6SUR

The Rab33B-Atg16L1 crystal structure

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8057384	3002022	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8057384	3002022	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ras-like P-loop GTPases	8057384	3002022	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8057384	3002022	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ras-like P-loop GTPases	8057384	3002022	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Ras-like P-loop GTPases	8057384	3002022	SCOP2B (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	Ras	e6surA1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
B	Ras	e6surB1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
C	Ras	e6surC1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
D	Ras	e6surD1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
E	Ras	e6surE1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)
F	Ras	e6surF1	A: a/b three-layered sandwiches	X: P-loop domains-like	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Ras	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00071	Ras family (Ras)	Ras family	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motil ...	Includes sub-families Ras, Rab, Rac, Ral, Ran, Rap Ypt1 and more. Shares P-loop motif with GTP_EFTU, arf and myosin_head. See Pfam:PF00009 Pfam:PF00025, Pfam:PF00063. As regards Rab GTPases, these are important regulators of vesicle formation, motility and fusion. They share a fold in common with all Ras GTPases: this is a six-stranded beta-sheet surrounded by five alpha-helices [1].	Domain
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	PF08614	Autophagy protein 16 (ATG16) (ATG16)	Autophagy protein 16 (ATG16)	-	Coiled-coil

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F	Ras-related protein Rab-33B	binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding organic cyclic compound binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding organic cyclic compound binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding pyrophosphatase activity GTPase activity ribonucleoside triphosphate phosphatase activity hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides hydrolase activity hydrolase activity, acting on acid anhydrides catalytic activity	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport developmental process multicellular organism development multicellular organismal process anatomical structure morphogenesis skeletal system development anatomical structure development animal organ development localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport developmental process multicellular organism development multicellular organismal process anatomical structure morphogenesis skeletal system development anatomical structure development animal organ development skeletal system morphogenesis animal organ morphogenesis system development autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy cellular metabolic process autophagy autophagosome organization cellular component biogenesis cellular component organization cellular catabolic process organelle organization cellular component assembly metabolic process cellular component organization or biogenesis process utilizing autophagic mechanism regulation of localization regulation of cellular process regulation of constitutive secretory pathway negative regulation of biological process negative regulation of transport secretion by cell regulation of secretion by cell negative regulation of secretion negative regulation of exocytosis negative regulation of cellular process negative regulation of secretion by cell regulation of biological process secretion regulation of transport biological regulation export from cell regulation of vesicle-mediated transport regulation of secretion exocytosis constitutive secretory pathway regulation of exocytosis negative regulation of constitutive secretory pathway protein localization cellular localization protein localization to Golgi apparatus protein localization to organelle cellular macromolecule localization macromolecule localization establishment of protein localization nitrogen compound transport organic substance transport protein transport regulation of retrograde vesicle-mediated transport, Golgi to ER retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum cellular response to stimulus small GTPase-mediated signal transduction response to stimulus signaling intracellular signal transduction cell communication intracellular signaling cassette Rab protein signal transduction signal transduction regulation of cellular component organization regulation of organelle organization regulation of Golgi organization Golgi organization endomembrane system organization	membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle organelle lumen organelle cytoplasm endosome membrane-bounded organelle intracellular anatomical structure Golgi apparatus membrane-enclosed lumen cellular anatomical entity intracellular membrane-bounded organelle endomembrane system intracellular organelle lumen Golgi lumen intracellular organelle organelle lumen organelle cytoplasm endosome intracellular vesicle cytoplasmic vesicle vesicle Golgi membrane membrane bounding membrane of organelle organelle membrane presynapse synapse cell junction
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	Autophagy-related protein 16-1	protein binding binding enzyme binding GTPase binding protein-membrane adaptor activity protein-macromolecule adaptor activity molecular adaptor activity identical protein binding	developmental process corpus callosum development multicellular organismal process head development forebrain development animal organ development brain development nervous system development multicellular organism development central nervous system development anatomical structure development telencephalon development system development pallium development developmental process corpus callosum development multicellular organismal process head development forebrain development animal organ development brain development nervous system development multicellular organism development central nervous system development anatomical structure development telencephalon development system development pallium development hippocampus development limbic system development autophagosome assembly catabolic process organelle assembly vacuole organization macroautophagy cellular metabolic process autophagy autophagosome organization cellular component biogenesis cellular component organization cellular catabolic process organelle organization cellular component assembly cellular process metabolic process cellular component organization or biogenesis process utilizing autophagic mechanism 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 biological process involved in interspecies interaction between organisms response to stimulus response to other organism defense response xenophagy response to external stimulus response to biotic stimulus defense response to other organism response to stress response to external biotic stimulus microautophagy defense response to symbiont defense response to virus response to virus cellular biosynthetic process RNA metabolic process viral life cycle RNA biosynthetic process nucleobase-containing compound metabolic process nucleic acid biosynthetic process organic substance metabolic process viral RNA genome replication viral process organic substance biosynthetic process primary metabolic process nucleobase-containing compound biosynthetic process macromolecule biosynthetic process nucleic acid metabolic process organic cyclic compound metabolic process negative stranded viral RNA replication viral genome replication biosynthetic process organic cyclic compound biosynthetic process macromolecule metabolic process positive regulation of autophagy regulation of biological process regulation of cellular process biological regulation positive regulation of biological process regulation of cellular metabolic process positive regulation of cellular metabolic process regulation of catabolic process regulation of autophagy positive regulation of catabolic process positive regulation of metabolic process regulation of cellular catabolic process positive regulation of cellular catabolic process regulation of metabolic process positive regulation of cellular process protein localization to phagophore assembly site	organelle membrane contact site organelle vacuole-isolation membrane contact site cellular anatomical entity membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium cytoplasmic region plasma membrane bounded cell projection cytoplasm plasma membrane bounded cell projection intracellular organelle cell projection organelle membrane contact site organelle vacuole-isolation membrane contact site cellular anatomical entity membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm cilium cytoplasmic region plasma membrane bounded cell projection cytoplasm plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton intracellular non-membrane-bounded organelle cytoplasm non-membrane-bounded organelle endosome membrane endolysosome membrane intracellular vesicle lytic vacuole endomembrane system bounding membrane of organelle endolysosome vesicle membrane cytoplasmic vesicle vesicle lysosome vacuolar membrane membrane endosome vacuole intracellular membrane-bounded organelle lytic vacuole membrane cytoplasmic vesicle membrane lysosomal membrane organelle membrane cytosol phagophore assembly site membrane phagophore assembly site sperm midpiece 9+2 motile cilium sperm flagellum motile cilium protein-containing complex catalytic complex Atg12-Atg5-Atg16 complex transferase complex autophagosome autophagosome membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR041822	Rab33A/B	Family
A, B, C, D, E A, B, C, D, E, F	IPR001806	Small GTPase	Family
A, B, C, D, E A, B, C, D, E, F	IPR005225	Small GTP-binding protein domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	IPR045160	Autophagy-related protein 16	Family
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	IPR019775	WD40 repeat, conserved site	Conserved Site
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	IPR013923	Autophagy-related protein 16 domain	Domain
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	IPR036322	WD40-repeat-containing domain superfamily	Homologous Superfamily
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	IPR001680	WD40 repeat	Repeat
G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], G [auth I], H [auth J], I [auth K], J [auth L], K [auth M], L [auth N]	IPR020472	G-protein beta WD-40 repeat	Repeat

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.