4C0A | pdb_00004c0a

Arf1(Delta1-17)in complex with BRAG2 Sec7-PH domain

External Resource: Annotation

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: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	Ras-like P-loop GTPases	8056739	3002022	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Ras-like P-loop GTPases	8056739	3002022	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Ras-like P-loop GTPases	8056739	3002022	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ras-like P-loop GTPases	8056739	3002022	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	PH domain-like	8091067	3000134	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	PH domain-like	8091067	3000134	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	PH domain-like	8091067	3000134	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PH domain-like	8091067	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)
H	Ras	e4c0aH1	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)
G	Ras	e4c0aG1	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	e4c0aD1	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	e4c0aC1	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	IQ_SEC7_PH	e4c0aF4	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: IQ_SEC7_PH	ECOD (1.6)
F	Sec7	e4c0aF3	A: alpha arrays	X: Sec7 domain (From Topology)	H: Sec7 domain (From Topology)	T: Sec7 domain	F: Sec7	ECOD (1.6)
E	IQ_SEC7_PH	e4c0aE1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: IQ_SEC7_PH	ECOD (1.6)
E	Sec7	e4c0aE2	A: alpha arrays	X: Sec7 domain (From Topology)	H: Sec7 domain (From Topology)	T: Sec7 domain	F: Sec7	ECOD (1.6)
B	IQ_SEC7_PH	e4c0aB4	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: IQ_SEC7_PH	ECOD (1.6)
B	Sec7	e4c0aB3	A: alpha arrays	X: Sec7 domain (From Topology)	H: Sec7 domain (From Topology)	T: Sec7 domain	F: Sec7	ECOD (1.6)
A	IQ_SEC7_PH	e4c0aA1	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: IQ_SEC7_PH	ECOD (1.6)
A	Sec7	e4c0aA2	A: alpha arrays	X: Sec7 domain (From Topology)	H: Sec7 domain (From Topology)	T: Sec7 domain	F: Sec7	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
G	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)
C	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)
F	1.10.220.20	Mainly Alpha	Orthogonal Bundle	Annexin V	domain 1	CATH (4.3.0)
F	1.10.1000.11	Mainly Alpha	Orthogonal Bundle	Arf Nucleotide-binding Site Opener	domain 2	CATH (4.3.0)
F	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
E	1.10.220.20	Mainly Alpha	Orthogonal Bundle	Annexin V	domain 1	CATH (4.3.0)
E	1.10.1000.11	Mainly Alpha	Orthogonal Bundle	Arf Nucleotide-binding Site Opener	domain 2	CATH (4.3.0)
E	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
B	1.10.220.20	Mainly Alpha	Orthogonal Bundle	Annexin V	domain 1	CATH (4.3.0)
B	1.10.1000.11	Mainly Alpha	Orthogonal Bundle	Arf Nucleotide-binding Site Opener	domain 2	CATH (4.3.0)
B	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
A	1.10.220.20	Mainly Alpha	Orthogonal Bundle	Annexin V	domain 1	CATH (4.3.0)
A	1.10.1000.11	Mainly Alpha	Orthogonal Bundle	Arf Nucleotide-binding Site Opener	domain 2	CATH (4.3.0)
A	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
C, D, G, H	PF00025	ADP-ribosylation factor family (Arf)	ADP-ribosylation factor family	Pfam combines a number of different Prosite families together	Domain
A, B, E, F	PF16453	PH domain (IQ_SEC7_PH)	PH domain	This PH domain is found in IQ motif and SEC7 domain-containing proteins.	Domain
A, B, E, F	PF01369	Sec7 domain (Sec7)	Sec7 domain	The Sec7 domain is a guanine-nucleotide-exchange-factor (GEF) for the Pfam:PF00025 family [2].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D, G, H	ADP-RIBOSYLATION FACTOR 1	binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion 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	cellular localization establishment of protein localization nitrogen compound transport transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport cellular component organization cellular localization establishment of protein localization nitrogen compound transport transport intracellular transport establishment of localization localization protein transport establishment of localization in cell macromolecule localization cellular process intracellular protein localization intracellular protein transport cellular component organization cell junction organization dendritic spine organization postsynapse organization plasma membrane bounded cell projection organization cell projection organization neuron projection organization synapse organization cellular component organization or biogenesis vesicle-mediated transport regulation of cellular process 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 regulation of biological process biological regulation cell-cell signaling chemical synaptic transmission regulation of trans-synaptic signaling long-term synaptic depression anterograde trans-synaptic signaling regulation of cell communication regulation of localization import into cell regulation of cellular component organization receptor internalization regulation of transport regulation of receptor-mediated endocytosis regulation of vesicle-mediated transport regulation of receptor internalization endocytosis receptor-mediated endocytosis regulation of endocytosis 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	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane membrane bounding membrane of organelle organelle membrane cytosol membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure Golgi apparatus organelle cytoplasm intracellular membrane-bounded organelle endomembrane system Golgi membrane membrane bounding membrane of organelle organelle membrane cytosol postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization synapse cell junction asymmetric synapse cell periphery plasma membrane cell projection neuron projection plasma membrane bounded cell projection
A, B, E, F	IQ MOTIF AND SEC7 DOMAIN-CONTAINING PROTEIN 1	binding lipid binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	developmental process dendritic spine development multicellular organismal process plasma membrane bounded cell projection organization cellular developmental process cell projection organization cell development neuron projection development nervous system development cellular component organization generation of neurons neurogenesis multicellular organism development neuron differentiation dendrite development developmental process dendritic spine development multicellular organismal process plasma membrane bounded cell projection organization cellular developmental process cell projection organization cell development neuron projection development nervous system development cellular component organization generation of neurons neurogenesis multicellular organism development neuron differentiation dendrite development cell differentiation neuron development anatomical structure development cellular process cellular component organization or biogenesis system development positive regulation of locomotion regulation of cell motility regulation of cellular process positive regulation of biological process regulation of keratinocyte migration positive regulation of cell migration positive regulation of epithelial cell migration tissue migration ameboidal-type cell migration positive regulation of cell motility regulation of cell migration cell migration regulation of multicellular organismal process epithelial cell migration cell motility regulation of epithelial cell migration locomotion positive regulation of cellular process regulation of biological process biological regulation epithelium migration regulation of locomotion positive regulation of keratinocyte migration keratinocyte migration cellular response to stimulus regulation of signaling small GTPase-mediated signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction regulation of signal transduction ARF protein signal transduction intracellular signal transduction cell communication regulation of intracellular signal transduction regulation of response to stimulus regulation of ARF protein signal transduction intracellular signaling cassette regulation of cell communication signal transduction cellular component disassembly regulation of focal adhesion disassembly regulation of cellular component organization positive regulation of cellular component organization focal adhesion disassembly cell junction disassembly cell-substrate junction disassembly positive regulation of cell-substrate junction organization cell junction organization positive regulation of focal adhesion disassembly cell-substrate junction organization regulation of cell-substrate junction organization organelle organization actin cytoskeleton organization actin filament-based process cytoskeleton organization	cellular anatomical structure membrane intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol postsynaptic density cellular anatomical structure membrane intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton organelle membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization synapse cell junction asymmetric synapse membrane-bounded organelle intracellular membrane-bounded organelle transport vesicle intracellular vesicle endomembrane system presynapse cytoplasmic vesicle synaptic vesicle secretory vesicle vesicle exocytic vesicle nucleus membrane-enclosed lumen intracellular organelle lumen nucleoplasm organelle lumen nuclear lumen

