2I2X | pdb_00002i2x

Crystal structure of methanol:cobalamin methyltransferase complex MtaBC from Methanosarcina barkeri

External Resource: Annotation

Domain Annotation: SCOP2 Classification
Domain Annotation: ECOD Classification
Domain Annotation: CATH
Gene Ontology: Gene Product Annotation
InterPro: Protein Family Classification

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	SCOP2B (2022-06-29)
I	SCOP2 Family	MtaB-like	8047303	4005562	SCOP2 (2022-06-29)
I	SCOP2 Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	SCOP2 (2022-06-29)
K	SCOP2B Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	SCOP2B (2022-06-29)
M	SCOP2B Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	SCOP2B (2022-06-29)
O	SCOP2B Superfamily	Cobalamin (vitamin B12)-dependent enzymes	8106670	3000609	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	Fn3-like	e2i2xA1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
C	Fn3-like	e2i2xC1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
E	Fn3-like	e2i2xE1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
G	Fn3-like	e2i2xG1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
I	Fn3-like	e2i2xI1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
K	Fn3-like	e2i2xK1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
M	Fn3-like	e2i2xM1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
O	Fn3-like	e2i2xO1	A: alpha bundles	X: Transmembrane heme-binding four-helical bundle	H: P-loop domains-related	T: P-loop containing nucleoside triphosphate hydrolases	F: Fn3-like	ECOD (develop294)
D	RraA-like	e2i2xD1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: RraA-like	ECOD (develop294)
D	Cobalamin_bind	e2i2xD2	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
F	RraA-like	e2i2xF1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: RraA-like	ECOD (develop294)
F	Cobalamin_bind	e2i2xF2	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
H	RraA-like	e2i2xH1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: RraA-like	ECOD (develop294)
H	Cobalamin_bind	e2i2xH2	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
J	RraA-like	e2i2xJ1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: RraA-like	ECOD (develop294)
J	Cobalamin_bind	e2i2xJ2	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
L	RraA-like	e2i2xL1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: RraA-like	ECOD (develop294)
L	Cobalamin_bind	e2i2xL2	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
N	RraA-like	e2i2xN1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: RraA-like	ECOD (develop294)
N	Cobalamin_bind	e2i2xN2	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
P	RraA-like	e2i2xP1	A: alpha bundles	X: Tautomerase/MIF-like	H: Tautomerase/MIF	T: Tautomerase/MIF	F: RraA-like	ECOD (develop294)
P	Cobalamin_bind	e2i2xP2	A: alpha bundles	X: RuvA-C	H: post-HMGL domain-like	T: post-HMGL domain-like	F: Cobalamin_bind	ECOD (develop294)
B	HisKA	e2i2xB2	A: alpha bundles	X: Thioredoxin-like	H: ClpP/crotonase	T: ClpP/crotonase	F: HisKA	ECOD (develop294)
B	B12-binding	e2i2xB1	A: alpha bundles	X: SMI1/KNR4-like	H: SMI1/KNR4-like	T: SMI1/KNR4-like	F: B12-binding	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
D	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
D	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)
F	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
F	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)
H	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
H	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)
J	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
J	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)
L	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
L	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)
N	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
N	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)
P	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
P	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)
B	1.10.1240.10	Mainly Alpha	Orthogonal Bundle	Methyltransferase, Methionine Synthase (B12-binding Domains)	Chain A, domain 1	CATH (4.3.0)
B	3.40.50.280	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Cobalamin-binding domain	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C, E, G, I A, C, E, G, I, K, M, O	Methyltransferase 1	transferase activity, transferring one-carbon groups transferase activity methyltransferase activity methanol-5-hydroxybenzimidazolylcobamide Co-methyltransferase activity catalytic activity cation binding ion binding binding metal ion binding small molecule binding	methylation metabolic process cellular process	-
B, D, F, H, J B, D, F, H, J, L, N, P	Methyltransferase 1	cation binding transition metal ion binding ion binding binding metal ion binding cobalt ion binding small molecule binding vitamin binding cobalamin binding tetrapyrrole binding heterocyclic compound binding methionine synthase activity transferase activity, transferring one-carbon groups S-methyltransferase activity cation binding transition metal ion binding ion binding binding metal ion binding cobalt ion binding small molecule binding vitamin binding cobalamin binding tetrapyrrole binding heterocyclic compound binding methionine synthase activity transferase activity, transferring one-carbon groups S-methyltransferase activity transferase activity methyltransferase activity catalytic activity	homocysteine metabolic process oxoacid metabolic process sulfur amino acid metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process metabolic process cellular process small molecule metabolic process sulfur compound metabolic process folic acid-containing compound metabolic process homocysteine metabolic process oxoacid metabolic process sulfur amino acid metabolic process carboxylic acid metabolic process amino acid metabolic process primary metabolic process organic acid metabolic process alpha-amino acid metabolic process non-proteinogenic amino acid metabolic process metabolic process cellular process small molecule metabolic process sulfur compound metabolic process folic acid-containing compound metabolic process modified amino acid metabolic process tetrahydrofolate metabolic process pteridine-containing compound metabolic process 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 hydrocarbon biosynthetic process anaerobic respiration	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C, E, G, I A, C, E, G, I, K, M, O	IPR021079	Methanol-cobalamin methyltransferase, B subunit	Family
B, D, F, H, J B, D, F, H, J, L, N, P	IPR003759	Cobalamin (vitamin B12)-binding module, cap domain	Domain
B, D, F, H, J B, D, F, H, J, L, N, P	IPR050554	Methionine Synthase/Corrinoid	Family
B, D, F, H, J B, D, F, H, J, L, N, P	IPR012741	Methyltransferase cognate corrinoid protein	Domain
B, D, F, H, J B, D, F, H, J, L, N, P	IPR006158	Cobalamin (vitamin B12)-binding domain	Domain
B, D, F, H, J B, D, F, H, J, L, N, P	IPR036724	Cobalamin-binding domain superfamily	Homologous Superfamily
B, D, F, H, J B, D, F, H, J, L, N, P	IPR036594	Methionine synthase domain	Homologous Superfamily

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Crystal structure of methanol:cobalamin methyltransferase complex MtaBC from Methanosarcina barkeri

External Resource: Annotation

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Domain Annotation: ECOD Classification ECOD Database Homepage

Domain Annotation: CATH CATH Database Homepage

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

InterPro: Protein Family Classification InterPro Database Homepage

2I2X | pdb_00002i2x