5N28 | pdb_00005n28

METHYL-COENZYME M REDUCTASE III FROM METHANOTORRIS FORMICICUS MONOCLINIC FORM

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
Protein Modification Annotation

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
F	d5n28f_	Alpha and beta proteins (a+b)	Ferredoxin-like	Methyl-coenzyme M reductase subunits	automated matches	automated matches	(Methanotorris formicicus Mc-S-70 ) [TaxId: 647171 ],	SCOPe (2.08)
C	d5n28c_	Alpha and beta proteins (a+b)	Ferredoxin-like	Methyl-coenzyme M reductase subunits	automated matches	automated matches	(Methanotorris formicicus Mc-S-70 ) [TaxId: 647171 ],	SCOPe (2.08)
E	d5n28e2	All alpha proteins	Methyl-coenzyme M reductase alpha and beta chain C-terminal domain	Methyl-coenzyme M reductase alpha and beta chain C-terminal domain	automated matches	automated matches	(Methanotorris formicicus Mc-S-70 ) [TaxId: 647171 ],	SCOPe (2.08)
E	d5n28e1	Alpha and beta proteins (a+b)	Ferredoxin-like	Methyl-coenzyme M reductase subunits	automated matches	automated matches	(Methanotorris formicicus Mc-S-70 ) [TaxId: 647171 ],	SCOPe (2.08)
B	d5n28b2	All alpha proteins	Methyl-coenzyme M reductase alpha and beta chain C-terminal domain	Methyl-coenzyme M reductase alpha and beta chain C-terminal domain	automated matches	automated matches	(Methanotorris formicicus Mc-S-70 ) [TaxId: 647171 ],	SCOPe (2.08)
B	d5n28b1	Alpha and beta proteins (a+b)	Ferredoxin-like	Methyl-coenzyme M reductase subunits	automated matches	automated matches	(Methanotorris formicicus Mc-S-70 ) [TaxId: 647171 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F	SCOP2B Superfamily	Methyl-coenzyme M reductase subunits	8073485	3001305	SCOP2B (2022-06-29)
C	SCOP2 Family	Methyl-coenzyme M reductase gamma chain	8073484	4001330	SCOP2 (2022-06-29)
C	SCOP2 Superfamily	Methyl-coenzyme M reductase subunits	8073485	3001305	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)
F	MCR_gamma	e5n28F1	A: a+b two layers	X: Alpha-beta plaits	H: Methyl-coenzyme M reductase subunits (From Topology)	T: Methyl-coenzyme M reductase subunits	F: MCR_gamma	ECOD (1.6)
C	MCR_gamma	e5n28C1	A: a+b two layers	X: Alpha-beta plaits	H: Methyl-coenzyme M reductase subunits (From Topology)	T: Methyl-coenzyme M reductase subunits	F: MCR_gamma	ECOD (1.6)
E	MCR_beta	e5n28E2	A: alpha bundles	X: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	H: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	T: Methyl-coenzyme M reductase alpha and beta chain-C	F: MCR_beta	ECOD (1.6)
E	MCR_beta_N	e5n28E1	A: a+b two layers	X: Alpha-beta plaits	H: Methyl-coenzyme M reductase subunits (From Topology)	T: Methyl-coenzyme M reductase subunits	F: MCR_beta_N	ECOD (1.6)
B	MCR_beta	e5n28B2	A: alpha bundles	X: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	H: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	T: Methyl-coenzyme M reductase alpha and beta chain-C	F: MCR_beta	ECOD (1.6)
B	MCR_beta_N	e5n28B1	A: a+b two layers	X: Alpha-beta plaits	H: Methyl-coenzyme M reductase subunits (From Topology)	T: Methyl-coenzyme M reductase subunits	F: MCR_beta_N	ECOD (1.6)
D	MCR_alpha	e5n28D1	A: alpha bundles	X: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	H: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	T: Methyl-coenzyme M reductase alpha and beta chain-C	F: MCR_alpha	ECOD (1.6)
D	MCR_alpha_N	e5n28D2	A: a+b two layers	X: Alpha-beta plaits	H: Methyl-coenzyme M reductase subunits (From Topology)	T: Methyl-coenzyme M reductase subunits	F: MCR_alpha_N	ECOD (1.6)
A	MCR_alpha	e5n28A1	A: alpha bundles	X: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	H: Methyl-coenzyme M reductase alpha and beta chain-C (From Topology)	T: Methyl-coenzyme M reductase alpha and beta chain-C	F: MCR_alpha	ECOD (1.6)
A	MCR_alpha_N	e5n28A2	A: a+b two layers	X: Alpha-beta plaits	H: Methyl-coenzyme M reductase subunits (From Topology)	T: Methyl-coenzyme M reductase subunits	F: MCR_alpha_N	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.90.320.20	Alpha Beta	Alpha-Beta Complex	Lambda Exonuclease	Chain A	CATH (4.3.0)
C	3.90.320.20	Alpha Beta	Alpha-Beta Complex	Lambda Exonuclease	Chain A	CATH (4.3.0)
E	1.20.840.10	Mainly Alpha	Up-down Bundle	Methyl-coenzyme M Reductase	Chain B, domain 2	CATH (4.3.0)
E	3.30.70.470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
B	1.20.840.10	Mainly Alpha	Up-down Bundle	Methyl-coenzyme M Reductase	Chain B, domain 2	CATH (4.3.0)
B	3.30.70.470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
D	3.90.390.10	Alpha Beta	Alpha-Beta Complex	Methyl-coenzyme M Reductase	Chain A, domain 1	CATH (4.3.0)
D	3.30.70.470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