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D, G, H	IPR005225	Small GTP-binding domain	Domain
C, D, G, H	IPR045872	ADP-ribosylation factor 1-5	Family
C, D, G, H	IPR024156	Small GTPase superfamily, ARF type	Family
C, D, G, H	IPR006689	Small GTPase superfamily, ARF/SAR type	Family
C, D, G, H	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A, B, E, F	IPR001849	Pleckstrin homology domain	Domain
A, B, E, F	IPR033742	IQ motif and SEC7 domain-containing protein, PH domain	Domain
A, B, E, F	IPR000904	Sec7 domain	Domain
A, B, E, F	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B, E, F	IPR023394	Sec7, C-terminal domain superfamily	Homologous Superfamily
A, B, E, F	IPR035999	Sec7 domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A, B, E, F	Pharos: Q6DN90	astrocytic tumor B-cell chronic lymphocytic leukemia lung benign neoplasm malignant glioma medulloblastoma osteosarcoma subependymal giant cell astrocytoma atrial fibrillation glioblastoma Lung Neoplasms malignant mesothelioma non-small cell lung carcinoma pilocytic astrocytoma atypical teratoid rhabdoid tumor large cell medulloblastoma astrocytic tumor B-cell chronic lymphocytic leukemia lung benign neoplasm malignant glioma medulloblastoma osteosarcoma subependymal giant cell astrocytoma atrial fibrillation glioblastoma Lung Neoplasms malignant mesothelioma non-small cell lung carcinoma pilocytic astrocytoma atypical teratoid rhabdoid tumor large cell medulloblastoma malignant ependymoma oligodendroglioma primitive neuroectodermal tumor

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.