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ATG4B_MOUSE
ID   ATG4B_MOUSE             Reviewed;         393 AA.
AC   Q8BGE6; Q6ZQ22; Q8R098;
DT   15-MAR-2005, integrated into UniProtKB/Swiss-Prot.
DT   15-MAR-2005, sequence version 2.
DT   03-AUG-2022, entry version 134.
DE   RecName: Full=Cysteine protease ATG4B {ECO:0000305};
DE            EC=3.4.22.- {ECO:0000269|PubMed:14530254, ECO:0000269|PubMed:29458288};
DE   AltName: Full=AUT-like 1 cysteine endopeptidase;
DE   AltName: Full=Autophagy-related cysteine endopeptidase 1 {ECO:0000303|PubMed:12446702};
DE            Short=Autophagin-1 {ECO:0000303|PubMed:12446702};
DE   AltName: Full=Autophagy-related protein 4 homolog B {ECO:0000303|PubMed:14530254};
DE            Short=MmAPG4B {ECO:0000303|PubMed:29458288};
GN   Name=Atg4b {ECO:0000303|PubMed:20577052, ECO:0000312|MGI:MGI:1913865};
GN   Synonyms=Apg4b {ECO:0000303|PubMed:14530254}, Autl1,
GN   Kiaa0943 {ECO:0000303|PubMed:14621295};
OS   Mus musculus (Mouse).
OC   Eukaryota; Metazoa; Chordata; Craniata; Vertebrata; Euteleostomi; Mammalia;
OC   Eutheria; Euarchontoglires; Glires; Rodentia; Myomorpha; Muroidea; Muridae;
OC   Murinae; Mus; Mus.
OX   NCBI_TaxID=10090;
RN   [1]
RP   NUCLEOTIDE SEQUENCE [MRNA], AND RETRACTED PAPER.
RC   STRAIN=BALB/cJ;
RX   PubMed=12446702; DOI=10.1074/jbc.m208247200;
RA   Marino G., Uria J.A., Puente X.S., Quesada V., Bordallo J., Lopez-Otin C.;
RT   "Human autophagins, a family of cysteine proteinases potentially implicated
RT   in cell degradation by autophagy.";
RL   J. Biol. Chem. 278:3671-3678(2003).
RN   [2]
RP   RETRACTION NOTICE OF PUBMED:12446702.
RX   PubMed=30808002; DOI=10.1074/jbc.w118.007325;
RA   Marino G., Uria J.A., Puente X.S., Quesada V., Bordallo J., Lopez-Otin C.;
RL   J. Biol. Chem. 294:1431-1431(2019).
RN   [3]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=C57BL/6J; TISSUE=Pancreas, Skin, and Testis;
RX   PubMed=16141072; DOI=10.1126/science.1112014;
RA   Carninci P., Kasukawa T., Katayama S., Gough J., Frith M.C., Maeda N.,
RA   Oyama R., Ravasi T., Lenhard B., Wells C., Kodzius R., Shimokawa K.,
RA   Bajic V.B., Brenner S.E., Batalov S., Forrest A.R., Zavolan M., Davis M.J.,
RA   Wilming L.G., Aidinis V., Allen J.E., Ambesi-Impiombato A., Apweiler R.,
RA   Aturaliya R.N., Bailey T.L., Bansal M., Baxter L., Beisel K.W., Bersano T.,
RA   Bono H., Chalk A.M., Chiu K.P., Choudhary V., Christoffels A.,
RA   Clutterbuck D.R., Crowe M.L., Dalla E., Dalrymple B.P., de Bono B.,
RA   Della Gatta G., di Bernardo D., Down T., Engstrom P., Fagiolini M.,
RA   Faulkner G., Fletcher C.F., Fukushima T., Furuno M., Futaki S.,
RA   Gariboldi M., Georgii-Hemming P., Gingeras T.R., Gojobori T., Green R.E.,
RA   Gustincich S., Harbers M., Hayashi Y., Hensch T.K., Hirokawa N., Hill D.,
RA   Huminiecki L., Iacono M., Ikeo K., Iwama A., Ishikawa T., Jakt M.,
RA   Kanapin A., Katoh M., Kawasawa Y., Kelso J., Kitamura H., Kitano H.,
