7C8Z | pdb_00007c8z

Crystal structure of salicylate 5-hydroxylase NagGH (a Rieske non-heme iron-dependent monooxgenase)

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)
H	Ring_hydroxyl_B	e7c8zH1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: Ring_hydroxyl_B	ECOD (1.6)
G [auth F]	Ring_hydroxyl_B	e7c8zF1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: Ring_hydroxyl_B	ECOD (1.6)
F [auth D]	Ring_hydroxyl_B	e7c8zD1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: Ring_hydroxyl_B	ECOD (1.6)
E [auth B]	Ring_hydroxyl_B	e7c8zB1	A: a+b two layers	X: Cystatin-like	H: NTF2-like (From Topology)	T: NTF2-like	F: Ring_hydroxyl_B	ECOD (1.6)
D [auth G]	Rieske_5	e7c8zG1	A: beta sandwiches	X: ISP domain (From Topology)	H: ISP domain (From Topology)	T: ISP domain	F: Rieske_5	ECOD (1.6)
D [auth G]	Ring_hydroxyl_A	e7c8zG3	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: Ring_hydroxyl_A	ECOD (1.6)
D [auth G]	Rieske_1	e7c8zG2	A: few secondary structure elements	X: Trm112p-like (From Topology)	H: Trm112p-like (From Topology)	T: Trm112p-like	F: Rieske_1	ECOD (1.6)
C [auth E]	Rieske_5	e7c8zE1	A: beta sandwiches	X: ISP domain (From Topology)	H: ISP domain (From Topology)	T: ISP domain	F: Rieske_5	ECOD (1.6)
C [auth E]	Ring_hydroxyl_A	e7c8zE3	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: Ring_hydroxyl_A	ECOD (1.6)
C [auth E]	Rieske_1	e7c8zE2	A: few secondary structure elements	X: Trm112p-like (From Topology)	H: Trm112p-like (From Topology)	T: Trm112p-like	F: Rieske_1	ECOD (1.6)
B [auth C]	Rieske_5	e7c8zC2	A: beta sandwiches	X: ISP domain (From Topology)	H: ISP domain (From Topology)	T: ISP domain	F: Rieske_5	ECOD (1.6)
B [auth C]	Ring_hydroxyl_A	e7c8zC3	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: Ring_hydroxyl_A	ECOD (1.6)
B [auth C]	Rieske_1	e7c8zC1	A: few secondary structure elements	X: Trm112p-like (From Topology)	H: Trm112p-like (From Topology)	T: Trm112p-like	F: Rieske_1	ECOD (1.6)
A	Rieske_5	e7c8zA2	A: beta sandwiches	X: ISP domain (From Topology)	H: ISP domain (From Topology)	T: ISP domain	F: Rieske_5	ECOD (1.6)
A	Ring_hydroxyl_A	e7c8zA1	A: a+b two layers	X: TBP-like	H: Bet v1-like (From Topology)	T: Bet v1-like	F: Ring_hydroxyl_A	ECOD (1.6)
A	Rieske_1	e7c8zA3	A: few secondary structure elements	X: Trm112p-like (From Topology)	H: Trm112p-like (From Topology)	T: Trm112p-like	F: Rieske_1	ECOD (1.6)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
E [auth B], F [auth D], G [auth F], H	PF13577	SnoaL-like domain (SnoaL_4)	SnoaL-like domain	This family contains a large number of proteins that share the SnoaL fold.	Domain
A, B [auth C], C [auth E], D [auth G]	PF00848	Ring hydroxylating alpha subunit (catalytic domain) (Ring_hydroxyl_A)	Ring hydroxylating alpha subunit (catalytic domain)	This family is the catalytic domain of aromatic-ring- hydroxylating dioxygenase systems. The active site contains a non-heme ferrous ion coordinated by three ligands.	Domain
A, B [auth C], C [auth E], D [auth G]	PF00355	Rieske [2Fe-2S] domain (Rieske)	Rieske [2Fe-2S] domain	The rieske domain has a [2Fe-2S] centre. Two conserved cysteines coordinate one Fe ion, while the other Fe ion is coordinated by two conserved histidines. In hyperthermophilic archaea there is a SKTPCX(2-3)C motif at the C-terminus. The cysteines in ...	The rieske domain has a [2Fe-2S] centre. Two conserved cysteines coordinate one Fe ion, while the other Fe ion is coordinated by two conserved histidines. In hyperthermophilic archaea there is a SKTPCX(2-3)C motif at the C-terminus. The cysteines in this motif form a disulphide bridge, which stabilises the protein [4].	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
