Annotations: 8U7J

Crystal Structure of Staphylococcus aureus PLP synthase complex

External Resource: Annotation

Domain Annotation: ECOD Classification
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
X [auth Q]	WD40	e8u7jQ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
W [auth P]	WD40	e8u7jP1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
V [auth U]	WD40	e8u7jU1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
U [auth V]	WD40	e8u7jV1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
T [auth M]	WD40	e8u7jM1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
S [auth O]	WD40	e8u7jO1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
R [auth W]	WD40	e8u7jW1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
Q [auth R]	WD40	e8u7jR1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
P [auth X]	WD40	e8u7jX1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
O [auth S]	WD40	e8u7jS1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
N	WD40	e8u7jN1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
B [auth T]	RNA_pol_Rpb1_6	e8u7jT01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RNA_pol_Rpb1_6	ECOD (v294.2)
M [auth E]	WD40	e8u7jE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
L [auth D]	WD40	e8u7jD1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
K [auth H]	WD40	e8u7jH1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
J [auth I]	WD40	e8u7jI1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
I [auth C]	WD40	e8u7jC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
H [auth J]	WD40	e8u7jJ1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
G [auth F]	WD40	e8u7jF1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
F [auth K]	WD40	e8u7jK1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
E [auth L]	WD40	e8u7jL1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
D [auth B]	WD40	e8u7jB1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
C [auth G]	WD40	e8u7jG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: WD40	ECOD (v294.2)
A	RNA_pol_Rpb1_6	e8u7jA01	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: acid protease	F: RNA_pol_Rpb1_6	ECOD (v294.2)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B [auth T], N, O [auth S], P [auth X], Q [auth R], B [auth T], N, O [auth S], P [auth X], Q [auth R], R [auth W], S [auth O], T [auth M], U [auth V], V [auth U], W [auth P], X [auth Q]	PF01174	SNO glutamine amidotransferase family (SNO)	SNO glutamine amidotransferase family	This family and its amidotransferase domain was first described in [1]. It is predicted that members of this family are involved in the pyridoxine biosynthetic pathway, based on the proximity and co-regulation of the corresponding genes and physical ...	This family and its amidotransferase domain was first described in [1]. It is predicted that members of this family are involved in the pyridoxine biosynthetic pathway, based on the proximity and co-regulation of the corresponding genes and physical interaction between the members of Pfam:PF01174 and Pfam:PF01680 [2].	Domain
A, C [auth G], D [auth B], E [auth L], F [auth K], A, C [auth G], D [auth B], E [auth L], F [auth K], G [auth F], H [auth J], I [auth C], J [auth I], K [auth H], L [auth D], M [auth E]	PF01680	SOR/SNZ family (SOR_SNZ)	SOR/SNZ family	Members of this family are enzymes involved in a new pathway of pyridoxine/pyridoxal 5-phosphate biosynthesis [1]. This family was formerly known as UPF0019.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B [auth T], N, O [auth S], P [auth X], Q [auth R], B [auth T], N, O [auth S], P [auth X], Q [auth R], R [auth W], S [auth O], T [auth M], U [auth V], V [auth U], W [auth P], X [auth Q]	Pyridoxal 5'-phosphate synthase subunit PdxT	hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds, in linear amides glutaminase activity hydrolase activity catalytic activity hydrolase activity, acting on carbon-nitrogen (but not peptide) bonds amine-lyase activity lyase activity pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity carbon-nitrogen lyase activity	pyridoxal 5'-phosphate biosynthetic process vitamin B6 biosynthetic process water-soluble vitamin biosynthetic process small molecule biosynthetic process pyridine-containing compound biosynthetic process vitamin biosynthetic process aldehyde biosynthetic process aldehyde metabolic process vitamin metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process pyridine-containing compound metabolic process metabolic process pyridoxal 5'-phosphate biosynthetic process vitamin B6 biosynthetic process water-soluble vitamin biosynthetic process small molecule biosynthetic process pyridine-containing compound