4DCN | pdb_00004dcn

Crystal Structure Analysis of the Arfaptin2 BAR domain in Complex with ARL1

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
D	d4dcnd_	All alpha proteins	BAR/IMD domain-like	BAR/IMD domain-like	Arfaptin, Rac-binding fragment	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
C	d4dcnc_	All alpha proteins	BAR/IMD domain-like	BAR/IMD domain-like	Arfaptin, Rac-binding fragment	automated matches	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
B	d4dcnb_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	human (Homo sapiens ) [TaxId: 9606 ],	SCOPe (2.08)
A	d4dcna_	Alpha and beta proteins (a/b)	P-loop containing nucleoside triphosphate hydrolases	P-loop containing nucleoside triphosphate hydrolases	G proteins	ADP-ribosylation factor	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)
D	SCOP2B Superfamily	BAR/IMD domain-like	8033639	3000528	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	BAR/IMD domain-like	8033639	3000528	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Ras-like P-loop GTPases	8057422	3002022	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ras-like P-loop GTPases	8057422	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)
D	Arfaptin	e4dcnD1	A: alpha duplicates or obligate multimers	X: BAR/IMD domain-like	H: BAR/IMD domain-like (From Topology)	T: BAR/IMD domain-like	F: Arfaptin	ECOD (1.6)
C	Arfaptin	e4dcnC1	A: alpha duplicates or obligate multimers	X: BAR/IMD domain-like	H: BAR/IMD domain-like (From Topology)	T: BAR/IMD domain-like	F: Arfaptin	ECOD (1.6)
B	Ras	e4dcnB1	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	e4dcnA1	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)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.20.1270.60	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	CATH (4.3.0)
C	1.20.1270.60	Mainly Alpha	Up-down Bundle	Substrate Binding Domain Of Dnak	Chain:A	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)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, D	Arfaptin-2	small GTPase binding protein binding binding enzyme binding GTPase binding protein domain specific binding GTP-dependent protein binding phospholipid binding lipid binding guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding purine ribonucleotide binding small GTPase binding protein binding binding enzyme binding GTPase binding protein domain specific binding GTP-dependent protein binding phospholipid binding lipid 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 cell adhesion molecule binding cadherin binding phosphatidylinositol phosphate binding phosphatidylinositol-4-phosphate binding phosphatidylinositol binding membrane curvature sensor activity molecular sensor activity molecular function regulator activity identical protein binding	lamellipodium assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component organization cellular component biogenesis cellular component assembly lamellipodium organization cellular process cellular component organization or biogenesis cell projection assembly organelle organization actin cytoskeleton organization actin filament-based process lamellipodium assembly plasma membrane bounded cell projection organization cell projection organization plasma membrane bounded cell projection assembly cellular component organization cellular component biogenesis cellular component assembly lamellipodium organization cellular process cellular component organization or biogenesis cell projection assembly organelle organization actin cytoskeleton organization actin filament-based process cytoskeleton 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 intracellular protein localization intracellular protein transport ruffle organization regulation of Arp2/3 complex-mediated actin nucleation regulation of cytoskeleton organization regulation of cellular component organization regulation of cellular process regulation of actin filament-based process regulation of actin nucleation regulation of biological process regulation of actin filament organization actin filament organization biological regulation Arp2/3 complex-mediated actin nucleation regulation of organelle organization regulation of actin cytoskeleton organization regulation of supramolecular fiber organization actin nucleation supramolecular fiber organization mitophagy catabolic process macroautophagy autophagy metabolic process autophagy of mitochondrion process utilizing autophagic mechanism cellular response to stimulus small GTPase-mediated signal transduction response to stimulus signaling intracellular signal transduction cell communication intracellular signaling cassette signal transduction autophagosome assembly organelle assembly vacuole organization autophagosome organization protein localization to phagophore assembly site	membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen membrane-bounded organelle intracellular anatomical structure nucleus membrane-enclosed lumen intracellular membraneless organelle intracellular membrane-bounded organelle nucleolus intracellular organelle lumen intracellular organelle cellular anatomical structure organelle lumen organelle membraneless organelle nuclear lumen cell periphery cell cortex cytoplasm cytosol plasma membrane membrane Golgi apparatus endomembrane system ruffle cell projection cell leading edge plasma membrane bounded cell projection Golgi apparatus subcompartment organelle subcompartment trans-Golgi network membrane trans-Golgi network organelle membrane
A, B	ADP-ribosylation factor-like protein 1	protein binding binding protein domain specific binding enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity phospholipase D activator activity phospholipase activator activity lipase activator activity guanyl nucleotide binding GTP binding nucleotide binding guanyl ribonucleotide binding protein binding binding protein domain specific binding enzyme regulator activity enzyme activator activity molecular function activator activity molecular function regulator activity phospholipase D activator activity phospholipase activator activity lipase activator activity 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 cation 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	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 protein localization to Golgi apparatus 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 protein localization to Golgi apparatus protein localization to organelle vesicle-mediated transport endosomal transport cytosolic transport retrograde transport, endosome to Golgi metabolic process toxin metabolic process secondary metabolic process cellular component organization organelle organization cellular component organization or biogenesis Golgi organization endomembrane system organization	membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle trans-Golgi network cytoplasm Golgi membrane membrane membrane-bounded organelle intracellular anatomical structure Golgi apparatus subcompartment Golgi apparatus organelle subcompartment intracellular membrane-bounded organelle endomembrane system intracellular organelle cellular anatomical structure organelle trans-Golgi network cytoplasm Golgi membrane membrane bounding membrane of organelle organelle membrane cytosol trans-Golgi network membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, D	IPR030798	Arfaptin family	Family
C, D	IPR010504	Arfaptin homology (AH) domain	Domain
C, D	IPR027267	AH/BAR domain superfamily	Homologous Superfamily
A, B	IPR005225	Small GTP-binding domain	Domain
A, B	IPR024156	Small GTPase superfamily, ARF type	Family
A, B	IPR006689	Small GTPase superfamily, ARF/SAR type	Family
A, B	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
C, D	Pharos: P53365	ductal breast carcinoma in situ invasive ductal breast carcinoma lung cancer
A, B	Pharos: P40616	astrocytic tumor glioblastoma large cell medulloblastoma ovarian cancer Crohn disease hereditary spastic paraplegia medulloblastoma pancreatic ductal adenocarcinoma dermatomyositis invasive ductal breast carcinoma osteosarcoma

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.