E [auth B], F [auth D], G [auth F], H	Salicylate 5-hydroxylase, small oxygenase component	oxidoreductase activity monooxygenase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen salicylate 5-hydroxylase (NADH) activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen catalytic activity	catabolic process benzene-containing compound metabolic process oxoacid metabolic process carboxylic acid metabolic process salicylic acid catabolic process salicylic acid metabolic process organic acid metabolic process organic acid catabolic process phenol-containing compound catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process phenol-containing compound metabolic process metabolic process cellular process catabolic process benzene-containing compound metabolic process oxoacid metabolic process carboxylic acid metabolic process salicylic acid catabolic process salicylic acid metabolic process organic acid metabolic process organic acid catabolic process phenol-containing compound catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process phenol-containing compound metabolic process metabolic process cellular process small molecule metabolic process monocarboxylic acid metabolic process small molecule catabolic process	protein-containing complex catalytic complex
A, B [auth C], C [auth E], D [auth G]	Salicylate 5-hydroxylase, large oxygenase component	iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding binding metal cluster binding small molecule binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding oxidoreductase activity monooxygenase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen salicylate 5-hydroxylase (NADH) activity iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding binding metal cluster binding small molecule binding cation binding transition metal ion binding iron ion binding ion binding metal ion binding oxidoreductase activity monooxygenase activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen salicylate 5-hydroxylase (NADH) activity oxidoreductase activity, acting on paired donors, with incorporation or reduction of molecular oxygen, NAD(P)H as one donor, and incorporation of one atom of oxygen catalytic activity	catabolic process benzene-containing compound metabolic process oxoacid metabolic process carboxylic acid metabolic process salicylic acid catabolic process salicylic acid metabolic process organic acid metabolic process organic acid catabolic process phenol-containing compound catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process phenol-containing compound metabolic process metabolic process cellular process catabolic process benzene-containing compound metabolic process oxoacid metabolic process carboxylic acid metabolic process salicylic acid catabolic process salicylic acid metabolic process organic acid metabolic process organic acid catabolic process phenol-containing compound catabolic process monocarboxylic acid catabolic process carboxylic acid catabolic process phenol-containing compound metabolic process metabolic process cellular process small molecule metabolic process monocarboxylic acid metabolic process small molecule catabolic process	protein-containing complex catalytic complex

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
E [auth B], F [auth D], G [auth F], H	IPR032710	NTF2-like domain superfamily	Homologous Superfamily
E [auth B], F [auth D], G [auth F], H	IPR000391	Ring-hydroxylating dioxygenase beta subunit	Family
E [auth B], F [auth D], G [auth F], H	IPR037401	SnoaL-like domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR043264	Ring-hydroxylating dioxygenase, large/alpha subunit AhdA1c-like, C-terminal	Domain
A, B [auth C], C [auth E], D [auth G]	IPR017941	Rieske [2Fe-2S] iron-sulphur domain	Domain
A, B [auth C], C [auth E], D [auth G]	IPR036922	Rieske [2Fe-2S] iron-sulphur domain superfamily	Homologous Superfamily
A, B [auth C], C [auth E], D [auth G]	IPR001663	Aromatic-ring-hydroxylating dioxygenase, alpha subunit	Family
A, B [auth C], C [auth E], D [auth G]	IPR015881	Aromatic-ring-hydroxylating dioxygenase ARHD, Rieske 2Fe-2S-binding site	Binding Site
A, B [auth C], C [auth E], D [auth G]	IPR015879	Aromatic-ring-hydroxylating dioxygenase, alpha subunit, C-terminal domain	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.