3GF9 | pdb_00003gf9

Crystal structure of human Intersectin 2 RhoGEF 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)
A	SCOP2 Family	DBL homology domain (DH-domain)	8085002	4001108	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	DBL homology domain (DH-domain)	8085003	3000793	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		e3gf9A1	A: UBC-like	X: UBC-like	H: UBC-like	T: Ras	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	1.20.900.10	Mainly Alpha	Up-down Bundle	Dbl Homology Domain	Chain A	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00621	RhoGEF domain (RhoGEF)	RhoGEF domain	Guanine nucleotide exchange factor for Rho/Rac/Cdc42-like GTPases Also called Dbl-homologous (DH) domain. It appears that Pfam:PF00169 domains invariably occur C-terminal to RhoGEF/DH domains.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	Intersectin 2	cation binding ion binding binding calcium ion binding metal ion binding small molecule binding protein-macromolecule adaptor activity molecular adaptor activity GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	developmental process cellular developmental process cell differentiation cellular process localization cellular localization transport establishment of localization in cell intracellular transport establishment of localization vesicle-mediated transport endosomal transport synaptic vesicle endocytosis import into cell developmental process cellular developmental process cell differentiation cellular process localization cellular localization transport establishment of localization in cell intracellular transport establishment of localization vesicle-mediated transport endosomal transport synaptic vesicle endocytosis import into cell synaptic vesicle cycle presynaptic endocytosis vesicle-mediated transport in synapse synaptic vesicle endosomal processing synaptic vesicle recycling via endosome synaptic vesicle recycling clathrin-dependent synaptic vesicle endocytosis clathrin-dependent endocytosis receptor-mediated endocytosis endocytosis multicellular organismal process regulation of growth regulation of cellular process developmental growth cell projection organization neuron projection development regulation of cell morphogenesis positive regulation of developmental process multicellular organism development cell projection morphogenesis neuron differentiation neuron projection morphogenesis anatomical structure development positive regulation of developmental growth system development regulation of biological process nervous system development developmental growth involved in morphogenesis generation of neurons positive regulation of dendrite extension regulation of cellular component organization regulation of developmental process plasma membrane bounded cell projection morphogenesis positive regulation of biological process cell development cell growth cell morphogenesis cellular component organization neurogenesis cellular component organization or biogenesis dendrite extension positive regulation of cellular process regulation of anatomical structure morphogenesis neuron projection extension regulation of developmental growth plasma membrane bounded cell projection organization developmental cell growth growth biological regulation regulation of dendrite extension positive regulation of cell growth regulation of cell growth anatomical structure morphogenesis positive regulation of growth neuron development	extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular organelle centrosome microtubule organizing center intracellular anatomical structure extracellular exosome membrane-bounded organelle extracellular vesicle cellular anatomical structure extracellular organelle extracellular region organelle extracellular space vesicle extracellular membrane-bounded organelle intracellular organelle centrosome microtubule organizing center intracellular anatomical structure cytoskeleton membraneless organelle intracellular membraneless organelle microtubule cytoskeleton cytoplasm cytosol cell periphery plasma membrane membrane presynapse synapse cell junction presynaptic membrane plasma membrane region synaptic membrane intracellular vesicle intracellular membrane-bounded organelle

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR001849	Pleckstrin homology domain	Domain
A	IPR000261	EH domain	Domain
A	IPR000219	Dbl homology domain	Domain
A	IPR035740	Intersectin-2, fourth SH3 domain	Domain
A	IPR035739	Intersectin-2, third SH3 domain	Domain
A	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A	IPR000008	C2 domain	Domain
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR035737	Intersectin-2, first SH3 domain	Domain
A	IPR002048	EF-hand domain	Domain
A	IPR011992	EF-hand domain pair	Homologous Superfamily
A	IPR035741	Intersectin-2, fifth SH3 domain	Domain
A	IPR018247	EF-Hand 1, calcium-binding site	Binding Site
A	IPR001452	SH3 domain	Domain
A	IPR035738	Intersectin-2, second SH3 domain	Domain
A	IPR051480	Endocytic & GEF Adapter	Family
A	IPR035892	C2 domain superfamily	Homologous Superfamily
A	IPR035899	Dbl homology (DH) domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: Q9NZM3	Neoplasm Recurrence, Local prostate cancer breast carcinoma atypical teratoid rhabdoid tumor dermatomyositis large cell medulloblastoma breast cancer endogenous depression medulloblastoma osteosarcoma Sjogren syndrome glioblastoma myopathy ovarian cancer psoriasis

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.