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Protein

Autophagy-related protein 13

Gene

Atg13

Organism
Mus musculus (Mouse)
Status
Reviewed-Annotation score: Annotation score: 5 out of 5-Experimental evidence at protein leveli

Functioni

Autophagy factor required for autophagosome formation and mitophagy. Target of the TOR kinase signaling pathway that regulates autophagy through the control of the phosphorylation status of ATG13 and ULK1, and the regulation of the ATG13-ULK1-RB1CC1 complex. Through its regulation of ULK1 activity, plays a role in the regulation of the kinase activity of mTORC1 and cell proliferation.1 Publication

GO - Molecular functioni

GO - Biological processi

  • autophagosome assembly Source: UniProtKB
  • mitophagy in response to mitochondrial depolarization Source: ParkinsonsUK-UCL
  • positive regulation of protein targeting to mitochondrion Source: MGI
Complete GO annotation...

Keywords - Biological processi

Autophagy

Enzyme and pathway databases

ReactomeiR-MMU-1632852. Macroautophagy.

Names & Taxonomyi

Protein namesi
Recommended name:
Autophagy-related protein 13
Gene namesi
Name:Atg13
Synonyms:D2Ertd391e, Kiaa0652
OrganismiMus musculus (Mouse)
Taxonomic identifieri10090 [NCBI]
Taxonomic lineageiEukaryotaMetazoaChordataCraniataVertebrataEuteleostomiMammaliaEutheriaEuarchontogliresGliresRodentiaSciurognathiMuroideaMuridaeMurinaeMusMus
Proteomesi
  • UP000000589 Componenti: Chromosome 2

Organism-specific databases

MGIiMGI:1196429. Atg13.

Subcellular locationi

GO - Cellular componenti

  • ATG1/ULK1 kinase complex Source: UniProtKB
  • cytosol Source: UniProtKB
  • mitochondrion Source: MGI
  • pre-autophagosomal structure Source: UniProtKB
Complete GO annotation...

Keywords - Cellular componenti

Cytoplasm

PTM / Processingi

Molecule processing

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Chaini1 – 516516Autophagy-related protein 13PRO_0000345151Add
BLAST

Amino acid modifications

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Modified residuei1 – 11N-acetylmethionineBy similarity
Modified residuei354 – 3541Phosphoserine; by ULK1By similarity
Modified residuei355 – 3551PhosphoserineBy similarity

Post-translational modificationi

Phosphorylated by ULK1, ULK2 and mTOR. Phosphorylation status depends on nutrient-rich conditions; dephosphorylated during starvation or following treatment with rapamycin. ULK1-mediated phosphorylation of ATG13 at Ser-354 is required for efficient clearance of depolarized mitochondria.By similarity

Keywords - PTMi

Acetylation, Phosphoprotein

Proteomic databases

EPDiQ91YI1.
MaxQBiQ91YI1.
PRIDEiQ91YI1.

PTM databases

iPTMnetiQ91YI1.
PhosphoSiteiQ91YI1.

Expressioni

Gene expression databases

BgeeiQ91YI1.
GenevisibleiQ91YI1. MM.

Interactioni

Subunit structurei

Part of a complex consisting of ATG13, ULK1 and RB1CC1 (PubMed:19258318, PubMed:19211835). Interacts with ATG101. Interacts with ULK1 (via C-terminus). Interacts with ULK2 (via C-terminus). Interacts (via the LIR motif) with GABARAP, GABARAPL, GABARAPL2. Interacts (via the LIR motif) with MAP1LC3A, MAP1LC3B and MAP1LC3C. Interacts with TAB2 and TAB3 (By similarity).By similarity2 Publications

GO - Molecular functioni

Protein-protein interaction databases

DIPiDIP-60542N.
IntActiQ91YI1. 2 interactions.

Structurei

3D structure databases

ProteinModelPortaliQ91YI1.
ModBaseiSearch...
MobiDBiSearch...

Family & Domainsi

Region

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Regioni127 – 1348Important for interaction with ATG101By similarity

Motif

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Motifi443 – 4464LIR

Domaini

The LIR motif (LC3-interacting region) is required for the interaction with the ATG8 family proteins GABARAP, GABARAPL, GABARAPL2, and MAP1LC3A.By similarity

Sequence similaritiesi

Belongs to the ATG13 family. Metazoan subfamily.Curated

Phylogenomic databases

GeneTreeiENSGT00390000007055.
HOGENOMiHOG000008446.
InParanoidiQ91YI1.
KOiK08331.
OMAiMCVEISL.
OrthoDBiEOG744T8P.
PhylomeDBiQ91YI1.
TreeFamiTF321599.

Family and domain databases

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

Sequences (2)i

Sequence statusi: Complete.

This entry describes 2 isoformsi produced by alternative splicing. AlignAdd to basket

Isoform 1 (identifier: Q91YI1-1) [UniParc]FASTAAdd to basket

This isoform has been chosen as the 'canonical' sequence. All positional information in this entry refers to it. This is also the sequence that appears in the downloadable versions of the entry.

