1RJ2 | pdb_00001rj2

Crystal structure of the DH/PH fragment of Dbs without bound GTPase

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

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
D [auth J]	d1rj2j1	All alpha proteins	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
D [auth J]	d1rj2j2	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth G]	d1rj2g1	All alpha proteins	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
C [auth G]	d1rj2g2	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B [auth D]	d1rj2d1	All alpha proteins	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
B [auth D]	d1rj2d2	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1rj2a1	All alpha proteins	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	DBL homology domain (DH-domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)
A	d1rj2a2	All beta proteins	PH domain-like barrel	PH domain-like	Pleckstrin-homology domain (PH domain)	Dbl's big sister, Dbs	house mouse (Mus musculus ) [TaxId: 10090 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
D [auth J]	SCOP2B Superfamily	PH domain-like	8040858	3000134	SCOP2B (2022-06-29)
D [auth J]	SCOP2B Superfamily	DBL homology domain (DH-domain)	8040856	3000793	SCOP2B (2022-06-29)
C [auth G]	SCOP2B Superfamily	DBL homology domain (DH-domain)	8040856	3000793	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	PH domain-like	8040858	3000134	SCOP2B (2022-06-29)
B [auth D]	SCOP2B Superfamily	DBL homology domain (DH-domain)	8040856	3000793	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PH domain-like	8040858	3000134	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	DBL homology domain (DH-domain)	8040856	3000793	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 [auth J]	PH_3	e1rj2J1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: PH_3	ECOD (v294.1)
D [auth J]		e1rj2J2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Flavivirus capsid protein C	T: Flavivirus capsid protein C	F:	ECOD (v294.1)
C [auth G]	SOS1_NGEF_PH	e1rj2G3	A: a/b three-layered sandwiches	X: POZ domain	H: Rossmann-related	T: S-adenosyl-L-methionine-dependent methyltransferases	F: SOS1_NGEF_PH	ECOD (v294.1)
B [auth D]	PH_3	e1rj2D1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: PH_3	ECOD (v294.1)
B [auth D]		e1rj2D2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Flavivirus capsid protein C	T: Flavivirus capsid protein C	F:	ECOD (v294.1)
A	PH_3	e1rj2A1	A: a/b three-layered sandwiches	X: Phage tail fiber protein trimerization domain	H: beta-Prism I	T: beta-Prism I	F: PH_3	ECOD (v294.1)
A		e1rj2A2	A: a/b three-layered sandwiches	X: ETN0001 domain-like	H: Flavivirus capsid protein C	T: Flavivirus capsid protein C	F:	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D [auth J]	1.20.900.10	Mainly Alpha	Up-down Bundle	Dbl Homology Domain	Chain A	CATH (4.3.0)
D [auth J]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
C [auth G]	1.20.900.10	Mainly Alpha	Up-down Bundle	Dbl Homology Domain	Chain A	CATH (4.3.0)
C [auth G]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
B [auth D]	1.20.900.10	Mainly Alpha	Up-down Bundle	Dbl Homology Domain	Chain A	CATH (4.3.0)
B [auth D]	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)
A	1.20.900.10	Mainly Alpha	Up-down Bundle	Dbl Homology Domain	Chain A	CATH (4.3.0)
A	2.30.29.30	Mainly Beta	Roll	PH-domain like	Pleckstrin-homology domain (PH domain)/Phosphotyrosine-binding domain (PTB)	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B [auth D], C [auth G], D [auth J]	PF22697	SOS1/NGEF-like PH domain (SOS1_NGEF_PH)	SOS1/NGEF-like PH domain	This is a PH domain found in a diverse group of animal proteins such as Ephexin-1, SOS1 from human and related RhoGEFs [1-5].	Domain
A, B [auth D], C [auth G], D [auth J]	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, B [auth D], C [auth G], D [auth J]	Guanine nucleotide exchange factor DBS [Fragment]	ion binding binding anion binding phosphatidylinositol binding small molecule binding 1-phosphatidylinositol binding phospholipid binding lipid binding GTPase regulator activity enzyme regulator activity guanyl-nucleotide exchange factor activity nucleoside-triphosphatase regulator activity molecular function regulator activity	cellular response to stimulus positive regulation of cell communication regulation of cellular process small GTPase-mediated signal transduction positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction Rho protein signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction cellular response to stimulus positive