3RFR | pdb_00003rfr

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

External Resource: Annotation


Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

ChainsTypeFamily Name Domain Identifier Family IdentifierProvenance Source (Version)
ASCOP2B SuperfamilyMonooxygenase subunit B C-terminal domain-like 8095945 3002712 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyPapD-like 8095943 3002067 SCOP2B (2022-06-29)
ASCOP2B SuperfamilyMonooxygenase subunit B transmembrane domain-like 8095944 3002711 SCOP2B (2022-06-29)
K [auth I]SCOP2 FamilyMonooxygenase subunit B copper-binding domain-like 8046393 4005056 SCOP2 (2022-06-29)
K [auth I]SCOP2 FamilyMonooxygenase subunit B transmembrane domain-like 8095941 4007811 SCOP2 (2022-06-29)
K [auth I]SCOP2 FamilyMonooxygenase subunit B C-terminal domain-like 8095942 4007812 SCOP2 (2022-06-29)
K [auth I]SCOP2 SuperfamilyPapD-like 8095943 3002067 SCOP2 (2022-06-29)
K [auth I]SCOP2 SuperfamilyMonooxygenase subunit B transmembrane domain-like 8095944 3002711 SCOP2 (2022-06-29)
K [auth I]SCOP2 SuperfamilyMonooxygenase subunit B C-terminal domain-like 8095945 3002712 SCOP2 (2022-06-29)
J [auth E]SCOP2B SuperfamilyPapD-like 8095943 3002067 SCOP2B (2022-06-29)
J [auth E]SCOP2B SuperfamilyMonooxygenase subunit B transmembrane domain-like 8095944 3002711 SCOP2B (2022-06-29)
J [auth E]SCOP2B SuperfamilyMonooxygenase subunit B C-terminal domain-like 8095945 3002712 SCOP2B (2022-06-29)
FSCOP2B SuperfamilyGx transporter-like 8095952 3002268 SCOP2B (2022-06-29)
E [auth B]SCOP2 FamilyAmmonia monooxygenase-like 8050417 4006879 SCOP2 (2022-06-29)
E [auth B]SCOP2 SuperfamilyGx transporter-like 8095952 3002268 SCOP2 (2022-06-29)
D [auth J]SCOP2B SuperfamilyGx transporter-like 8095952 3002268 SCOP2B (2022-06-29)
I [auth K]SCOP2B SuperfamilyAmmonia monooxygenase/methane monooxygenase, subunit C-like 8053448 3002188 SCOP2B (2022-06-29)
H [auth G]SCOP2 FamilyAmmonia monooxygenase/methane monooxygenase, subunit C-like 8046646 4005211 SCOP2 (2022-06-29)
H [auth G]SCOP2 SuperfamilyAmmonia monooxygenase/methane monooxygenase, subunit C-like 8053448 3002188 SCOP2 (2022-06-29)
G [auth C]SCOP2B SuperfamilyAmmonia monooxygenase/methane monooxygenase, subunit C-like 8053448 3002188 SCOP2B (2022-06-29)

Domain Annotation: ECOD Classification ECOD Database Homepage

ChainsFamily NameDomain Identifier ArchitecturePossible HomologyHomologyTopologyFamilyProvenance Source (Version)
AMonooxygenase_Be3rfrA1 A: alpha bundlesX: Rossmann-likeH: Immunoglobulin-relatedT: Immunoglobulin/Fibronectin type III/E set domains/PapD-likeF: Monooxygenase_BECOD (develop294)
AMonooxygenase_Be3rfrA2 A: alpha bundlesX: Rossmann-likeH: Rossmann-relatedT: S-adenosyl-L-methionine-dependent methyltransferasesF: Monooxygenase_BECOD (develop294)
K [auth I]CagXe3rfrI1 A: alpha bundlesX: DEATH domainH: HTHT: winged helix domainF: CagXECOD (develop294)
J [auth E]CagXe3rfrE1 A: alpha bundlesX: DEATH domainH: HTHT: winged helix domainF: CagXECOD (develop294)
FReo_sigma1e3rfrF1 A: alpha bundlesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: Reo_sigma1ECOD (develop294)
E [auth B]Reo_sigma1e3rfrB1 A: alpha bundlesX: Lipocalins/StreptavidinH: Zn-dependent exopeptidasesT: Zn-dependent exopeptidasesF: Reo_sigma1ECOD (develop294)
D [auth J]AMOe3rfrJ1 A: alpha bundlesX: PmoAH: PmoAT: PmoAF: AMOECOD (develop294)
I [auth K]AmoCe3rfrK1 A: alpha bundlesX: jelly-rollH: Double-stranded beta-helixT: Double-stranded beta-helixF: AmoCECOD (develop294)
H [auth G]Med26e3rfrG1 A: alpha bundlesX: PBZ domainH: PBZ domainT: PBZ domainF: Med26ECOD (develop294)
G [auth C]Med26e3rfrC1 A: alpha bundlesX: PBZ domainH: PBZ domainT: PBZ domainF: Med26ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