« Hide

        10         20         30         40         50
METELSSQDR KDLDKFIKFF ALKTVQVIVQ ARLGEKICTR SSSSPTGSDW
60 70 80 90 100
FNLAIKDIPE VTHEAKKALS GQLPAVGRSM CVEISLKTSE GDSMELEIWC
110 120 130 140 150
LEMNEKCDKE IKVSYTVYNR LSLLLKSLLA ITRVTPAYRL SRKQGHEYVI
160 170 180 190 200
LYRIYFGEVQ LNGLGEGFQT VRVGTVGTPV GTLTLSCAYR INLAFMSTRQ
210 220 230 240 250
FERTPPIMGI IIDHFVDRPY PSSSPMHPCN YRTAEDAGVA YPSVEDSQEV
260 270 280 290 300
CTTSFSTSPP SQLSSSRLSY QPAVLGLGSA DLAYPVVFTA GLNTTHAHQL
310 320 330 340 350
MVPGKEGGVT LAPSHPTHGA QADPERLVMH MPSDGTHCAA TPSSSEDTET
360 370 380 390 400
VSNSSEGRAS PHDILETIFV RKVGAFVNKP INQVTVTSLD IPFAMFAPKN
410 420 430 440 450
LELEDADPMV NPPESPETTS PLHGSLHSDG SSGGSGGSTH DDFVMIDFKP
460 470 480 490 500
AFSKDDILPM DLGTFYREFQ NPPQLSSLSI DFGAQSMAED LDSLPEKLAV
510
HEKNVREFDA FVETLQ
Length:516
Mass (Da):56,441
Last modified:September 2, 2008 - v2
Checksum:i04B4E49BB19449F2
GO
Isoform 2 (identifier: Q91YI1-2) [UniParc]FASTAAdd to basket

The sequence of this isoform differs from the canonical sequence as follows:
     263-299: Missing.

Show »
Length:479
Mass (Da):52,615
Checksum:iC7F080564F28E564
GO

Sequence cautioni

The sequence BAC65621.3 differs from that shown.The sequence differs from that shown because it seems to be derived from a pre-mRNA.Curated

Alternative sequence

Feature keyPosition(s)LengthDescriptionGraphical viewFeature identifierActions
Alternative sequencei263 – 29937Missing in isoform 2. 2 PublicationsVSP_034922Add
BLAST

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK149672 mRNA. Translation: BAE29016.1.
AK171206 mRNA. Translation: BAE42312.1.
AK171440 mRNA. Translation: BAE42453.1.
AL714023 Genomic DNA. Translation: CAM14512.1.
AL714023 Genomic DNA. Translation: CAM14513.1.
CH466519 Genomic DNA. Translation: EDL27574.1.
BC016669 mRNA. Translation: AAH16669.1.
BC023673 mRNA. Translation: AAH23673.1.
BC023712 mRNA. Translation: AAH23712.1.
BC033419 mRNA. Translation: AAH33419.1.
AK122339 Transcribed RNA. Translation: BAC65621.3. Sequence problems.
CCDSiCCDS16438.1. [Q91YI1-2]
RefSeqiNP_663503.1. NM_145528.3. [Q91YI1-2]
XP_006499953.1. XM_006499890.2. [Q91YI1-1]
UniGeneiMm.28492.

Genome annotation databases

EnsembliENSMUST00000028678; ENSMUSP00000028678; ENSMUSG00000027244. [Q91YI1-1]
ENSMUST00000076803; ENSMUSP00000076081; ENSMUSG00000027244. [Q91YI1-2]
GeneIDi51897.
KEGGimmu:51897.
UCSCiuc008kwn.2. mouse. [Q91YI1-2]

Keywords - Coding sequence diversityi

Alternative splicing

Cross-referencesi

Sequence databases

Select the link destinations:
EMBLi
GenBanki
DDBJi
Links Updated
AK149672 mRNA. Translation: BAE29016.1.
AK171206 mRNA. Translation: BAE42312.1.
AK171440 mRNA. Translation: BAE42453.1.
AL714023 Genomic DNA. Translation: CAM14512.1.
AL714023 Genomic DNA. Translation: CAM14513.1.
CH466519 Genomic DNA. Translation: EDL27574.1.
BC016669 mRNA. Translation: AAH16669.1.
BC023673 mRNA. Translation: AAH23673.1.
BC023712 mRNA. Translation: AAH23712.1.
BC033419 mRNA. Translation: AAH33419.1.
AK122339 Transcribed RNA. Translation: BAC65621.3. Sequence problems.
CCDSiCCDS16438.1. [Q91YI1-2]
RefSeqiNP_663503.1. NM_145528.3. [Q91YI1-2]
XP_006499953.1. XM_006499890.2. [Q91YI1-1]
UniGeneiMm.28492.

3D structure databases

ProteinModelPortaliQ91YI1.
ModBaseiSearch...
MobiDBiSearch...

Protein-protein interaction databases

DIPiDIP-60542N.
IntActiQ91YI1. 2 interactions.

