2J59

Crystal structure of the ARF1:ARHGAP21-ArfBD complex

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Pharos: Disease Associations

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d2j59f2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
F	d2j59f3	Artifacts	Tags	Tags	Tags	N-terminal Tags	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2j59a2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d2j59a3	Artifacts	Tags	Tags	Tags	N-terminal Tags	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2j59b2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B	d2j59b3	Artifacts	Tags	Tags	Tags	N-terminal Tags	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d2j59c2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C	d2j59c3	Artifacts	Tags	Tags	Tags	N-terminal Tags	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d2j59d2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D	d2j59d3	Artifacts	Tags	Tags	Tags	N-terminal Tags	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d2j59e2	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
E	d2j59e3	Artifacts	Tags	Tags	Tags	N-terminal Tags	MOUSE (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
L [auth R]	d2j59r_	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Rho GTPase-activating protein 21	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
G [auth M]	d2j59m1	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Rho GTPase-activating protein 21	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
H [auth N]	d2j59n_	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Rho GTPase-activating protein 21	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
I [auth O]	d2j59o_	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Rho GTPase-activating protein 21	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
J [auth P]	d2j59p_	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Rho GTPase-activating protein 21	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
K [auth Q]	d2j59q_	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Rho GTPase-activating protein 21	HUMAN (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Ras-like P-loop GTPases	8089852	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8089852	3002022	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8089852	3002022	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ras-like P-loop GTPases	8089852	3002022	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8089852	3002022	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ras-like P-loop GTPases	8089852	3002022	SCOP2B (2022-06-29)
L [auth R]	SCOP2B Superfamily	PH domain-like	8033264	3000134	SCOP2B (2022-06-29)
G [auth M]	SCOP2B Superfamily	PH domain-like	8033264	3000134	SCOP2B (2022-06-29)
H [auth N]	SCOP2 Family	Pleckstrin-homology domain (PH domain)	8020884	4002395	SCOP2 (2022-06-29)
H [auth N]	SCOP2 Superfamily	PH domain-like	8033264	3000134	SCOP2 (2022-06-29)
I [auth O]	SCOP2B Superfamily	PH domain-like	8033264	3000134	SCOP2B (2022-06-29)
J [auth P]	SCOP2B Superfamily	PH domain-like	8033264	3000134	SCOP2B (2022-06-29)
K [auth Q]	SCOP2B Superfamily	PH domain-like	8033264	3000134	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)
F	Ras	e2j59F1	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)
A	Ras	e2j59A1	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	e2j59B1	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	e2j59C1	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	e2j59D1	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	e2j59E1	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)
L [auth R]	PH	e2j59R1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH	ECOD (1.6)
G [auth M]	PH	e2j59M1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH	ECOD (1.6)
H [auth N]	PH	e2j59N1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH	ECOD (1.6)
I [auth O]	PH	e2j59O1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH	ECOD (1.6)
J [auth P]	PH	e2j59P1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH	ECOD (1.6)
K [auth Q]	PH	e2j59Q1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
B	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
D	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
E	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
L [auth R]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
G [auth M]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
G [auth M]	1.20.5.220	Mainly Alpha	Up-down Bundle	Single alpha-helices involved in coiled-coils or other helix-helix interfaces		CATH (4.3.0)
H [auth N]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
I [auth O]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
J [auth P]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
K [auth Q]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F	PF00025	ADP-ribosylation factor family (Arf)	ADP-ribosylation factor family	Pfam combines a number of different Prosite families together	Domain
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	PF00169	PH domain (PH)	PH domain	PH stands for pleckstrin homology.	Domain