RA   Kollias G., Krishnan S.P., Kruger A., Kummerfeld S.K., Kurochkin I.V.,
RA   Lareau L.F., Lazarevic D., Lipovich L., Liu J., Liuni S., McWilliam S.,
RA   Madan Babu M., Madera M., Marchionni L., Matsuda H., Matsuzawa S., Miki H.,
RA   Mignone F., Miyake S., Morris K., Mottagui-Tabar S., Mulder N., Nakano N.,
RA   Nakauchi H., Ng P., Nilsson R., Nishiguchi S., Nishikawa S., Nori F.,
RA   Ohara O., Okazaki Y., Orlando V., Pang K.C., Pavan W.J., Pavesi G.,
RA   Pesole G., Petrovsky N., Piazza S., Reed J., Reid J.F., Ring B.Z.,
RA   Ringwald M., Rost B., Ruan Y., Salzberg S.L., Sandelin A., Schneider C.,
RA   Schoenbach C., Sekiguchi K., Semple C.A., Seno S., Sessa L., Sheng Y.,
RA   Shibata Y., Shimada H., Shimada K., Silva D., Sinclair B., Sperling S.,
RA   Stupka E., Sugiura K., Sultana R., Takenaka Y., Taki K., Tammoja K.,
RA   Tan S.L., Tang S., Taylor M.S., Tegner J., Teichmann S.A., Ueda H.R.,
RA   van Nimwegen E., Verardo R., Wei C.L., Yagi K., Yamanishi H.,
RA   Zabarovsky E., Zhu S., Zimmer A., Hide W., Bult C., Grimmond S.M.,
RA   Teasdale R.D., Liu E.T., Brusic V., Quackenbush J., Wahlestedt C.,
RA   Mattick J.S., Hume D.A., Kai C., Sasaki D., Tomaru Y., Fukuda S.,
RA   Kanamori-Katayama M., Suzuki M., Aoki J., Arakawa T., Iida J., Imamura K.,
RA   Itoh M., Kato T., Kawaji H., Kawagashira N., Kawashima T., Kojima M.,
RA   Kondo S., Konno H., Nakano K., Ninomiya N., Nishio T., Okada M., Plessy C.,
RA   Shibata K., Shiraki T., Suzuki S., Tagami M., Waki K., Watahiki A.,
RA   Okamura-Oho Y., Suzuki H., Kawai J., Hayashizaki Y.;
RT   "The transcriptional landscape of the mammalian genome.";
RL   Science 309:1559-1563(2005).
RN   [4]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA].
RC   STRAIN=FVB/N; TISSUE=Kidney;
RX   PubMed=15489334; DOI=10.1101/gr.2596504;
RG   The MGC Project Team;
RT   "The status, quality, and expansion of the NIH full-length cDNA project:
RT   the Mammalian Gene Collection (MGC).";
RL   Genome Res. 14:2121-2127(2004).
RN   [5]
RP   NUCLEOTIDE SEQUENCE [LARGE SCALE MRNA] OF 128-393.
RC   TISSUE=Brain;
RX   PubMed=14621295; DOI=10.1093/dnares/10.4.167;
RA   Okazaki N., Kikuno R., Ohara R., Inamoto S., Koseki H., Hiraoka S.,
RA   Saga Y., Nagase T., Ohara O., Koga H.;
RT   "Prediction of the coding sequences of mouse homologues of KIAA gene: III.
RT   The complete nucleotide sequences of 500 mouse KIAA-homologous cDNAs
RT   identified by screening of terminal sequences of cDNA clones randomly
RT   sampled from size-fractionated libraries.";
RL   DNA Res. 10:167-180(2003).
RN   [6]
RP   FUNCTION, AND SUBCELLULAR LOCATION.
RX   PubMed=14530254; DOI=10.1074/jbc.m308762200;
RA   Hemelaar J., Lelyveld V.S., Kessler B.M., Ploegh H.L.;
RT   "A single protease, Apg4B, is specific for the autophagy-related ubiquitin-
RT   like proteins GATE-16, MAP1-LC3, GABARAP, and Apg8L.";
RL   J. Biol. Chem. 278:51841-51850(2003).
