PMID:27984744 - Survival in Quiescence Requires the Euchromatic Deployment of Clr4/SUV39H by Argonaute-Associated Small RNAs.
Joh RI et al. Mol Cell 2016 Dec 15;64(6):1088-1101
PMID:30726745 - Fission Yeast NDR/LATS Kinase Orb6 Regulates Exocytosis via Phosphorylation of the Exocyst Complex.
Tay YD et al. Cell Rep 2019 Feb 05;26(6):1654-1667.e7
PMID:29996109 - Quantitative Phosphoproteomics Reveals the Signaling Dynamics of Cell-Cycle Kinases in the Fission Yeast Schizosaccharomyces pombe.
Swaffer MP et al. Cell Rep 2018 Jul 10;24(2):503-514
PMID:32909946 - Atg1 kinase in fission yeast is activated by Atg11-mediated dimerization and cis-autophosphorylation.
Pan ZQ et al. Elife 2020 Sep 10;9
PMID:30116786 - Genetic regulation of mitotic competence in G 0 quiescent cells.
Sajiki K et al. Sci Adv 2018 Aug;4(8):eaat5685
PMID:21712547 - Mitotic substrates of the kinase aurora with roles in chromatin regulation identified through quantitative phosphoproteomics of fission yeast.
Koch A et al. Sci Signal 2011 Jun 28;4(179):rs6
PMID:39367033 - Quantitative proteomics and phosphoproteomics profiling of meiotic divisions in the fission yeast Schizosaccharomyces pombe.
Sivakova B et al. Sci Rep 2024 Oct 04;14(1):23105
PMID:39476757 - Characterization of Ksg1 protein kinase-dependent phosphoproteome in the fission yeast S. pombe.
Cipak L et al. Biochem Biophys Res Commun 2024 Oct 25;736:150895
PMID:33313903 - Ribosome profiling reveals ribosome stalling on tryptophan codons and ribosome queuing upon oxidative stress in fission yeast.
Rubio A et al. Nucleic Acids Res 2021 Jan 11;49(1):383-399