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	ADP-RIBOSYLATION FACTOR 1	protein binding binding protein domain specific 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 protein binding binding protein domain specific 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 cation binding magnesium ion binding metal ion 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	inorganic ion homeostasis homeostatic process intracellular copper ion homeostasis copper ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis protein localization establishment of protein localization cellular localization inorganic ion homeostasis homeostatic process intracellular copper ion homeostasis copper ion homeostasis cellular homeostasis chemical homeostasis intracellular monoatomic cation homeostasis monoatomic ion homeostasis intracellular chemical homeostasis monoatomic cation homeostasis intracellular monoatomic ion homeostasis protein localization establishment of protein localization cellular localization nitrogen compound transport transport establishment of localization localization protein transport cellular macromolecule localization macromolecule localization cellular process regulation of localization import into cell regulation of biological process regulation of cellular process regulation of cellular component organization receptor internalization regulation of transport regulation of receptor-mediated endocytosis biological regulation regulation of vesicle-mediated transport regulation of receptor internalization vesicle-mediated transport cellular component organization cellular component organization or biogenesis endocytosis receptor-mediated endocytosis regulation of endocytosis cell junction organization dendritic spine organization postsynapse organization plasma membrane bounded cell projection organization cell projection organization neuron projection organization synapse organization negative regulation of signaling signaling modulation of chemical synaptic transmission negative regulation of biological process negative regulation of synaptic transmission negative regulation of cell communication cell communication synaptic signaling negative regulation of cellular process regulation of biological quality regulation of synaptic plasticity trans-synaptic signaling regulation of signaling cell-cell signaling chemical synaptic transmission regulation of trans-synaptic signaling long-term synaptic depression anterograde trans-synaptic signaling regulation of cell communication membrane organization cytoskeleton-dependent cytokinesis mitotic cytokinetic process cleavage furrow ingression mitotic cytokinesis cytokinesis mitotic cleavage furrow ingression mitotic cell cycle mitotic cell cycle process cytokinetic process membrane invagination cell cycle cell division plasma membrane invagination cell cycle process regulation of Arp2/3 complex-mediated actin nucleation regulation of cytoskeleton organization regulation of actin filament-based process regulation of actin nucleation actin filament-based process regulation of actin filament organization actin cytoskeleton organization actin filament organization Arp2/3 complex-mediated actin nucleation regulation of organelle organization organelle organization regulation of actin cytoskeleton organization regulation of supramolecular fiber organization actin nucleation supramolecular fiber organization cytoskeleton organization cellular response to virus biological process involved in interspecies interaction between organisms response to stimulus response to other organism response to external stimulus response to external biotic stimulus response to virus response to biotic stimulus	cellular anatomical structure endomembrane system intracellular anatomical structure cytoplasm cytosol cell leading edge protein-containing complex cell projection neuron projection plasma membrane bounded cell projection intracellular membraneless organelle sarcomere intracellular organelle organelle cellular anatomical structure endomembrane system intracellular anatomical structure cytoplasm cytosol cell leading edge protein-containing complex cell projection neuron projection plasma membrane bounded cell projection intracellular membraneless organelle sarcomere intracellular organelle organelle membraneless organelle contractile muscle fiber supramolecular fiber myofibril supramolecular polymer supramolecular complex membrane-bounded organelle Golgi apparatus intracellular membrane-bounded organelle Golgi membrane membrane bounding membrane of organelle organelle membrane postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization synapse cell junction asymmetric synapse
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	RHO-GTPASE ACTIVATING PROTEIN 10	GTPase regulator activity enzyme regulator activity enzyme activator activity GTPase activator activity molecular function activator activity nucleoside-triphosphatase regulator activity molecular function regulator activity	Golgi localization establishment of organelle localization localization cellular localization establishment of Golgi localization organelle localization establishment of localization in cell cellular process establishment of localization cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process small GTPase-mediated signal transduction Golgi localization establishment of organelle localization localization cellular localization establishment of Golgi localization organelle localization establishment of localization in cell cellular process establishment of localization cellular response to stimulus regulation of biological process regulation of signaling regulation of cellular process small GTPase-mediated signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction biological regulation regulation of signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus intracellular signaling cassette regulation of cell communication signal transduction cellular component organization organelle organization cellular component organization or biogenesis Golgi organization endomembrane system organization maintenance of Golgi location maintenance of organelle location maintenance of location in cell maintenance of location organelle transport along microtubule transport intracellular transport microtubule-based transport transport along microtubule cytoskeleton-dependent intracellular transport microtubule-based movement microtubule-based process	membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane membrane-bounded organelle intracellular anatomical structure membrane intracellular vesicle intracellular membrane-bounded organelle intracellular organelle cytoplasmic vesicle membrane cellular anatomical structure vesicle membrane cytoplasmic vesicle organelle cytoplasm vesicle organelle membrane cell junction Golgi apparatus endomembrane system Golgi membrane bounding membrane of organelle cytoskeleton membraneless organelle intracellular membraneless organelle actin cytoskeleton cytosol anchoring junction cell periphery plasma membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F	IPR045872	ADP-ribosylation factor 1-5	Family
A, B, C, D, E A, B, C, D, E, F	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F	IPR005225	Small GTP-binding domain	Domain
A, B, C, D, E A, B, C, D, E, F	IPR024156	Small GTPase superfamily, ARF type	Family
A, B, C, D, E A, B, C, D, E, F	IPR006689	Small GTPase superfamily, ARF/SAR type	Family
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	IPR000198	Rho GTPase-activating protein domain	Domain
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	IPR001849	Pleckstrin homology domain	Domain
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	IPR041489	PDZ domain 6	Domain
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	IPR036034	PDZ superfamily	Homologous Superfamily
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	IPR011993	PH-like domain superfamily	Homologous Superfamily
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	IPR001478	PDZ domain	Domain
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	IPR008936	Rho GTPase activation protein	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], G [auth M], H [auth N], I [auth O], J [auth P], K [auth Q], L [auth R]	Pharos: Q5T5U3	age-related macular degeneration invasive ductal breast carcinoma pancreatic intraductal papillary-mucinous neoplasm with low grade dysplasia ductal breast carcinoma in situ osteosarcoma primitive neuroectodermal tumor interstitial lung disease ovarian cancer wet macular degeneration

RCSB PDB Core Operations are funded by the U.S. National Science Foundation (DBI-2321666), 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 R01GM157729.