6NEW | pdb_00006new

Apo structure of the activated truncation of Vav1

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	SCOP2B Superfamily	Cysteine-rich domain	8091661	3001452	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DBL homology domain (DH-domain)	8091659	3000793	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PH domain-like	8091660	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)
A	PH_10	e6newA3	A: beta barrels	X: PH domain-like	H: PH domain-like (From Topology)	T: PH domain-like	F: PH_10	ECOD (1.6)
A	RhoGEF	e6newA2	A: alpha bundles	X: DH domain-like	H: DBL homology domain (DH-domain) (From Topology)	T: DBL homology domain (DH-domain)	F: RhoGEF	ECOD (1.6)
A	C1_1	e6newA1	A: few secondary structure elements	X: RING/U-box-like	H: RING/U-box-like	T: Cysteine-rich domain	F: C1_1	ECOD (1.6)

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 (utative)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF00130	Phorbol esters/diacylglycerol binding domain (C1 domain) (C1_1)	Phorbol esters/diacylglycerol binding domain (C1 domain)	This domain is also known as the Protein kinase C conserved region 1 (C1) domain.	Domain
A	PF00169	PH domain (PH)	PH domain	PH stands for pleckstrin homology.	Domain
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	Proto-oncogene vav	phosphoprotein binding phosphotyrosine residue binding protein binding binding protein phosphorylated amino acid binding enzyme regulator activity guanyl nucleotide binding GTP binding nucleotide binding hydrolase activity guanyl ribonucleotide binding GDP binding purine ribonucleotide binding ion binding phosphoprotein binding phosphotyrosine residue binding protein binding binding protein phosphorylated amino acid binding enzyme regulator activity guanyl nucleotide binding GTP binding nucleotide binding hydrolase activity guanyl ribonucleotide binding GDP binding purine ribonucleotide binding ion binding ribonucleoside triphosphate phosphatase activity anion binding molecular function regulator activity heterocyclic compound binding carbohydrate derivative binding hydrolase activity, acting on acid anhydrides catalytic activity ribonucleotide binding pyrophosphatase activity GTPase activity nucleoside-triphosphatase regulator activity GTPase regulator activity purine ribonucleoside triphosphate binding guanyl-nucleotide exchange factor activity nucleoside phosphate binding purine nucleotide binding hydrolase activity, acting on acid anhydrides, in phosphorus-containing anhydrides small molecule binding cation binding metal ion binding phosphorylation-dependent protein binding modification-dependent protein binding	regulation of immune effector process lymphocyte mediated immunity positive regulation of leukocyte mediated immunity positive regulation of response to biotic stimulus regulation of cellular process response to stimulus response to biotic stimulus positive regulation of leukocyte mediated cytotoxicity positive regulation of immune response positive regulation of natural killer cell mediated immunity leukocyte mediated immunity regulation of immune system process natural killer cell mediated immunity positive regulation of immune system process regulation of immune effector process lymphocyte mediated immunity positive regulation of leukocyte mediated immunity positive regulation of response to biotic stimulus regulation of cellular process response to stimulus response to biotic stimulus positive regulation of leukocyte mediated cytotoxicity positive regulation of immune response positive regulation of natural killer cell mediated immunity leukocyte mediated immunity regulation of immune system process natural killer cell mediated immunity positive regulation of immune system process regulation of biological process regulation of natural killer cell mediated immunity immune response response to other organism regulation of innate immune response response to external stimulus leukocyte mediated cytotoxicity immune effector process regulation of leukocyte mediated immunity regulation of response to stimulus defense response to other organism positive regulation of defense response natural killer cell mediated cytotoxicity regulation of immune response positive regulation of natural killer cell mediated cytotoxicity regulation of cell killing positive regulation of cell killing regulation of defense response regulation of response to biotic stimulus regulation of natural killer cell mediated cytotoxicity biological process involved in interspecies interaction between organisms regulation of response to external stimulus positive regulation of lymphocyte mediated immunity positive regulation of biological process positive regulation of response to stimulus positive regulation of response to external stimulus regulation of response to stress response to stress innate immune response positive regulation of immune effector process response to external biotic stimulus positive regulation of cellular process positive regulation of innate immune response defense response regulation of leukocyte mediated cytotoxicity biological regulation defense response to symbiont regulation of lymphocyte mediated immunity immune system process cellular process cell killing reactive oxygen species metabolic process metabolic process cellular component organization regulation of cellular component size cellular component organization or biogenesis regulation of biological quality regulation of cell size regulation of anatomical structure size cell chemotaxis cellular response to stimulus chemotaxis neutrophil chemotaxis