1YEW

Crystal structure of particulate methane monooxygenase

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Protein Family Annotation
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
Membrane Protein Annotation: OPM
Membrane Protein Annotation: PDBTM
Membrane Protein Annotation: MemProtMD

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Monooxygenase subunit B C-terminal domain-like	8095935	3002712	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PapD-like	8095933	3002067	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Monooxygenase subunit B transmembrane domain-like	8095934	3002711	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	PapD-like	8095933	3002067	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	Monooxygenase subunit B transmembrane domain-like	8095934	3002711	SCOP2B (2022-06-29)
D [auth E]	SCOP2B Superfamily	Monooxygenase subunit B C-terminal domain-like	8095935	3002712	SCOP2B (2022-06-29)
G [auth I]	SCOP2B Superfamily	Monooxygenase subunit B C-terminal domain-like	8095935	3002712	SCOP2B (2022-06-29)
G [auth I]	SCOP2B Superfamily	PapD-like	8095933	3002067	SCOP2B (2022-06-29)
G [auth I]	SCOP2B Superfamily	Monooxygenase subunit B transmembrane domain-like	8095934	3002711	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Gx transporter-like	8095951	3002268	SCOP2B (2022-06-29)
E [auth F]	SCOP2B Superfamily	Gx transporter-like	8095951	3002268	SCOP2B (2022-06-29)
H [auth J]	SCOP2B Superfamily	Gx transporter-like	8095951	3002268	SCOP2B (2022-06-29)
C	SCOP2 Family	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8046644	4005211	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8053445	3002188	SCOP2 (2022-06-29)
F [auth G]	SCOP2B Superfamily	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8053445	3002188	SCOP2B (2022-06-29)
I [auth K]	SCOP2B Superfamily	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8053445	3002188	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	Monooxygenase_B_1st	e1yewA3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Monooxygenase_B_1st	ECOD (1.6)
A	Monooxygenase_B_3rd	e1yewA2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Monooxygenase_B_3rd	ECOD (1.6)
A	Monooxygenase_B_2nd	e1yewA1	A: alpha bundles	X: Long alpha-hairpin	H: PmoB helical hairpin (From Topology)	T: PmoB helical hairpin	F: Monooxygenase_B_2nd	ECOD (1.6)
D [auth E]	Monooxygenase_B_1st	e1yewE3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Monooxygenase_B_1st	ECOD (1.6)
D [auth E]	Monooxygenase_B_3rd	e1yewE2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Monooxygenase_B_3rd	ECOD (1.6)
D [auth E]	Monooxygenase_B_2nd	e1yewE1	A: alpha bundles	X: Long alpha-hairpin	H: PmoB helical hairpin (From Topology)	T: PmoB helical hairpin	F: Monooxygenase_B_2nd	ECOD (1.6)
G [auth I]	Monooxygenase_B_1st	e1yewI3	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Monooxygenase_B_1st	ECOD (1.6)
G [auth I]	Monooxygenase_B_3rd	e1yewI2	A: beta sandwiches	X: Immunoglobulin-like beta-sandwich	H: Immunoglobulin-related	T: Immunoglobulin/Fibronectin type III/E set domains/PapD-like	F: Monooxygenase_B_3rd	ECOD (1.6)
G [auth I]	Monooxygenase_B_2nd	e1yewI1	A: alpha bundles	X: Long alpha-hairpin	H: PmoB helical hairpin (From Topology)	T: PmoB helical hairpin	F: Monooxygenase_B_2nd	ECOD (1.6)
B	AMO	e1yewB1	A: alpha bundles	X: PmoA (From Topology)	H: PmoA (From Topology)	T: PmoA	F: AMO	ECOD (1.6)
E [auth F]	AMO	e1yewF1	A: alpha bundles	X: PmoA (From Topology)	H: PmoA (From Topology)	T: PmoA	F: AMO	ECOD (1.6)
H [auth J]	AMO	e1yewJ1	A: alpha bundles	X: PmoA (From Topology)	H: PmoA (From Topology)	T: PmoA	F: AMO	ECOD (1.6)
C	AmoC	e1yewC1	A: alpha bundles	X: STAT-like	H: Ammonia monooxygenase subunit C (From Topology)	T: Ammonia monooxygenase subunit C	F: AmoC	ECOD (1.6)
F [auth G]	AmoC	e1yewG1	A: alpha bundles	X: STAT-like	H: Ammonia monooxygenase subunit C (From Topology)	T: Ammonia monooxygenase subunit C	F: AmoC	ECOD (1.6)
I [auth K]	AmoC	e1yewK1	A: alpha bundles	X: STAT-like	H: Ammonia monooxygenase subunit C (From Topology)	T: Ammonia monooxygenase subunit C	F: AmoC	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	2.60.120.570	Mainly Beta	Sandwich	Jelly Rolls	Particulate methane monooxygenase, b subunit. Chain: A, domain 1	CATH (4.3.0)
A	1.10.287.710	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
A	2.60.40.1580	Mainly Beta	Sandwich	Immunoglobulin-like	Particulate methane monooxygenase, b subunit. Chain: A, domain 3	CATH (4.3.0)
D [auth E]	2.60.120.570	Mainly Beta	Sandwich	Jelly Rolls	Particulate methane monooxygenase, b subunit. Chain: A, domain 1	CATH (4.3.0)
D [auth E]	1.10.287.710	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
D [auth E]	2.60.40.1580	Mainly Beta	Sandwich	Immunoglobulin-like	Particulate methane monooxygenase, b subunit. Chain: A, domain 3	CATH (4.3.0)
G [auth I]	2.60.120.570	Mainly Beta	Sandwich	Jelly Rolls	Particulate methane monooxygenase, b subunit. Chain: A, domain 1	CATH (4.3.0)
G [auth I]	1.10.287.710	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
G [auth I]	2.60.40.1580	Mainly Beta	Sandwich	Immunoglobulin-like	Particulate methane monooxygenase, b subunit. Chain: A, domain 3	CATH (4.3.0)
B	1.20.1450.10	Mainly Alpha	Up-down Bundle	particulate methane monooxygenase, chain B	Ammonia/particulate methane monooxygenase, subunit A	CATH (4.3.0)
E [auth F]	1.20.1450.10	Mainly Alpha	Up-down Bundle	particulate methane monooxygenase, chain B	Ammonia/particulate methane monooxygenase, subunit A	CATH (4.3.0)
H [auth J]	1.20.1450.10	Mainly Alpha	Up-down Bundle	particulate methane monooxygenase, chain B	Ammonia/particulate methane monooxygenase, subunit A	CATH (4.3.0)
C	1.20.1050.50	Mainly Alpha	Up-down Bundle	Glutathione S-transferase Yfyf (Class Pi)	Chain A, domain 2	CATH (4.3.0)
F [auth G]	1.20.1050.50	Mainly Alpha	Up-down Bundle	Glutathione S-transferase Yfyf (Class Pi)	Chain A, domain 2	CATH (4.3.0)
I [auth K]	1.20.1050.50	Mainly Alpha	Up-down Bundle	Glutathione S-transferase Yfyf (Class Pi)	Chain A, domain 2	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, D [auth E], G [auth I]	PF04744	Monooxygenase subunit B protein (Monooxygenase_B)	Monooxygenase subunit B protein	-	Family
B, E [auth F], H [auth J]	PF02461	Ammonia monooxygenase (AMO)	Ammonia monooxygenase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, D [auth E], G [auth I]	particulate methane monooxygenase, B subunit	monooxygenase activity oxidoreductase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	-	membrane cellular anatomical entity
B, E [auth F], H [auth J]	particulate methane monooxygenase, A subunit	monooxygenase activity oxidoreductase activity catalytic activity	-	membrane cellular anatomical entity
C, F [auth G], I [auth K]	particulate methane monooxygenase subunit C2	monooxygenase activity oxidoreductase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	-	membrane cellular anatomical entity