regulation of cell communication regulation of cellular process small GTPase-mediated signal transduction positive regulation of signal transduction response to stimulus signaling regulation of small GTPase mediated signal transduction positive regulation of biological process regulation of signal transduction intracellular signal transduction Rho protein signal transduction cell communication positive regulation of response to stimulus regulation of intracellular signal transduction intracellular signaling cassette signal transduction positive regulation of cellular process regulation of biological process regulation of signaling biological regulation positive regulation of intracellular signal transduction regulation of Rho protein signal transduction positive regulation of Rho protein signal transduction regulation of response to stimulus regulation of cell communication cellular process positive regulation of small GTPase mediated signal transduction positive regulation of signaling positive regulation of DNA-templated transcription RNA metabolic process positive regulation of macromolecule biosynthetic process regulation of primary metabolic process nucleobase-containing compound metabolic process RNA biosynthetic process nucleic acid biosynthetic process positive regulation of metabolic process DNA-templated transcription regulation of RNA metabolic process transcription by RNA polymerase II positive regulation of biosynthetic process positive regulation of macromolecule metabolic process regulation of nucleobase-containing compound metabolic process regulation of RNA biosynthetic process regulation of biosynthetic process regulation of transcription by RNA polymerase II primary metabolic process regulation of macromolecule metabolic process positive regulation of transcription by RNA polymerase II nucleobase-containing compound biosynthetic process gene expression macromolecule biosynthetic process nucleic acid metabolic process positive regulation of RNA metabolic process regulation of gene expression biosynthetic process positive regulation of RNA biosynthetic process metabolic process regulation of macromolecule biosynthetic process macromolecule metabolic process regulation of DNA-templated transcription regulation of metabolic process	cellular anatomical structure endomembrane system cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane intracellular anatomical structure cytoplasm cell periphery extrinsic component of plasma membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane plasma membrane cellular anatomical structure endomembrane system cell projection cell leading edge plasma membrane bounded cell projection lamellipodium membrane intracellular anatomical structure cytoplasm cell periphery extrinsic component of plasma membrane cytoplasmic side of plasma membrane cytoplasmic side of membrane plasma membrane extrinsic component of membrane extrinsic component of cytoplasmic side of plasma membrane side of membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B [auth D], C [auth G], D [auth J]	IPR001251	CRAL-TRIO lipid binding domain	Domain
A, B [auth D], C [auth G], D [auth J]	IPR001849	Pleckstrin homology domain	Domain
A, B [auth D], C [auth G], D [auth J]	IPR036865	CRAL-TRIO lipid binding domain superfamily	Homologous Superfamily
A, B [auth D], C [auth G], D [auth J]	IPR056466	Guanine nucleotide exchange factor DBS-like, spectrin-like	Domain
A, B [auth D], C [auth G], D [auth J]	IPR000219	Dbl homology domain	Domain
A, B [auth D], C [auth G], D [auth J]	IPR036028	SH3-like domain superfamily	Homologous Superfamily
A, B [auth D], C [auth G], D [auth J]	IPR035532	DBS, SH3 domain	Domain
A, B [auth D], C [auth G], D [auth J]	IPR011993	PH-like domain superfamily	Homologous Superfamily
A, B [auth D], C [auth G], D [auth J]	IPR001331	Guanine-nucleotide dissociation stimulator, CDC24, conserved site	Conserved Site
A, B [auth D], C [auth G], D [auth J]	IPR051336	Rho GTPase-activating Guanine Nucleotide Exchange Factors	Family
A, B [auth D], C [auth G], D [auth J]	IPR035534	DBS, PH domain	Domain
A, B [auth D], C [auth G], D [auth J]	IPR001452	SH3 domain	Domain
A, B [auth D], C [auth G], D [auth J]	IPR035899	Dbl homology (DH) domain superfamily	Homologous Superfamily
A, B [auth D], C [auth G], D [auth J]	IPR018159	Spectrin/alpha-actinin	Repeat
A, B [auth D], C [auth G], D [auth J]	IPR055251	SOS1/NGEF-like, PH domain	Domain
A, B [auth D], C [auth G], D [auth J]	IPR002017	Spectrin repeat	Repeat

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.