neutrophil migration granulocyte migration leukocyte migration cellular response to chemical stimulus taxis granulocyte chemotaxis response to chemical myeloid leukocyte migration cell migration cell motility leukocyte chemotaxis locomotion integrin-mediated signaling pathway cell surface receptor signaling pathway signaling cell communication signal transduction positive regulation of cell communication regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signal transduction regulation of signal transduction intracellular signal transduction regulation of intracellular signal transduction intracellular signaling cassette regulation of signaling positive regulation of intracellular signal transduction positive regulation of phosphatidylinositol 3-kinase/protein kinase B signal transduction regulation of cell communication phosphatidylinositol 3-kinase/protein kinase B signal transduction positive regulation of signaling developmental process multicellular organismal process cellular developmental process hemopoiesis cell activation cell development mononuclear cell differentiation lymphocyte activation lymphocyte differentiation leukocyte activation T cell activation cell differentiation anatomical structure development T cell differentiation leukocyte differentiation regulation of body fluid levels wound healing hemostasis blood coagulation coagulation response to wounding platelet activation natural killer cell activation immune response-regulating cell surface receptor signaling pathway Fc receptor signaling pathway immune response-regulating signaling pathway Fc-epsilon receptor signaling pathway small GTPase-mediated signal transduction regulation of small GTPase mediated signal transduction cellular response to xenobiotic stimulus response to xenobiotic stimulus regulation of leukocyte activation regulation of cell activation positive regulation of leukocyte cell-cell adhesion leukocyte cell-cell adhesion positive regulation of cell-cell adhesion positive regulation of lymphocyte activation positive regulation of cell activation cell adhesion cell-cell adhesion positive regulation of leukocyte activation regulation of multicellular organismal process regulation of cell-cell adhesion positive regulation of T cell activation positive regulation of cell adhesion regulation of cell adhesion regulation of T cell activation lymphocyte costimulation regulation of leukocyte cell-cell adhesion positive regulation of multicellular organismal process T cell costimulation regulation of lymphocyte activation G protein-coupled receptor signaling pathway regulation of molecular function regulation of catalytic activity regulation of hydrolase activity regulation of GTPase activity cell surface receptor protein tyrosine kinase signaling pathway vascular endothelial growth factor receptor signaling pathway enzyme-linked receptor protein signaling pathway immune response-regulating cell surface receptor signaling pathway involved in phagocytosis import into cell transport Fc-gamma receptor signaling pathway involved in phagocytosis vesicle-mediated transport localization immune response-activating signaling pathway phagocytosis Fc-gamma receptor signaling pathway immune response-activating cell surface receptor signaling pathway Fc receptor mediated stimulatory signaling pathway establishment of localization endocytosis activation of immune response	cell-cell junction cellular anatomical structure anchoring junction cell junction intracellular anatomical structure cytoplasm cytosol cell periphery plasma membrane membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR003096	Smooth muscle protein/calponin	Family
A	IPR001849	Pleckstrin homology domain	Domain
A	IPR036860	SH2 domain superfamily	Homologous Superfamily
A	IPR000980	SH2 domain	Domain
A	IPR000219	Dbl homology domain	Domain
A	IPR001715	Calponin homology domain	Domain
A	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A	IPR035730	VAV1 protein, first SH3 domain	Domain
A	IPR011993	PH-like domain superfamily	Homologous Superfamily
A	IPR001331	Guanine-nucleotide dissociation stimulator, CDC24, conserved site	Conserved Site
A	IPR035729	VAV1 protein, second SH3 domain	Domain
A	IPR002219	Protein kinase C-like, phorbol ester/diacylglycerol-binding domain	Domain
A	IPR001452	SH3 domain	Domain
A	IPR035879	VAV1, SH2 domain	Domain
A	IPR036872	CH domain superfamily	Homologous Superfamily
A	IPR022613	Calmodulin-regulated spectrin-associated protein-like, Calponin-homology domain	Domain
A	IPR037832	Vav, PH domain	Domain
A	IPR035899	Dbl homology (DH) domain superfamily	Homologous Superfamily

Pharos: Disease Associations Pharos Homepage Annotation

Chains	Drug Target	Associated Disease
A	Pharos: P15498	adult T-cell leukemia/lymphoma medulloblastoma childhood medulloblastoma Liver Cirrhosis, Experimental medullomyoblastoma with myogenic differentiation adult medulloblastoma melanotic medulloblastoma acute T cell leukemia interstitial cystitis osteosarcoma wet macular degeneration age-related macular degeneration cutaneous lupus erythematosus spina bifida cancer adult T-cell leukemia/lymphoma medulloblastoma childhood medulloblastoma Liver Cirrhosis, Experimental medullomyoblastoma with myogenic differentiation adult medulloblastoma melanotic medulloblastoma acute T cell leukemia interstitial cystitis osteosarcoma wet macular degeneration age-related macular degeneration cutaneous lupus erythematosus spina bifida cancer desmoplastic/nodular medulloblastoma lung adenocarcinoma subependymal giant cell astrocytoma

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.