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, D [auth E], G [auth I]	IPR006833	Ammonia monooxygenase/particulate methane monooxygenase, subunit B	Family
A, D [auth E], G [auth I]	IPR023141	Ammonia/methane monooxygenase, subunit B, hairpin domain superfamily	Homologous Superfamily
A, D [auth E], G [auth I]	IPR023303	Ammonia/methane monooxygenase, subunit B, C-terminal	Homologous Superfamily
A, D [auth E], G [auth I]	IPR023301	Ammonia/methane monooxygenase, subunitB, N-terminal	Homologous Superfamily
B, E [auth F], H [auth J]	IPR037001	Ammonia/particulate methane monooxygenase, subunit A superfamily	Homologous Superfamily
B, E [auth F], H [auth J]	IPR003393	Ammonia monooxygenase/particulate methane monooxygenase, subunit A	Family
C, F [auth G], I [auth K]	IPR006980	Ammonia monooxygenase/particulate methane monooxygenase, subunit C	Family
C, F [auth G], I [auth K]	IPR023349	Ammonia monooxygenase/particulate methane monooxygenase, subunit C domain superfamily	Homologous Superfamily

Membrane Protein Annotation: OPM OPM Database Homepage

Chains	External Link	Type	Class	Superfamily	Family
A, B, C, D [auth E], E [auth F] A, B, C, D [auth E], E [auth F], F [auth G], G [auth I], H [auth J], I [auth K]	OPM				Methane monooxygenase

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

Chains	External Link	Comment
A, B, C, D [auth E], E [auth F] A, B, C, D [auth E], E [auth F], F [auth G], G [auth I], H [auth J], I [auth K]	PDBTM	Annotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

Chains	External Link	Comment
A, B, C, D [auth E], E [auth F] A, B, C, D [auth E], E [auth F], F [auth G], G [auth I], H [auth J], I [auth K]	MemProtMD	Annotated as membrane protein by MemProtMD

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 R01GM133198.