1RE0 | pdb_00001re0

Structure of ARF1-GDP bound to Sec7 domain complexed with Brefeldin A

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)
A	d1re0a_	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)
B	d1re0b1	All alpha proteins	alpha-alpha superhelix	Sec7 domain	Sec7 domain	ARF guanine-exchange factor 1	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)
B	d1re0b2	Artifacts	Tags	Tags	Tags	N-terminal Tags	baker's yeast (Saccharomyces cerevisiae ) [TaxId: 4932 ],	SCOPe (2.08)

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	8089848	3002022	SCOP2B (2022-06-29)
B	SCOP2 Family	Sec7 domain-like	8028131	4001318	SCOP2 (2022-06-29)
B	SCOP2 Superfamily	Sec7 domain-like	8040510	3001279	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		e1re0A1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: GBP	F:	ECOD (20:10:01)
B		e1re0B1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: p53 tetramerization domain	H: p53 tetramerization domain	T: Cation_efflux	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.300	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	P-loop containing nucleotide triphosphate hydrolases	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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00025	ADP-ribosylation factor family (Arf)	ADP-ribosylation factor family	Pfam combines a number of different Prosite families together	Domain
B	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
A	ADP-ribosylation factor 1	protein binding binding protein domain specific binding RNA binding nucleic acid 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 protein binding binding protein domain specific binding RNA binding nucleic acid 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 cation binding magnesium ion binding metal ion binding pyrophosphatase activity GTPase activity G protein activity ribonucleoside triphosphate phosphatase activity molecular function regulator 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 regulation of localization import into cell regulation of biological process 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 regulation of localization import into cell regulation of biological process regulation of cellular process regulation of cellular component organization receptor internalization regulation of transport transport regulation of receptor-mediated endocytosis biological regulation regulation of vesicle-mediated transport regulation of receptor internalization establishment of localization vesicle-mediated transport cellular component organization localization cellular process cellular component organization or biogenesis endocytosis receptor-mediated endocytosis regulation of endocytosis cellular localization establishment of protein localization intracellular transport protein transport establishment of localization in cell macromolecule localization intracellular protein localization intracellular protein transport 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 anchoring junction cell junction focal adhesion cell-substrate junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle cellular anatomical structure anchoring junction cell junction focal adhesion cell-substrate junction extracellular exosome membrane-bounded organelle extracellular vesicle extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular anatomical structure cytoplasm cytosol cell leading edge cell periphery plasma membrane membrane protein-containing complex cell projection neuron projection plasma membrane bounded cell projection intracellular membraneless organelle sarcomere intracellular organelle membraneless organelle contractile muscle fiber supramolecular fiber myofibril supramolecular polymer supramolecular complex Golgi membrane Golgi apparatus intracellular membrane-bounded organelle endomembrane system bounding membrane of organelle organelle membrane postsynaptic density postsynapse neuron to neuron synapse postsynaptic specialization synapse asymmetric synapse
B	ARF guanine-nucleotide exchange factor 1	GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum cellular response to stimulus localization transport cellular process establishment of localization Golgi vesicle transport vesicle-mediated transport intra-Golgi vesicle-mediated transport catabolic process macroautophagy autophagy metabolic process process utilizing autophagic mechanism retrograde vesicle-mediated transport, Golgi to endoplasmic reticulum 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 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 organization organelle organization actin cytoskeleton organization actin filament-based process cellular component organization or biogenesis cytoskeleton organization cellular localization establishment of localization in cell intracellular transport endoplasmic reticulum to Golgi vesicle-mediated transport	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cytosol cellular bud Golgi apparatus subcompartment Golgi apparatus organelle subcompartment membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure mitochondrion organelle cytoplasm intracellular membrane-bounded organelle membrane cytosol cellular bud Golgi apparatus subcompartment Golgi apparatus organelle subcompartment Golgi cisterna endomembrane system Golgi cis cisterna Golgi stack endoplasmic reticulum

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR045872	ADP-ribosylation factor 1-5	Family
A	IPR027417	P-loop containing nucleoside triphosphate hydrolase	Homologous Superfamily
A	IPR005225	Small GTP-binding domain	Domain
A	IPR024156	Small GTPase superfamily, ARF type	Family
A	IPR006689	Small GTPase superfamily, ARF/SAR type	Family
B	IPR000904	Sec7 domain	Domain
B	IPR032691	Mon2/Sec7/BIG1-like, HUS domain	Domain
B	IPR023394	Sec7, C-terminal domain superfamily	Homologous Superfamily
B	IPR035999	Sec7 domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P84077	breast carcinoma Neoplasm Invasiveness acute myeloid leukemia idiopathic scoliosis atypical teratoid rhabdoid tumor diabetes mellitus large cell medulloblastoma ovarian cancer breast cancer glioblastoma malignant glioma plasma cell myeloma

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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.