Annotations: 5LXI

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A [auth D]	SCOP2B Superfamily	Ubiquitin-like	8068228	3000157	SCOP2B (2022-06-29)
B	SCOP2 Family	GABARAP-like	8068227	4000970	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Ubiquitin-like	8068228	3000157	SCOP2 (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A [auth D]	PF02991	e5lxiD1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF02991	ECOD (1.6)
B	PF02991	e5lxiB1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: PF02991	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A [auth D]	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)
B	3.10.20.90	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Phosphatidylinositol 3-kinase Catalytic Subunit	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A [auth D], B	PF02991	Autophagy protein Atg8 ubiquitin like (ATG8)	Autophagy protein Atg8 ubiquitin like	Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [1]. Autophagy is generally known as a process involved in the degradation of ...	Light chain 3 is proposed to function primarily as a subunit of microtubule associated proteins 1A and 1B and that its expression may regulate microtubule binding activity [1]. Autophagy is generally known as a process involved in the degradation of bulk cytoplasmic components that are non-specifically sequestered into an autophagosome, where they are sequestered into double-membrane vesicles and delivered to the degradative organelle, the lysosome/vacuole, for breakdown and eventual recycling of the resulting macromolecules. The yeast proteins are involved in the autophagosome, and Atg8 binds Atg19, via its N-terminus and the C-terminus of Atg19.	Domain
C, D [auth E]	PF20166	ATG4, F-type LIR motif (ATG4_LIR)	ATG4, F-type LIR motif	-	Motif

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A [auth D], B	Gamma-aminobutyric acid receptor-associated protein-like 1	transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding Tat protein binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding cytoskeletal protein binding beta-tubulin binding tubulin binding signaling receptor binding GABA receptor binding transcription factor binding RNA polymerase II-specific DNA-binding transcription factor binding protein binding binding DNA-binding transcription factor binding Tat protein binding ubiquitin protein ligase binding ubiquitin-like protein ligase binding enzyme binding cytoskeletal protein binding beta-tubulin binding tubulin binding signaling receptor binding GABA receptor binding phospholipid binding lipid binding	catabolic process energy derivation by oxidation of organic compounds macroautophagy carbohydrate catabolic process autophagy macromolecule catabolic process cellular catabolic process polysaccharide metabolic process organic substance metabolic process glucan metabolic process glycogen catabolic process process utilizing autophagic mechanism carbohydrate metabolic process glucan catabolic process catabolic process energy derivation by oxidation of organic compounds macroautophagy carbohydrate catabolic process autophagy macromolecule catabolic process cellular catabolic process polysaccharide metabolic process organic substance metabolic process glucan metabolic process glycogen catabolic process process utilizing autophagic mechanism carbohydrate metabolic process glucan catabolic process glycogen metabolic process cellular metabolic process primary metabolic process generation of precursor metabolites and energy glycophagy polysaccharide catabolic process metabolic process energy reserve metabolic process cellular process macromolecule metabolic process organic substance catabolic process cellular response to stimulus response to nutrient levels cellular response to nitrogen levels response to stimulus cellular response to starvation cellular response to nutrient levels cellular response to stress cellular response to nitrogen starvation response to stress response to starvation autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular component organization or biogenesis	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle cellular anatomical entity intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane vacuole autophagosome vacuolar membrane autophagosome membrane bounding membrane of organelle Golgi apparatus endomembrane system cytosol polymeric cytoskeletal fiber cytoskeleton intracellular non-membrane-bounded organelle supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton non-membrane-bounded organelle endoplasmic reticulum
C, D [auth E]	Cysteine protease ATG4B	peptidase activity catalytic activity, acting on a protein hydrolase activity catalytic activity endopeptidase activity cysteine-type peptidase activity cysteine-type endopeptidase activity scaffold protein binding protein binding binding protein-phosphatidylethanolamide deconjugating activity	developmental process ear development sensory organ development animal organ development tissue development otolith mineralization otolith development otolith mineralization completed early in development inner ear development anatomical structure development biomineral tissue development cellular catabolic process catabolic process macroautophagy developmental process ear development sensory organ development animal organ development tissue development otolith mineralization otolith development otolith mineralization completed early in development inner ear development anatomical structure development biomineral tissue development cellular catabolic process catabolic process macroautophagy cellular metabolic process autophagy cellular process metabolic process process utilizing autophagic mechanism organic substance metabolic process organonitrogen compound metabolic process macromolecule modification protein delipidation primary metabolic process protein metabolic process macromolecule metabolic process protein modification process autophagosome assembly organelle assembly vacuole organization autophagosome organization cellular component biogenesis cellular component organization organelle organization cellular component assembly cellular component organization or biogenesis microautophagy protein localization establishment of protein localization cellular localization nitrogen compound transport transport organic substance transport establishment of localization localization protein transport cellular macromolecule localization macromolecule localization cellular component disassembly mitophagy organelle disassembly autophagy of mitochondrion mitochondrion organization proteolysis protein localization to phagophore assembly site	membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytoplasmic vesicle intracellular vesicle vesicle vacuolar membrane autophagosome membrane membrane membrane-bounded organelle intracellular organelle intracellular anatomical structure mitochondrion organelle cytoplasm cellular anatomical entity intracellular membrane-bounded organelle cytoplasmic vesicle intracellular vesicle vesicle vacuolar membrane autophagosome membrane membrane vacuole autophagosome bounding membrane of organelle organelle membrane cytosol endoplasmic reticulum endomembrane system

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A [auth D], B	IPR004241	Autophagy protein Atg8 ubiquitin-like	Family
A [auth D], B	IPR029071	Ubiquitin-like domain superfamily	Homologous Superfamily
C, D [auth E]	IPR046792	Peptidase C54, catalytic domain	Domain
C, D [auth E]	IPR005078	Peptidase C54	Family
C, D [auth E]	IPR046793	Cysteine protease ATG4, F-type LIR motif	Conserved Site
C, D [auth E]	IPR038765	Papain-like cysteine peptidase superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A [auth D], B	Pharos: Q9H0R8	malignant pancreatic neoplasm oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor acute myeloid leukemia transitional cell carcinoma breast cancer ductal breast carcinoma in situ gastric cancer hepatocellular carcinoma lung adenocarcinoma malignant ependymoma MALT lymphoma osteosarcoma pilocytic astrocytoma malignant pancreatic neoplasm oligodendroglioma pancreatic intraductal papillary-mucinous neoplasm primitive neuroectodermal tumor acute myeloid leukemia transitional cell carcinoma breast cancer ductal breast carcinoma in situ gastric cancer hepatocellular carcinoma lung adenocarcinoma malignant ependymoma MALT lymphoma osteosarcoma pilocytic astrocytoma psoriasis astrocytic tumor tuberculosis breast carcinoma endometriosis gastric carcinoma invasive ductal breast carcinoma lung cancer malignant glioma medulloblastoma ovarian cancer pituitary cancer subependymal giant cell astrocytoma atypical teratoid rhabdoid tumor dermatomyositis exocrine pancreatic carcinoma glioblastoma large cell medulloblastoma malignant colon neoplasm
C, D [auth E]	Pharos: Q9Y4P1	allergic rhinitis breast carcinoma ovarian cancer asthma inflammatory bowel disease psoriasis brain glioma osteosarcoma

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
C, D [auth E]	SEP	Parent Component: SER RESID: AA0037 PSI-MOD : O-phospho-L-serine MOD:00046

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), the US Department of Energy (DE-SC0019749), and the National Cancer Institute, National Institute of Allergy and Infectious Diseases, and National Institute of General Medical Sciences of the National Institutes of Health under grant R01GM133198.