biosynthetic process vitamin biosynthetic process aldehyde biosynthetic process aldehyde metabolic process vitamin metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process pyridine-containing compound metabolic process metabolic process cellular process vitamin B6 metabolic process small molecule metabolic process pyridoxal 5'-phosphate metabolic process phosphorus metabolic process pyridoxine metabolic process catabolic process oxoacid metabolic process L-amino acid catabolic process carboxylic acid metabolic process L-glutamine catabolic process amino acid metabolic process primary metabolic process L-amino acid metabolic process L-glutamine metabolic process proteinogenic amino acid metabolic process proteinogenic amino acid catabolic process carboxylic acid catabolic process small molecule catabolic process amino acid catabolic process	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol protein-containing complex catalytic complex glutaminase complex
A, C [auth G], D [auth B], E [auth L], F [auth K], A, C [auth G], D [auth B], E [auth L], F [auth K], G [auth F], H [auth J], I [auth C], J [auth I], K [auth H], L [auth D], M [auth E]	Pyridoxal 5'-phosphate synthase subunit PdxS	amine-lyase activity lyase activity catalytic activity carbon-nitrogen lyase activity pyridoxal 5'-phosphate synthase (glutamine hydrolysing) activity	pyridoxal 5'-phosphate biosynthetic process vitamin B6 biosynthetic process water-soluble vitamin biosynthetic process small molecule biosynthetic process pyridine-containing compound biosynthetic process vitamin biosynthetic process aldehyde biosynthetic process aldehyde metabolic process vitamin metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process pyridine-containing compound metabolic process metabolic process pyridoxal 5'-phosphate biosynthetic process vitamin B6 biosynthetic process water-soluble vitamin biosynthetic process small molecule biosynthetic process pyridine-containing compound biosynthetic process vitamin biosynthetic process aldehyde biosynthetic process aldehyde metabolic process vitamin metabolic process biosynthetic process organophosphate metabolic process organophosphate biosynthetic process pyridine-containing compound metabolic process metabolic process cellular process vitamin B6 metabolic process small molecule metabolic process pyridoxal 5'-phosphate metabolic process phosphorus metabolic process pyridoxine biosynthetic process pyridoxine metabolic process amino acid metabolic process primary metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B [auth T], N, O [auth S], P [auth X], Q [auth R], B [auth T], N, O [auth S], P [auth X], Q [auth R], R [auth W], S [auth O], T [auth M], U [auth V], V [auth U], W [auth P], X [auth Q]	IPR029062	Class I glutamine amidotransferase-like	Homologous Superfamily
B [auth T], N, O [auth S], P [auth X], Q [auth R], B [auth T], N, O [auth S], P [auth X], Q [auth R], R [auth W], S [auth O], T [auth M], U [auth V], V [auth U], W [auth P], X [auth Q]	IPR002161	Pyridoxal 5'-phosphate synthase subunit PdxT/SNO	Family
B [auth T], N, O [auth S], P [auth X], Q [auth R], B [auth T], N, O [auth S], P [auth X], Q [auth R], R [auth W], S [auth O], T [auth M], U [auth V], V [auth U], W [auth P], X [auth Q]	IPR021196	PdxT/SNO family, conserved site	Conserved Site
A, C [auth G], D [auth B], E [auth L], F [auth K], A, C [auth G], D [auth B], E [auth L], F [auth K], G [auth F], H [auth J], I [auth C], J [auth I], K [auth H], L [auth D], M [auth E]	IPR011060	Ribulose-phosphate binding barrel	Homologous Superfamily
A, C [auth G], D [auth B], E [auth L], F [auth K], A, C [auth G], D [auth B], E [auth L], F [auth K], G [auth F], H [auth J], I [auth C], J [auth I], K [auth H], L [auth D], M [auth E]	IPR001852	Pyridoxal 5'-phosphate synthase subunit PdxS/SNZ	Family
A, C [auth G], D [auth B], E [auth L], F [auth K], A, C [auth G], D [auth B], E [auth L], F [auth K], G [auth F], H [auth J], I [auth C], J [auth I], K [auth H], L [auth D], M [auth E]	IPR013785	Aldolase-type TIM barrel	Homologous Superfamily
A, C [auth G], D [auth B], E [auth L], F [auth K], A, C [auth G], D [auth B], E [auth L], F [auth K], G [auth F], H [auth J], I [auth C], J [auth I], K [auth H], L [auth D], M [auth E]	IPR033755	PdxS/SNZ N-terminal domain	Domain

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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.

8U7J | pdb_00008u7j

Crystal Structure of Staphylococcus aureus PLP synthase complex

External Resource: Annotation

Domain Annotation: ECOD Classification ECOD Database Homepage

Protein Family Annotation Pfam Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage