3VB9 | pdb_00003vb9

Crystal structure of VPA0735 from Vibrio parahaemolyticus in monoclinic form, NorthEast Structural Genomics target VpR109

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
A	d3vb9a_	Multi-domain proteins (alpha and beta)	VPA0735-like	VPA0735-like	VPA0735-like	Hypothetical protein VPA0735	(Vibrio parahaemolyticus ) [TaxId: 670 ],	SCOPe (2.08)
B	d3vb9b_	Multi-domain proteins (alpha and beta)	VPA0735-like	VPA0735-like	VPA0735-like	Hypothetical protein VPA0735	(Vibrio parahaemolyticus ) [TaxId: 670 ],	SCOPe (2.08)
C	d3vb9c_	Multi-domain proteins (alpha and beta)	VPA0735-like	VPA0735-like	VPA0735-like	Hypothetical protein VPA0735	(Vibrio parahaemolyticus ) [TaxId: 670 ],	SCOPe (2.08)
D	d3vb9d_	Multi-domain proteins (alpha and beta)	VPA0735-like	VPA0735-like	VPA0735-like	Hypothetical protein VPA0735	(Vibrio parahaemolyticus ) [TaxId: 670 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8035342	3001579	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8054389	3001579	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8054389	3001579	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8035342	3001579	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8054389	3001579	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8035342	3001579	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8035342	3001579	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	VPA0735 beta-sandwich domain-like	8054389	3001579	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	DUF1214	e3vb9A2	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1214	ECOD (1.6)
A	DUF1254	e3vb9A1	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1254	ECOD (1.6)
B	DUF1214	e3vb9B3	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1214	ECOD (1.6)
B	DUF1254	e3vb9B4	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1254	ECOD (1.6)
C	DUF1214	e3vb9C3	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1214	ECOD (1.6)
C	DUF1254	e3vb9C4	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1254	ECOD (1.6)
D	DUF1214	e3vb9D3	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1214	ECOD (1.6)
D	DUF1254	e3vb9D4	A: beta sandwiches	X: jelly-roll	H: VPA0735-like (From Topology)	T: VPA0735-like	F: DUF1254	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)
A	1.10.3360.10	Mainly Alpha	Orthogonal Bundle	VPA0735-like fold	VPA0735-like domain	CATH (4.3.0)
A	2.60.40.1610	Mainly Beta	Sandwich	Immunoglobulin-like	Domain of unknown function DUF1254	CATH (4.3.0)
A	2.60.120.600	Mainly Beta	Sandwich	Jelly Rolls	Domain of unknown function DUF1214, C-terminal domain	CATH (4.3.0)
B	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)
B	1.10.3360.10	Mainly Alpha	Orthogonal Bundle	VPA0735-like fold	VPA0735-like domain	CATH (4.3.0)
B	2.60.40.1610	Mainly Beta	Sandwich	Immunoglobulin-like	Domain of unknown function DUF1254	CATH (4.3.0)
B	2.60.120.600	Mainly Beta	Sandwich	Jelly Rolls	Domain of unknown function DUF1214, C-terminal domain	CATH (4.3.0)
C	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)
C	1.10.3360.10	Mainly Alpha	Orthogonal Bundle	VPA0735-like fold	VPA0735-like domain	CATH (4.3.0)
C	2.60.40.1610	Mainly Beta	Sandwich	Immunoglobulin-like	Domain of unknown function DUF1254	CATH (4.3.0)
C	2.60.120.600	Mainly Beta	Sandwich	Jelly Rolls	Domain of unknown function DUF1214, C-terminal domain	CATH (4.3.0)
D	2.20.25.10	Mainly Beta	Single Sheet	N-terminal domain of TfIIb		CATH (4.3.0)
D	1.10.3360.10	Mainly Alpha	Orthogonal Bundle	VPA0735-like fold	VPA0735-like domain	CATH (4.3.0)
D	2.60.40.1610	Mainly Beta	Sandwich	Immunoglobulin-like	Domain of unknown function DUF1254	CATH (4.3.0)
D	2.60.120.600	Mainly Beta	Sandwich	Jelly Rolls	Domain of unknown function DUF1214, C-terminal domain	CATH (4.3.0)

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR010679	Domain of unknown function DUF1254	Domain
A, B, C, D	IPR037050	Domain of unknown function DUF1254 superfamily	Homologous Superfamily
A, B, C, D	IPR037049	Domain of unknown function DUF1214, C-terminal domain superfamily	Homologous Superfamily
A, B, C, D	IPR010621	Domain of unknown function DUF1214	Domain

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.