RN   [7]
RP   IDENTIFICATION BY MASS SPECTROMETRY [LARGE SCALE ANALYSIS].
RC   TISSUE=Brain, Brown adipose tissue, Heart, Kidney, Lung, Pancreas, Spleen,
RC   and Testis;
RX   PubMed=21183079; DOI=10.1016/j.cell.2010.12.001;
RA   Huttlin E.L., Jedrychowski M.P., Elias J.E., Goswami T., Rad R.,
RA   Beausoleil S.A., Villen J., Haas W., Sowa M.E., Gygi S.P.;
RT   "A tissue-specific atlas of mouse protein phosphorylation and expression.";
RL   Cell 143:1174-1189(2010).
RN   [8]
RP   FUNCTION, AND DISRUPTION PHENOTYPE.
RX   PubMed=20577052; DOI=10.1172/jci42601;
RA   Marino G., Fernandez A.F., Cabrera S., Lundberg Y.W., Cabanillas R.,
RA   Rodriguez F., Salvador-Montoliu N., Vega J.A., Germana A., Fueyo A.,
RA   Freije J.M., Lopez-Otin C.;
RT   "Autophagy is essential for mouse sense of balance.";
RL   J. Clin. Invest. 120:2331-2344(2010).
RN   [9]
RP   INTERACTION WITH GBP7.
RX   PubMed=21551061; DOI=10.1126/science.1201711;
RA   Kim B.H., Shenoy A.R., Kumar P., Das R., Tiwari S., MacMicking J.D.;
RT   "A family of IFN-gamma-inducible 65-kD GTPases protects against bacterial
RT   infection.";
RL   Science 332:717-721(2011).
RN   [10]
RP   DISRUPTION PHENOTYPE.
RX   PubMed=20634410; DOI=10.1177/0300985810375810;
RA   Read R., Savelieva K., Baker K., Hansen G., Vogel P.;
RT   "Histopathological and neurological features of Atg4b knockout mice.";
RL   Vet. Pathol. 48:486-494(2011).
RN   [11]
RP   UBIQUITINATION.
RX   PubMed=23093945; DOI=10.1371/journal.pgen.1003007;
RA   Kuang E., Okumura C.Y., Sheffy-Levin S., Varsano T., Shu V.C., Qi J.,
RA   Niesman I.R., Yang H.J., Lopez-Otin C., Yang W.Y., Reed J.C., Broday L.,
RA   Nizet V., Ronai Z.A.;
RT   "Regulation of ATG4B stability by RNF5 limits basal levels of autophagy and
RT   influences susceptibility to bacterial infection.";
RL   PLoS Genet. 8:e1003007-e1003007(2012).
RN   [12]
RP   FUNCTION.
RX   PubMed=29458288; DOI=10.1080/15548627.2018.1437341;
RA   Kauffman K.J., Yu S., Jin J., Mugo B., Nguyen N., O'Brien A., Nag S.,
RA   Lystad A.H., Melia T.J.;
RT   "Delipidation of mammalian Atg8-family proteins by each of the four ATG4
RT   proteases.";
RL   Autophagy 14:992-1010(2018).
