1TMO | pdb_00001tmo

TRIMETHYLAMINE N-OXIDE REDUCTASE FROM SHEWANELLA MASSILIA

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
Structure Motif: Primary M-CSA Annotation

Domain Annotation: SCOP/SCOPe Classification SCOP-e Database Homepage

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1tmoa1	All beta proteins	Double psi beta-barrel	ADC-like	Formate dehydrogenase/DMSO reductase, C-terminal domain	Trimethylamine N-oxide reductase	(Shewanella massilia ) [TaxId: 76854 ],	SCOPe (2.08)
A	d1tmoa2	Alpha and beta proteins (a/b)	Formate dehydrogenase/DMSO reductase, domains 1-3	Formate dehydrogenase/DMSO reductase, domains 1-3	Formate dehydrogenase/DMSO reductase, domains 1-3	Trimethylamine N-oxide reductase	(Shewanella massilia ) [TaxId: 76854 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2 Family	Formate dehydrogenase/DMSO reductase, domains 1-3	8020631	4000801	SCOP2 (2022-06-29)
A	SCOP2 Family	Formate dehydrogenase/DMSO reductase, C-terminal domain	8030138	4002360	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	Formate dehydrogenase/DMSO reductase, domains 1-3	8033011	3001453	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	ADC-like	8042517	3001132	SCOP2 (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	Molydop_binding	e1tmoA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: double psi	F: Molydop_binding	ECOD (1.6)
A	torA	e1tmoA4	A: a+b two layers	X: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)	H: Formate dehydrogenase/DMSO reductase, domain 1 (From Topology)	T: Formate dehydrogenase/DMSO reductase, domain 1	F: torA	ECOD (1.6)
A	Molybdopterin_2nd	e1tmoA2	A: a/b three-layered sandwiches	X: Rossmann-like	H: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)	T: Formate dehydrogenase/DMSO reductase, domains 2 and 3	F: Molybdopterin_2nd	ECOD (1.6)
A	Molybdopterin_1st_1	e1tmoA3	A: a/b three-layered sandwiches	X: Rossmann-like	H: Formate dehydrogenase/DMSO reductase, domains 2 and 3 (From Topology)	T: Formate dehydrogenase/DMSO reductase, domains 2 and 3	F: Molybdopterin_1st_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.740	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold		CATH (4.3.0)
A	3.40.228.10	Alpha Beta	3-Layer(aba) Sandwich	Dimethylsulfoxide Reductase	domain 2	CATH (4.3.0)
A	3.90.55.10	Alpha Beta	Alpha-Beta Complex	Dimethylsulfoxide Reductase	domain 3	CATH (4.3.0)
A	2.40.40.20	Mainly Beta	Beta Barrel	Barwin-like endoglucanases		CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A	TRIMETHYLAMINE N-OXIDE REDUCTASE	trimethylamine-N-oxide reductase (cytochrome c) activity oxidoreductase activity, acting on other nitrogenous compounds as donors, cytochrome as acceptor oxidoreductase activity oxidoreductase activity, acting on other nitrogenous compounds as donors catalytic activity cation binding transition metal ion binding molybdenum ion binding ion binding binding metal ion binding small molecule binding molybdopterin cofactor binding electron transfer activity	cellular respiration energy derivation by oxidation of organic compounds metabolic process cellular process generation of precursor metabolites and energy anaerobic respiration	cellular anatomical structure outer membrane-bounded periplasmic space cell envelope periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A	IPR006657	Molybdopterin dinucleotide-binding domain	Domain
A	IPR006656	Molybdopterin oxidoreductase	Domain
A	IPR011887	Trimethylamine-N-oxide reductase TorA	Family
A	IPR006311	Twin-arginine translocation pathway, signal sequence	Conserved Site
A	IPR009010	Aspartate decarboxylase-like domain superfamily	Homologous Superfamily
A	IPR041954	Trimethylamine-N-oxide reductase-like, molybdopterin-binding domain	Domain
A	IPR041460	Molybdopterin oxidoreductase, N-terminal	Domain
A	IPR006655	Molybdopterin oxidoreductase, prokaryotic, conserved site	Conserved Site
A	IPR050612	Prokaryotic Molybdopterin Oxidoreductases	Family

Structure Motif Annotation: Mechanism and Catalytic Site Atlas M-CSA Database Homepage

Chains	Enzyme Name	Description	Catalytic Residues
A	trimethylamine-N-oxide reductase (cytochrome c) M-CSA #894	Trimethylamine N-oxide (TMAO) has been found in a variety of marine organisms including fish, molluscs, crustaceans and seaweed [PMID:16221580]. TMAO is found in marine organisms as an osmolyte in combination with urea. In sharks, who lack a swim bladder, TMAO and urea contribute to buoyancy. A number of marine-fish spoilage organisms use TMAO as an electron acceptor in anaerobic respiration [PMID:3904597]. Trimethylamine (TMA), the volatile product of this reaction, has the specific odour of rotting fish. In Escherichia coli, the TMAO respiratory chain consists of a quinol electron donor, a membrane-bound multiheme c-type cytochrome TorC, and a periplasmic terminal reductase TorA that contains bis(molybdopterin guanine dinucleotide)molybdenum cofactor (this entry). This molybdoenzyme belongs to the dimethyl sulfoxide (DMSO) reductase family.	Defined by 2 residues: TRP:A-149 [auth A-118]SER:A-180 [auth A-149] \| Explore in 3D: M-CSA Motif Definition Search M-CSA Motif EC: 1.6.6.9 (PDB Primary Data) Search M-CSA Motif + EC 1.6.6.9 EC: 1.7.2.3 (UniProt) Search M-CSA Motif + EC 1.7.2.3

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.