4EMJ

Complex between the reductase and ferredoxin components of toluene dioxygenase

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 Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
B	d4emjb_	All beta proteins	ISP domain	ISP domain	automated matches	automated matches	(Pseudomonas putida ) [TaxId: 303 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
B	SCOP2B Superfamily	ISP domain	8080528	3000233	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	Reductase_C	e4emjA1	A: a+b two layers	X: FAD-linked reductases, C-terminal domain-like	H: FAD/NAD-linked reduatases, dimerisation (C-terminal) domain (From Topology)	T: FAD/NAD-linked reduatases, dimerisation (C-terminal) domain	F: Reductase_C	ECOD (1.6)
A	Pyr_redox_2_1	e4emjA3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Pyr_redox_2_1	ECOD (1.6)
A	Pyr_redox_2	e4emjA2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: FAD/NAD(P)-binding domain	F: Pyr_redox_2	ECOD (1.6)
B	Rieske_3	e4emjB1	A: beta sandwiches	X: ISP domain (From Topology)	H: ISP domain (From Topology)	T: ISP domain	F: Rieske_3	ECOD (1.6)
B	Rieske	e4emjB2	A: few secondary structure elements	X: Trm112p-like (From Topology)	H: Trm112p-like (From Topology)	T: Trm112p-like	F: Rieske	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.50.50.60	Alpha Beta	3-Layer(bba) Sandwich	FAD/NAD(P)-binding domain	FAD/NAD(P)-binding domain	CATH (4.3.0)
A	3.30.390.30	Alpha Beta	2-Layer Sandwich	Enolase-like	domain 1	CATH (4.3.0)
B	2.102.10.10	Mainly Beta	3-layer Sandwich	Rieske Iron-sulfur Protein	Rieske [2Fe-2S] iron-sulphur domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A	PF07992	Pyridine nucleotide-disulphide oxidoreductase (Pyr_redox_2)	Pyridine nucleotide-disulphide oxidoreductase	This family includes both class I and class II oxidoreductases and also NADH oxidases and peroxidases. This domain is actually a small NADH binding domain within a larger FAD binding domain.	Domain
A	PF14759	Reductase C-terminal (Reductase_C)	Reductase C-terminal	This domain occurs at the C-terminus of various reductase enzymes, including putidaredoxin reductase, ferredoxin reductase, 3-phenylpropionate/cinnamic acid dioxygenase ferredoxin--NAD(+) reductase component, benzene 1,2-dioxygenase system ferredoxin ...	This domain occurs at the C-terminus of various reductase enzymes, including putidaredoxin reductase, ferredoxin reductase, 3-phenylpropionate/cinnamic acid dioxygenase ferredoxin--NAD(+) reductase component, benzene 1,2-dioxygenase system ferredoxin--NAD(+) reductase subunit, rhodocoxin reductase, biphenyl dioxygenase system ferredoxin--NAD(+) reductase component, rubredoxin-NAD(+) reductase and toluene 1,2-dioxygenase system ferredoxin--NAD(+) reductase component. In putidaredoxin reductase this domain is involved in dimerisation [1]. In the FAD-containing NADH-ferredoxin reductase (BphA4) it is responsible for interaction with the Rieske-type [2Fe-2S] ferredoxin (BphA3) [2].	Domain
B	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
A	TodA	ferredoxin-NAD(P) reductase activity oxidoreductase activity oxidoreductase activity, acting on iron-sulfur proteins as donors oxidoreductase activity, acting on iron-sulfur proteins as donors, NAD or NADP as acceptor ferredoxin-NAD+ reductase activity catalytic activity flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding organic cyclic compound binding anion binding nucleotide binding heterocyclic compound binding ferredoxin-NAD(P) reductase activity oxidoreductase activity oxidoreductase activity, acting on iron-sulfur proteins as donors oxidoreductase activity, acting on iron-sulfur proteins as donors, NAD or NADP as acceptor ferredoxin-NAD+ reductase activity catalytic activity flavin adenine dinucleotide binding binding nucleoside phosphate binding ion binding organic cyclic compound binding anion binding nucleotide binding heterocyclic compound binding small molecule binding	cellular response to stimulus catabolic process response to stimulus hydrocarbon catabolic process hydrocarbon metabolic process response to xenobiotic stimulus cellular catabolic process organic substance metabolic process toluene catabolic process toluene-containing compound catabolic process benzene-containing compound metabolic process cellular response to xenobiotic stimulus cellular metabolic process toluene-containing compound metabolic process cellular response to stimulus catabolic process response to stimulus hydrocarbon catabolic process hydrocarbon metabolic process response to xenobiotic stimulus cellular catabolic process organic substance metabolic process toluene catabolic process toluene-containing compound catabolic process benzene-containing compound metabolic process cellular response to xenobiotic stimulus cellular metabolic process toluene-containing compound metabolic process xenobiotic catabolic process organic cyclic compound catabolic process xenobiotic metabolic process organic cyclic compound metabolic process cellular response to chemical stimulus response to chemical metabolic process cellular process toluene metabolic process organic substance catabolic process	-
B	Toluene 1,2-dioxygenase system ferredoxin subunit	iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding binding metal cluster binding small molecule binding cation binding ion binding metal ion binding	cellular response to stimulus catabolic process response to stimulus hydrocarbon catabolic process hydrocarbon metabolic process response to xenobiotic stimulus cellular catabolic process organic substance metabolic process toluene catabolic process toluene-containing compound catabolic process benzene-containing compound metabolic process cellular response to xenobiotic stimulus cellular metabolic process toluene-containing compound metabolic process cellular response to stimulus catabolic process response to stimulus hydrocarbon catabolic process hydrocarbon metabolic process response to xenobiotic stimulus cellular catabolic process organic substance metabolic process toluene catabolic process toluene-containing compound catabolic process benzene-containing compound metabolic process cellular response to xenobiotic stimulus cellular metabolic process toluene-containing compound metabolic process xenobiotic catabolic process organic cyclic compound catabolic process xenobiotic metabolic process organic cyclic compound metabolic process cellular response to chemical stimulus response to chemical metabolic process cellular process toluene metabolic process organic substance catabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR028202	Reductase, C-terminal	Domain
A	IPR023753	FAD/NAD(P)-binding domain	Domain
A	IPR016156	FAD/NAD-linked reductase, dimerisation domain superfamily	Homologous Superfamily
A	IPR036188	FAD/NAD(P)-binding domain superfamily	Homologous Superfamily
B	IPR017941	Rieske [2Fe-2S] iron-sulphur domain	Domain
B	IPR036922	Rieske [2Fe-2S] iron-sulphur domain superfamily	Homologous Superfamily

RCSB PDB Core Operations are funded by the National Science Foundation (DBI-1832184), 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 R01GM133198.