CC   -!- FUNCTION: Cysteine protease that plays a key role in autophagy by
CC       mediating both proteolytic activation and delipidation of ATG8 family
CC       proteins (PubMed:14530254, PubMed:20577052, PubMed:29458288). Required
CC       for canonical autophagy (macroautophagy), non-canonical autophagy as
CC       well as for mitophagy (By similarity). The protease activity is
CC       required for proteolytic activation of ATG8 family proteins: cleaves
CC       the C-terminal amino acid of ATG8 proteins MAP1LC3A, MAP1LC3B,
CC       MAP1LC3C, GABARAPL1, GABARAPL2 and GABARAP, to reveal a C-terminal
CC       glycine (PubMed:14530254, PubMed:29458288). Exposure of the glycine at
CC       the C-terminus is essential for ATG8 proteins conjugation to
CC       phosphatidylethanolamine (PE) and insertion to membranes, which is
CC       necessary for autophagy (PubMed:14530254, PubMed:29458288). Protease
CC       activity is also required to counteract formation of high-molecular
CC       weight conjugates of ATG8 proteins (ATG8ylation): acts as a
CC       deubiquitinating-like enzyme that removes ATG8 conjugated to other
CC       proteins, such as ATG3 (By similarity). In addition to the protease
CC       activity, also mediates delipidation of ATG8 family proteins
CC       (PubMed:29458288). Catalyzes delipidation of PE-conjugated forms of
CC       ATG8 proteins during macroautophagy (By similarity). Also involved in
CC       non-canonical autophagy, a parallel pathway involving conjugation of
CC       ATG8 proteins to single membranes at endolysosomal compartments, by
CC       catalyzing delipidation of ATG8 proteins conjugated to
CC       phosphatidylserine (PS) (By similarity). Compared to other members of
CC       the family (ATG4A, ATG4C or ATG4C), constitutes the major protein for
CC       proteolytic activation of ATG8 proteins, while it displays weaker
CC       delipidation activity than other ATG4 paralogs (PubMed:29458288).
CC       Involved in phagophore growth during mitophagy independently of its
CC       protease activity and of ATG8 proteins: acts by regulating ATG9A
CC       trafficking to mitochondria and promoting phagophore-endoplasmic
CC       reticulum contacts during the lipid transfer phase of mitophagy (By
CC       similarity). {ECO:0000250|UniProtKB:Q9Y4P1,
CC       ECO:0000269|PubMed:14530254, ECO:0000269|PubMed:20577052,
CC       ECO:0000269|PubMed:29458288}.
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=[protein]-C-terminal L-amino acid-glycyl-
CC         phosphatidylethanolamide + H2O = [protein]-C-terminal L-amino acid-
CC         glycine + a 1,2-diacyl-sn-glycero-3-phosphoethanolamine;
CC         Xref=Rhea:RHEA:67548, Rhea:RHEA-COMP:17323, Rhea:RHEA-COMP:17324,
CC         ChEBI:CHEBI:15377, ChEBI:CHEBI:64612, ChEBI:CHEBI:172940,
CC         ChEBI:CHEBI:172941; Evidence={ECO:0000250|UniProtKB:Q9Y4P1};
CC       PhysiologicalDirection=left-to-right; Xref=Rhea:RHEA:67549;
CC         Evidence={ECO:0000250|UniProtKB:Q9Y4P1};
CC   -!- CATALYTIC ACTIVITY:
CC       Reaction=[protein]-C-terminal L-amino acid-glycyl-phosphatidylserine +
CC         H2O = [protein]-C-terminal L-amino acid-glycine + a 1,2-diacyl-sn-
CC         glycero-3-phospho-L-serine; Xref=Rhea:RHEA:67576, Rhea:RHEA-
CC         COMP:17324, Rhea:RHEA-COMP:17326, ChEBI:CHEBI:15377,
CC         ChEBI:CHEBI:57262, ChEBI:CHEBI:172940, ChEBI:CHEBI:172942;
CC         Evidence={ECO:0000250|UniProtKB:Q9Y4P1};
CC       PhysiologicalDirection=left-to-right; Xref=Rhea:RHEA:67577;
CC         Evidence={ECO:0000250|UniProtKB:Q9Y4P1};
CC   -!- ACTIVITY REGULATION: Inhibited by N-ethylmaleimide. Redox-regulated
CC       during autophagy since reducing conditions activate ATG4A whereas an
CC       oxidizing environment such as the presence of H(2)O(2) inhibits its
CC       activity. The cysteine protease activity compounds is inhibited by
CC       styrylquinoline compounds 4-28 and LV-320.
CC       {ECO:0000250|UniProtKB:Q9Y4P1}.
CC   -!- SUBUNIT: Interacts with PFKP; promoting phosphorylation of ATG4B at
CC       Ser-34 (By similarity). Interacts with GBP7 (PubMed:21551061).
