3SWV | pdb_00003swv

Crystal Structure of a domain of Brefeldin A-inhibited guanine nucleotide-exchange protein 2 (Brefeldin A-inhibited GEP 2) from Homo sapiens (Human), Northeast Structural Genomics Consortium target id HR5562A

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	d3swva_	All alpha proteins	alpha-alpha superhelix	Sec7 domain	automated matches	automated matches	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)
A	SCOP2B Superfamily	Sec7 domain-like	8080824	3001279	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		e3swvA1	A: Cystatin-like	X: Immunoglobulin-related	H: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	T: HATPase_c	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	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	Brefeldin A-inhibited guanine nucleotide-exchange protein 2	protein binding binding signaling receptor binding GABA receptor binding protein kinase A binding protein kinase A regulatory subunit binding cytoskeletal protein binding myosin binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	receptor metabolic process metabolic process cellular process macromolecule metabolic process receptor recycling Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization receptor metabolic process metabolic process cellular process macromolecule metabolic process receptor recycling Golgi to plasma membrane transport cellular localization post-Golgi vesicle-mediated transport transport localization within membrane establishment of localization vesicle-mediated transport vesicle-mediated transport to the plasma membrane localization Golgi vesicle transport establishment of protein localization protein transport macromolecule localization intracellular protein localization cellular component organization cellular component organization or biogenesis endomembrane system organization 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 multicellular organismal process regulation of tumor necrosis factor production positive regulation of biological process positive regulation of macromolecule biosynthetic process positive regulation of metabolic process positive regulation of tumor necrosis factor superfamily cytokine production positive regulation of biosynthetic process cytokine production regulation of cytokine production regulation of multicellular organismal process positive regulation of macromolecule metabolic process positive regulation of cellular process regulation of biosynthetic process tumor necrosis factor superfamily cytokine production positive regulation of tumor necrosis factor production regulation of macromolecule metabolic process gene expression macromolecule biosynthetic process tumor necrosis factor production regulation of gene expression regulation of tumor necrosis factor superfamily cytokine production biosynthetic process positive regulation of gene expression positive regulation of multicellular organismal process regulation of macromolecule biosynthetic process positive regulation of cytokine production regulation of metabolic process secretion by cell exocytosis secretion export from cell vesicle organization organelle organization endosome organization	symmetric synapse cellular anatomical structure neuron to neuron synapse synapse cell junction membrane polymeric cytoskeletal fiber membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm axonemal microtubule intracellular membraneless organelle cilium symmetric synapse cellular anatomical structure neuron to neuron synapse synapse cell junction membrane polymeric cytoskeletal fiber membrane-bounded organelle intracellular anatomical structure axoneme ciliary plasm axonemal microtubule intracellular membraneless organelle cilium cytoplasmic microtubule plasma membrane bounded cell projection intracellular organelle cell projection cytoskeleton organelle membraneless organelle cytoplasm supramolecular fiber microtubule supramolecular polymer supramolecular complex microtubule cytoskeleton centrosome microtubule organizing center cytosol presynapse GABA-ergic synapse glutamatergic synapse cytoplasmic vesicle intracellular vesicle intracellular membrane-bounded organelle vesicle Golgi apparatus subcompartment Golgi apparatus organelle subcompartment endomembrane system trans-Golgi network Golgi membrane bounding membrane of organelle organelle membrane endosome recycling endosome neuron spine neuron projection dendritic spine somatodendritic compartment postsynapse dendrite dendritic tree perinuclear region of cytoplasm asymmetric synapse

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR016024	Armadillo-type fold	Homologous Superfamily
A	IPR046455	Sec7/BIG1-like, C-terminal domain	Domain
A	IPR032691	Mon2/Sec7/BIG1-like, HUS domain	Domain
A	IPR011989	Armadillo-like helical	Homologous Superfamily
A	IPR035999	Sec7 domain superfamily	Homologous Superfamily
A	IPR000904	Sec7 domain	Domain
A	IPR023394	Sec7, C-terminal domain superfamily	Homologous Superfamily
A	IPR032629	Mon2/Sec7/BIG1-like, dimerisation and cyclophilin-binding domain	Domain
A	IPR015403	Mon2/Sec7/BIG1-like, HDS	Domain

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9Y6D5	periventricular nodular heterotopia periventricular heterotopia with microcephaly, autosomal recessive adenoma colorectal cancer glioblastoma large cell medulloblastoma microcephaly astrocytic tumor endogenous depression IgA glomerulonephritis Malformations of Cortical Development osteosarcoma colorectal adenoma intellectual disability ovarian cancer periventricular nodular heterotopia periventricular heterotopia with microcephaly, autosomal recessive adenoma colorectal cancer glioblastoma large cell medulloblastoma microcephaly astrocytic tumor endogenous depression IgA glomerulonephritis Malformations of Cortical Development osteosarcoma colorectal adenoma intellectual disability ovarian cancer 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.