D	1.20.840.10	Mainly Alpha	Up-down Bundle	Methyl-coenzyme M Reductase	Chain B, domain 2	CATH (4.3.0)
A	3.90.390.10	Alpha Beta	Alpha-Beta Complex	Methyl-coenzyme M Reductase	Chain A, domain 1	CATH (4.3.0)
A	3.30.70.470	Alpha Beta	2-Layer Sandwich	Alpha-Beta Plaits		CATH (4.3.0)
A	1.20.840.10	Mainly Alpha	Up-down Bundle	Methyl-coenzyme M Reductase	Chain B, domain 2	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C, F	Methyl-coenzyme M reductase, gamma subunit	coenzyme-B sulfoethylthiotransferase activity alkylthioltransferase activity transferase activity, transferring sulphur-containing groups transferase activity catalytic activity	cellular respiration energy derivation by oxidation of organic compounds alkane biosynthetic process methane metabolic process generation of precursor metabolites and energy hydrocarbon metabolic process biosynthetic process energy derivation by oxidation of reduced inorganic compounds methanogenesis metabolic process cellular process hydrocarbon biosynthetic process anaerobic respiration	-
B, E	Methyl-coenzyme M reductase, beta subunit	coenzyme-B sulfoethylthiotransferase activity alkylthioltransferase activity transferase activity, transferring sulphur-containing groups transferase activity catalytic activity	cellular respiration energy derivation by oxidation of organic compounds alkane biosynthetic process methane metabolic process generation of precursor metabolites and energy hydrocarbon metabolic process biosynthetic process energy derivation by oxidation of reduced inorganic compounds methanogenesis metabolic process cellular process hydrocarbon biosynthetic process anaerobic respiration	-
A, D	Methyl-coenzyme M reductase subunit alpha	coenzyme-B sulfoethylthiotransferase activity alkylthioltransferase activity transferase activity, transferring sulphur-containing groups transferase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	cellular respiration energy derivation by oxidation of organic compounds alkane biosynthetic process methane metabolic process generation of precursor metabolites and energy hydrocarbon metabolic process biosynthetic process energy derivation by oxidation of reduced inorganic compounds methanogenesis metabolic process cellular process hydrocarbon biosynthetic process anaerobic respiration	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
C, F	IPR009024	Methyl-coenzyme M reductase, ferredoxin-like fold	Homologous Superfamily
C, F	IPR003178	Methyl-coenzyme M reductase, gamma subunit	Family
C, F	IPR036994	Methyl-coenzyme M reductase, gamma subunit superfamily	Homologous Superfamily
B, E	IPR009024	Methyl-coenzyme M reductase, ferredoxin-like fold	Homologous Superfamily
B, E	IPR022680	Methyl-coenzyme M reductase, beta subunit, N-terminal	Domain
B, E	IPR008924	Methyl-coenzyme M reductase, alpha/beta subunit, C-terminal	Homologous Superfamily
B, E	IPR015823	Methyl-coenzyme M reductase, alpha subunit, N-terminal subdomain 2	Homologous Superfamily
B, E	IPR003179	Methyl-coenzyme M reductase, beta subunit	Family
B, E	IPR022679	Methyl-coenzyme M reductase, beta subunit, C-terminal	Domain
A, D	IPR009047	Methyl-coenzyme M reductase, alpha subunit, C-terminal	Domain
A, D	IPR009024	Methyl-coenzyme M reductase, ferredoxin-like fold	Homologous Superfamily
A, D	IPR003183	Methyl-coenzyme M reductase, alpha subunit, N-terminal	Domain
A, D	IPR008924	Methyl-coenzyme M reductase, alpha/beta subunit, C-terminal	Homologous Superfamily
A, D	IPR016212	Methyl coenzyme M reductase, alpha subunit	Family
A, D	IPR015823	Methyl-coenzyme M reductase, alpha subunit, N-terminal subdomain 2	Homologous Superfamily
A, D	IPR015811	Methyl-coenzyme M reductase, alpha subunit, N-terminal subdomain 1	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
A, D	AGM	Parent Component: ARG RESID: AA0272 PSI-MOD : 5-methyl-L-arginine MOD:00277
A, D	GL3	Parent Component: GLY RESID: AA0272 , AA0265 PSI-MOD : 5-methyl-L-arginine MOD:00277 , 1-thioglycine (internal) MOD:00270 , 1-thioglycine (C-terminal) MOD:01623
A, D	MGN	Parent Component: GLN RESID: AA0272 , AA0265 , AA0273 PSI-MOD : 5-methyl-L-arginine MOD:00277 , 1-thioglycine (internal) MOD:00270 , 1-thioglycine (C-terminal) MOD:01623 , 2-methyl-L-glutamine MOD:00278
A, D	MHS	Parent Component: HIS RESID: AA0272 , AA0265 , AA0273 , AA0073 PSI-MOD : 5-methyl-L-arginine MOD:00277 , 1-thioglycine (internal) MOD:00270 , 1-thioglycine (C-terminal) MOD:01623 , 2-methyl-L-glutamine MOD:00278 , 3'-methyl-L-histidine MOD:00082
A, D	TRX	Parent Component: TRP RESID: AA0272 , AA0265 , AA0273 , AA0073

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.