CC       {ECO:0000250|UniProtKB:Q9Y4P1, ECO:0000269|PubMed:21551061}.
CC   -!- SUBCELLULAR LOCATION: Cytoplasm {ECO:0000269|PubMed:14530254}.
CC       Cytoplasm, cytosol {ECO:0000250|UniProtKB:Q9Y4P1}. Cytoplasmic vesicle,
CC       autophagosome {ECO:0000250|UniProtKB:Q9Y4P1}. Endoplasmic reticulum
CC       {ECO:0000250|UniProtKB:Q9Y4P1}. Mitochondrion
CC       {ECO:0000250|UniProtKB:Q9Y4P1}. Note=Mainly localizes to the cytoplasm,
CC       including cytosol. A samll potion localizes to mitochondria;
CC       phosphorylation at Ser-34 promotes localization to mitochondria.
CC       {ECO:0000250|UniProtKB:Q9Y4P1}.
CC   -!- DOMAIN: The LIR motif (LC3-interacting region) is required for the
CC       interaction with ATG8 family proteins MAP1LC3A, MAP1LC3B, MAP1LC3C and
CC       GABARAPL1. Required for proteolytic activation and delipidation of ATG8
CC       proteins. {ECO:0000250|UniProtKB:Q9Y4P1}.
CC   -!- PTM: Phosphorylation at Ser-383 and Ser-392 promotes autophagy by
CC       increasing protein delipidation activity without affecting proteolytic
CC       activation of ATG8 proteins. Phosphorylation at Ser-316 by ULK1
CC       inhibits autophagy by decreasing both proteolytic activation and
CC       delipidation activities. Phosphorylation at Ser-316 is dephosphorylated
CC       by protein phosphatase 2A (PP2A). Phosphorylation at Ser-34 by AKT2
CC       promotes its hydrolase activity, leading to increased proteolytic
CC       activation and delipidation of ATG8 family proteins. Phosphorylation at
CC       Ser-34 by AKT1 promotes mitochondrial localization and inhibition of
CC       the F1F0-ATP synthase activity, leading to elevation of mitochondrial
CC       reactive oxygen species (ROS). {ECO:0000250|UniProtKB:Q9Y4P1}.
CC   -!- PTM: Ubiquitinated by RNF5, leading to its degradation by the
CC       proteasome. {ECO:0000269|PubMed:23093945}.
CC   -!- PTM: S-nitrosylation at Cys-189 and Cys-292 in response to high glucose
CC       decreases both proteolytic activation and delipidation activities.
CC       {ECO:0000250|UniProtKB:Q9Y4P1}.
CC   -!- PTM: O-glycosylated by OGT, leading to increase protease activity,
CC       thereby promoting the proteolytic activation of ATG8 family proteins.
CC       {ECO:0000250|UniProtKB:Q9Y4P1}.
CC   -!- PTM: Forms reversible intrachain disulfide bonds in response to
CC       oxidative stress. Forms interchain disulfide bonds, leading to
CC       formation of homooligomers in response to oxidation.
CC       {ECO:0000250|UniProtKB:Q9Y4P1}.
CC   -!- DISRUPTION PHENOTYPE: Mice develop normally but are born at a slightly
CC       lower ratio than the expected Mendelian rate (PubMed:20577052,
CC       PubMed:20634410). Cells display systemic reduction of autophagic
CC       activity, characterized by defective proteolytic processing of ATG8
CC       family proteins, compromising the rate of autophagosome maturation
CC       (PubMed:20577052). Mice show severe balance disorders, which are caused
CC       by defects in the development of otoconia (PubMed:20577052). The
CC       central nervous system (CNS) of mutant mice also displays amorphous
CC       globular bodies in the neuropil of the deep cerebellar nuclei and
CC       adjacent vestibular nuclei (PubMed:20634410). The spheroid-like bodies
CC       in the deep cerebellar and vestibular nuclei show heterogeneous
CC       composition, characteristics of proteinaceous material
CC       (PubMed:20634410). {ECO:0000269|PubMed:20577052,
CC       ECO:0000269|PubMed:20634410}.
