3RFR | pdb_00003rfr

Crystal Structure of particulate methane monooxygenase (pMMO) from Methylocystis sp. strain M

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification
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)
I [auth K]	SCOP2B Superfamily	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8053448	3002188	SCOP2B (2022-06-29)
H [auth G]	SCOP2 Family	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8046646	4005211	SCOP2 (2022-06-29)
H [auth G]	SCOP2 Superfamily	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8053448	3002188	SCOP2 (2022-06-29)
G [auth C]	SCOP2B Superfamily	Ammonia monooxygenase/methane monooxygenase, subunit C-like	8053448	3002188	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	Gx transporter-like	8095952	3002268	SCOP2B (2022-06-29)
E [auth B]	SCOP2 Family	Ammonia monooxygenase-like	8050417	4006879	SCOP2 (2022-06-29)
E [auth B]	SCOP2 Superfamily	Gx transporter-like	8095952	3002268	SCOP2 (2022-06-29)
D [auth J]	SCOP2B Superfamily	Gx transporter-like	8095952	3002268	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Monooxygenase subunit B C-terminal domain-like	8095945	3002712	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	PapD-like	8095943	3002067	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Monooxygenase subunit B transmembrane domain-like	8095944	3002711	SCOP2B (2022-06-29)
K [auth I]	SCOP2 Family	Monooxygenase subunit B copper-binding domain-like	8046393	4005056	SCOP2 (2022-06-29)
K [auth I]	SCOP2 Family	Monooxygenase subunit B transmembrane domain-like	8095941	4007811	SCOP2 (2022-06-29)
K [auth I]	SCOP2 Family	Monooxygenase subunit B C-terminal domain-like	8095942	4007812	SCOP2 (2022-06-29)
K [auth I]	SCOP2 Superfamily	PapD-like	8095943	3002067	SCOP2 (2022-06-29)
K [auth I]	SCOP2 Superfamily	Monooxygenase subunit B transmembrane domain-like	8095944	3002711	SCOP2 (2022-06-29)
K [auth I]	SCOP2 Superfamily	Monooxygenase subunit B C-terminal domain-like	8095945	3002712	SCOP2 (2022-06-29)
J [auth E]	SCOP2B Superfamily	PapD-like	8095943	3002067	SCOP2B (2022-06-29)
J [auth E]	SCOP2B Superfamily	Monooxygenase subunit B transmembrane domain-like	8095944	3002711	SCOP2B (2022-06-29)
J [auth E]	SCOP2B Superfamily	Monooxygenase subunit B C-terminal domain-like	8095945	3002712	SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
I [auth K]	e3rfrK1	A: jelly-roll	X: Double-stranded beta-helix	H: Double-stranded beta-helix	T: AmoC	F:	ECOD (20:10:01)
H [auth G]	e3rfrG1	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: Med26	F:	ECOD (20:10:01)
G [auth C]	e3rfrC1	A: PBZ domain	X: PBZ domain	H: PBZ domain	T: Med26	F:	ECOD (20:10:01)
F	e3rfrF1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: PK_Tyr_Ser-Thr	F:	ECOD (20:10:01)
E [auth B]	e3rfrB1	A: Alpha-beta plaits	X: Phage tail protein-like	H: Transmembrane protein 14A	T: PK_Tyr_Ser-Thr	F:	ECOD (20:10:01)
D [auth J]	e3rfrJ1	A: PmoA	X: PmoA	H: PmoA	T: AMO	F:	ECOD (20:10:01)
A	e3rfrA1	A: Rossmann-like	X: Rossmann-related	H: S-adenosyl-L-methionine-dependent methyltransferases	T:	F:	ECOD (20:10:01)
K [auth I]	e3rfrI1	A: DEATH domain	X: 6-phosphogluconate dehydrogenase C-terminal domain-like	H: 6-phosphogluconate dehydrogenase C-terminal domain-like	T: CagX	F:	ECOD (20:10:01)
J [auth E]	e3rfrE1	A: DEATH domain	X: 6-phosphogluconate dehydrogenase C-terminal domain-like	H: 6-phosphogluconate dehydrogenase C-terminal domain-like	T: CagX	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
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)
H [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)
G [auth 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	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 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)
D [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)
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)
K [auth I]	2.60.120.570	Mainly Beta	Sandwich	Jelly Rolls	Particulate methane monooxygenase, b subunit. Chain: A, domain 1	CATH (4.3.0)
K [auth I]	1.10.287.710	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
K [auth I]	2.60.40.1580	Mainly Beta	Sandwich	Immunoglobulin-like	Particulate methane monooxygenase, b subunit. Chain: A, domain 3	CATH (4.3.0)
J [auth E]	2.60.120.570	Mainly Beta	Sandwich	Jelly Rolls	Particulate methane monooxygenase, b subunit. Chain: A, domain 1	CATH (4.3.0)
J [auth E]	1.10.287.710	Mainly Alpha	Orthogonal Bundle	Helix Hairpins	Helix hairpin bin	CATH (4.3.0)
J [auth E]	2.60.40.1580	Mainly Beta	Sandwich	Immunoglobulin-like	Particulate methane monooxygenase, b subunit. Chain: A, domain 3	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
G [auth C], H [auth G], I [auth K]	PmoC	cation binding ion binding binding metal ion binding small molecule binding	-	-
D [auth J], E [auth B], F	PmoA	-	-	-
B [auth D], C [auth H]	peptide	-	-	-
A, J [auth E], K [auth I]	PmoB	cation binding ion binding binding metal ion binding small molecule binding	-	-

InterPro: Protein Family Classification InterPro Database Homepage

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

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

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

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

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