PTM databases

iPTMnetiQ91YI1.
PhosphoSiteiQ91YI1.

Proteomic databases

EPDiQ91YI1.
MaxQBiQ91YI1.
PRIDEiQ91YI1.

Protocols and materials databases

Structural Biology KnowledgebaseSearch...

Genome annotation databases

EnsembliENSMUST00000028678; ENSMUSP00000028678; ENSMUSG00000027244. [Q91YI1-1]
ENSMUST00000076803; ENSMUSP00000076081; ENSMUSG00000027244. [Q91YI1-2]
GeneIDi51897.
KEGGimmu:51897.
UCSCiuc008kwn.2. mouse. [Q91YI1-2]

Organism-specific databases

CTDi9776.
MGIiMGI:1196429. Atg13.
RougeiSearch...

Phylogenomic databases

GeneTreeiENSGT00390000007055.
HOGENOMiHOG000008446.
InParanoidiQ91YI1.
KOiK08331.
OMAiMCVEISL.
OrthoDBiEOG744T8P.
PhylomeDBiQ91YI1.
TreeFamiTF321599.

Enzyme and pathway databases

ReactomeiR-MMU-1632852. Macroautophagy.

Miscellaneous databases

ChiTaRSiAtg13. mouse.
NextBioi308208.
PROiQ91YI1.
SOURCEiSearch...

Gene expression databases

BgeeiQ91YI1.
GenevisibleiQ91YI1. MM.

Family and domain databases

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

Publicationsi

« Hide 'large scale' publications
  1. "The transcriptional landscape of the mammalian genome."
    Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N., Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K., Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.
    , Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R., Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T., Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A., Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B., Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M., Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S., Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E., Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D., Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M., Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H., Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V., Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S., Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H., Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N., Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F., Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G., Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z., Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C., Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y., Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S., Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K., Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R., van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H., Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M., Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C., Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S., Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K., Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M., Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C., Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A., Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.
    Science 309:1559-1563(2005) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: C57BL/6J and NOD.
    Tissue: Bone marrow and Dendritic cell.
  2. Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA].
    Strain: C57BL/6J.
  3. Mural R.J., Adams M.D., Myers E.W., Smith H.O., Venter J.C.
    Submitted (AUG-2005) to the EMBL/GenBank/DDBJ databases
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE GENOMIC DNA], ALTERNATIVE SPLICING.
  4. "The status, quality, and expansion of the NIH full-length cDNA project: the Mammalian Gene Collection (MGC)."
    The MGC Project Team
    Genome Res. 14:2121-2127(2004) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] (ISOFORM 2).
    Strain: 129 and FVB/N.
    Tissue: Eye and Mammary tumor.
  5. "Prediction of the coding sequences of mouse homologues of KIAA gene: II. The complete nucleotide sequences of 400 mouse KIAA-homologous cDNAs identified by screening of terminal sequences of cDNA clones randomly sampled from size-fractionated libraries."
    Okazaki N., Kikuno R., Ohara R., Inamoto S., Aizawa H., Yuasa S., Nakajima D., Nagase T., Ohara O., Koga H.
    DNA Res. 10:35-48(2003) [PubMed] [Europe PMC] [Abstract]
    Cited for: NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 91-516 (ISOFORM 1).
    Tissue: Brain.
  6. "ULK1.ATG13.FIP200 complex mediates mTOR signaling and is essential for autophagy."
    Ganley I.G., Lam du H., Wang J., Ding X., Chen S., Jiang X.
    J. Biol. Chem. 284:12297-12305(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: FUNCTION, INTERACTION WITH ULK1 AND RB1CC1, PHOSPHORYLATION, SUBCELLULAR LOCATION.
  7. "Nutrient-dependent mTORC1 association with the ULK1-Atg13-FIP200 complex required for autophagy."
    Hosokawa N., Hara T., Kaizuka T., Kishi C., Takamura A., Miura Y., Iemura S., Natsume T., Takehana K., Yamada N., Guan J.L., Oshiro N., Mizushima N.
    Mol. Biol. Cell 20:1981-1991(2009) [PubMed] [Europe PMC] [Abstract]
    Cited for: SUBUNIT, SUBCELLULAR LOCATION.

Entry informationi

Entry nameiATG13_MOUSE
AccessioniPrimary (citable) accession number: Q91YI1
Secondary accession number(s): A2AH18, Q80TU9
Entry historyi
Integrated into UniProtKB/Swiss-Prot: September 2, 2008
Last sequence update: September 2, 2008
Last modified: May 11, 2016
This is version 105 of the entry and version 2 of the sequence. [Complete history]
Entry statusiReviewed (UniProtKB/Swiss-Prot)
Annotation programChordata Protein Annotation Program

Miscellaneousi

Keywords - Technical termi

Complete proteome, Reference proteome

Documents

  1. MGD cross-references
    Mouse Genome Database (MGD) cross-references in UniProtKB/Swiss-Prot
  2. SIMILARITY comments
    Index of protein domains and families

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.