CC   -!- SIMILARITY: Belongs to the peptidase C54 family. {ECO:0000305}.
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DR   EMBL; AJ504653; CAD43220.1; -; mRNA.
DR   EMBL; AK028712; BAC26079.1; -; mRNA.
DR   EMBL; AK031570; BAC27455.1; -; mRNA.
DR   EMBL; AK075796; BAC35965.1; -; mRNA.
DR   EMBL; AK088811; BAC40587.1; -; mRNA.
DR   EMBL; BC027184; AAH27184.1; -; mRNA.
DR   EMBL; AK129242; BAC98052.1; -; mRNA.
DR   CCDS; CCDS15195.1; -.
DR   RefSeq; NP_777363.1; NM_174874.3.
DR   AlphaFoldDB; Q8BGE6; -.
DR   SMR; Q8BGE6; -.
DR   BioGRID; 211597; 21.
DR   STRING; 10090.ENSMUSP00000027502; -.
DR   MEROPS; C54.003; -.
DR   iPTMnet; Q8BGE6; -.
DR   PhosphoSitePlus; Q8BGE6; -.
DR   EPD; Q8BGE6; -.
DR   jPOST; Q8BGE6; -.
DR   MaxQB; Q8BGE6; -.
DR   PaxDb; Q8BGE6; -.
DR   PeptideAtlas; Q8BGE6; -.
DR   PRIDE; Q8BGE6; -.
DR   ProteomicsDB; 265147; -.
DR   DNASU; 66615; -.
DR   GeneID; 66615; -.
DR   KEGG; mmu:66615; -.
DR   UCSC; uc007cej.1; mouse.
DR   CTD; 23192; -.
DR   MGI; MGI:1913865; Atg4b.
DR   eggNOG; KOG2674; Eukaryota.
DR   InParanoid; Q8BGE6; -.
DR   OrthoDB; 431748at2759; -.
DR   PhylomeDB; Q8BGE6; -.
DR   TreeFam; TF314847; -.
DR   Reactome; R-MMU-1632852; Macroautophagy.
DR   BioGRID-ORCS; 66615; 7 hits in 77 CRISPR screens.
DR   ChiTaRS; Atg4b; mouse.
DR   PRO; PR:Q8BGE6; -.
DR   Proteomes; UP000000589; Unplaced.
DR   RNAct; Q8BGE6; protein.
DR   GO; GO:0005776; C:autophagosome; IEA:UniProtKB-SubCell.
DR   GO; GO:0005737; C:cytoplasm; IDA:UniProtKB.
DR   GO; GO:0031410; C:cytoplasmic vesicle; IEA:UniProtKB-KW.
DR   GO; GO:0005829; C:cytosol; IEA:UniProtKB-SubCell.
DR   GO; GO:0005783; C:endoplasmic reticulum; IEA:UniProtKB-SubCell.
DR   GO; GO:0005739; C:mitochondrion; IEA:UniProtKB-SubCell.
DR   GO; GO:0019786; F:Atg8-specific peptidase activity; ISO:MGI.
DR   GO; GO:0004197; F:cysteine-type endopeptidase activity; IEA:InterPro.
DR   GO; GO:0008234; F:cysteine-type peptidase activity; IDA:UniProtKB.
DR   GO; GO:0004175; F:endopeptidase activity; ISO:MGI.
DR   GO; GO:0008233; F:peptidase activity; IDA:UniProtKB.
DR   GO; GO:0097110; F:scaffold protein binding; ISO:MGI.
DR   GO; GO:0000045; P:autophagosome assembly; IMP:ParkinsonsUK-UCL.
DR   GO; GO:0006914; P:autophagy; IMP:UniProtKB.
DR   GO; GO:0009267; P:cellular response to starvation; IMP:ParkinsonsUK-UCL.
DR   GO; GO:0016237; P:lysosomal microautophagy; ISS:UniProtKB.
DR   GO; GO:0000423; P:mitophagy; ISS:UniProtKB.
DR   GO; GO:0031173; P:otolith mineralization completed early in development; IMP:UniProtKB.