ChainDomainClassArchitectureTopologyHomologyProvenance Source (Version)
A2.60.120.570 Mainly Beta Sandwich Jelly Rolls Particulate methane monooxygenase, b subunit. Chain: A, domain 1CATH (4.3.0)
A1.10.287.710 Mainly Alpha Orthogonal Bundle Helix Hairpins Helix hairpin binCATH (4.3.0)
A2.60.40.1580 Mainly Beta Sandwich Immunoglobulin-like Particulate methane monooxygenase, b subunit. Chain: A, domain 3CATH (4.3.0)
K [auth I]2.60.120.570 Mainly Beta Sandwich Jelly Rolls Particulate methane monooxygenase, b subunit. Chain: A, domain 1CATH (4.3.0)
K [auth I]1.10.287.710 Mainly Alpha Orthogonal Bundle Helix Hairpins Helix hairpin binCATH (4.3.0)
K [auth I]2.60.40.1580 Mainly Beta Sandwich Immunoglobulin-like Particulate methane monooxygenase, b subunit. Chain: A, domain 3CATH (4.3.0)
J [auth E]2.60.120.570 Mainly Beta Sandwich Jelly Rolls Particulate methane monooxygenase, b subunit. Chain: A, domain 1CATH (4.3.0)
J [auth E]1.10.287.710 Mainly Alpha Orthogonal Bundle Helix Hairpins Helix hairpin binCATH (4.3.0)
J [auth E]2.60.40.1580 Mainly Beta Sandwich Immunoglobulin-like Particulate methane monooxygenase, b subunit. Chain: A, domain 3CATH (4.3.0)
F1.20.1450.10 Mainly Alpha Up-down Bundle particulate methane monooxygenase, chain B Ammonia/particulate methane monooxygenase, subunit ACATH (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 ACATH (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 ACATH (4.3.0)
I [auth K]1.20.1050.50 Mainly Alpha Up-down Bundle Glutathione S-transferase Yfyf (Class Pi) Chain A, domain 2CATH (4.3.0)
H [auth G]1.20.1050.50 Mainly Alpha Up-down Bundle Glutathione S-transferase Yfyf (Class Pi) Chain A, domain 2CATH (4.3.0)
G [auth C]1.20.1050.50 Mainly Alpha Up-down Bundle Glutathione S-transferase Yfyf (Class Pi) Chain A, domain 2CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

ChainsPolymerMolecular FunctionBiological ProcessCellular Component
A,
J [auth E],
K [auth I]		PmoB - -
B [auth D],
C [auth H]		peptide---
D [auth J],
E [auth B],
F		PmoA- - -
G [auth C],
H [auth G],
I [auth K]		PmoC - -

InterPro: Protein Family Classification InterPro Database Homepage

ChainsAccessionNameType
A,
J [auth E],
K [auth I]		IPR006833Ammonia monooxygenase/particulate methane monooxygenase, subunit BFamily
A,
J [auth E],
K [auth I]		IPR023141Ammonia/methane monooxygenase, subunit B, hairpin domain superfamilyHomologous Superfamily
A,
J [auth E],
K [auth I]		IPR023303Ammonia/methane monooxygenase, subunit B, C-terminalHomologous Superfamily
A,
J [auth E],
K [auth I]		IPR023301Ammonia/methane monooxygenase, subunitB, N-terminalHomologous Superfamily
D [auth J],
E [auth B],
F		IPR037001Ammonia/particulate methane monooxygenase, subunit A superfamilyHomologous Superfamily
D [auth J],
E [auth B],
F		IPR003393Ammonia monooxygenase/particulate methane monooxygenase, subunit AFamily
G [auth C],
H [auth G],
I [auth K]		IPR006980Ammonia monooxygenase/particulate methane monooxygenase, subunit CFamily
G [auth C],
H [auth G],
I [auth K]		IPR023349Ammonia monooxygenase/particulate methane monooxygenase, subunit C domain superfamilyHomologous Superfamily

Membrane Protein Annotation: PDBTM PDBTM Database Homepage

ChainsExternal LinkComment
PDBTMAnnotated as membrane protein by PDBTM

Membrane Protein Annotation: MemProtMD MemProtMD Database Homepage

ChainsExternal LinkComment
MemProtMDAnnotated as membrane protein by MemProtMD