3GK0 | pdb_00003gk0

Crystal structure of pyridoxal phosphate biosynthetic protein from Burkholderia pseudomallei

External Resource: Annotation

Domain Annotation: SCOP/SCOPe Classification
Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
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)
E	d3gk0e_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)
H	d3gk0h_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)
G	d3gk0g_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)
F	d3gk0f_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)
D	d3gk0d_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)
C	d3gk0c_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)
B	d3gk0b_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)
A	d3gk0a_	Alpha and beta proteins (a/b)	TIM beta/alpha-barrel	Pyridoxine 5'-phosphate synthase	automated matches	automated matches	(Burkholderia pseudomallei 1710b ) [TaxId: 320372 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
E	SCOP2B Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	SCOP2B (2022-06-29)
C	SCOP2 Family	Pyridoxine 5'-phosphate synthase	8074921	4003313	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	SCOP2 (2022-06-29)
B	SCOP2B Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Pyridoxine 5'-phosphate synthase	8074922	3000586	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)
E		e3gk0E1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F:	ECOD (v295.2)
H		e3gk0H1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F:	ECOD (v295.2)
G		e3gk0G1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F:	ECOD (v295.2)
F		e3gk0F1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F:	ECOD (v295.2)
D		e3gk0D1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F:	ECOD (v295.2)
C		e3gk0C1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F:	ECOD (v295.2)
B		e3gk0B1	A: alpha arrays	X: HTH	H: HTH	T: tetra-helical, lambda repressor-like	F:	ECOD (v295.2)
A	adh_short_C2	e3gk0A1	A: alpha arrays	X: UBC-like	H: UBC-like	T: UBC-like	F: adh_short_C2	ECOD (v295.2)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
E	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
H	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
G	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
F	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
D	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
C	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
B	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)
A	3.20.20.70	Alpha Beta	Alpha-Beta Barrel	TIM Barrel	Aldolase class I	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H	Pyridoxine 5'-phosphate synthase	transferase activity, transferring nitrogenous groups pyridoxine 5'-phosphate synthase activity transferase activity catalytic activity	vitamin B6 biosynthetic process water-soluble vitamin biosynthetic process small molecule biosynthetic process pyridine-containing compound biosynthetic process vitamin biosynthetic process pyridoxine biosynthetic process vitamin metabolic process pyridoxine metabolic process biosynthetic process pyridine-containing compound metabolic process vitamin B6 metabolic process metabolic process cellular process small molecule metabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H	IPR036130	Pyridoxine 5'-phosphate synthase	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H	IPR004569	Pyridoxal phosphate (active vitamin B6) biosynthesis PdxJ	Family