DR   GO; GO:0045732; P:positive regulation of protein catabolic process; ISO:MGI.
DR   GO; GO:0051697; P:protein delipidation; IDA:UniProtKB.
DR   GO; GO:0034497; P:protein localization to phagophore assembly site; ISO:MGI.
DR   GO; GO:0015031; P:protein transport; IEA:UniProtKB-KW.
DR   GO; GO:0006508; P:proteolysis; ISO:MGI.
DR   InterPro; IPR032916; ATG4B_met.
DR   InterPro; IPR038765; Papain-like_cys_pep_sf.
DR   InterPro; IPR005078; Peptidase_C54.
DR   PANTHER; PTHR22624; PTHR22624; 1.
DR   PANTHER; PTHR22624:SF39; PTHR22624:SF39; 1.
DR   Pfam; PF03416; Peptidase_C54; 1.
DR   SUPFAM; SSF54001; SSF54001; 1.
PE   1: Evidence at protein level;
KW   Acetylation; Autophagy; Cytoplasm; Cytoplasmic vesicle; Disulfide bond;
KW   Endoplasmic reticulum; Glycoprotein; Hydrolase; Isopeptide bond;
KW   Mitochondrion; Phosphoprotein; Protease; Protein transport;
KW   Reference proteome; S-nitrosylation; Thiol protease; Transport;
KW   Ubl conjugation; Ubl conjugation pathway.
FT   CHAIN           1..393
FT                   /note="Cysteine protease ATG4B"
FT                   /id="PRO_0000215845"
FT   MOTIF           388..391
FT                   /note="LIR"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   ACT_SITE        74
FT                   /note="Nucleophile"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   ACT_SITE        278
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   ACT_SITE        280
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         1
FT                   /note="N-acetylmethionine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         34
FT                   /note="Phosphoserine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         189
FT                   /note="S-nitrosocysteine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         292
FT                   /note="S-nitrosocysteine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         301
FT                   /note="S-nitrosocysteine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         316
FT                   /note="Phosphoserine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         383
FT                   /note="Phosphoserine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   MOD_RES         392
FT                   /note="Phosphoserine"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   DISULFID        292..361
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   DISULFID        292
FT                   /note="Interchain (with C-361)"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   DISULFID        361
FT                   /note="Interchain (with C-292)"
FT                   /evidence="ECO:0000250|UniProtKB:Q9Y4P1"
FT   CONFLICT        128..153
FT                   /note="IAQMGVGEGKSIGQWYGPNTVAQVLK -> NCLNCHCCGVMLMLYKAHGSVL
FT                   AFCR (in Ref. 4; AAH27184)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        190
FT                   /note="A -> V (in Ref. 1; CAD43220 and 3; BAC26079/
FT                   BAC27455/BAC35965)"
FT                   /evidence="ECO:0000305"
FT   CONFLICT        325
FT                   /note="T -> K (in Ref. 3; BAC40587, 4 and 5)"
FT                   /evidence="ECO:0000305"
SQ   SEQUENCE   393 AA;  44375 MW;  EB9BF54B06F79135 CRC64;
     MDAATLTYDT LRFAEFEDFP ETSEPVWILG RKYSIFTEKD EILSDVASRL WFTYRRNFPA
     IGGTGPTSDT GWGCMLRCGQ MIFAQALVCR HLGRDWRWTQ RKRQPDSYFN VLNAFLDRKD
     SYYSIHQIAQ MGVGEGKSIG QWYGPNTVAQ VLKKLAVFDT WSSLAVHIAM DNTVVMEEIR
     RLCRANLPCA GAAALPTDSE RHCNGFPAGA EVTNRPSAWR PLVLLIPLRL GLTDINEAYV
     ETLKHCFMMP QSLGVIGGKP NSAHYFIGYV GEELIYLDPH TTQPAVELTD SCFIPDESFH
     CQHPPSRMGI GELDPSIAVG FFCKTEEDFN DWCQQVKKLS QLGGALPMFE LVEQQPSHLA
     CQDVLNLSLD SSDVERLERF FDSEDEDFEI LSL
 
 
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