1U6I

The Structure of native coenzyme F420-dependent methylenetetrahydromethanopterin dehydrogenase at 2.2A resolution

External Resource: Annotation

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
A	d1u6ia_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
B	d1u6ib_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
C	d1u6ic_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
D	d1u6id_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
E	d1u6ie_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
F	d1u6if_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
G	d1u6ig_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
H	d1u6ih_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
I	d1u6ii_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
J	d1u6ij_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
K	d1u6ik_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)
L	d1u6il_	Alpha and beta proteins (a/b)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	(Methanopyrus kandleri ) [TaxId: 2320 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
A	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
H	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
I	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
J	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
K	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	SCOP2B (2022-06-29)
L	SCOP2B Superfamily	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	8032854	3000556	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	MTD	e1u6iA1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
B	MTD	e1u6iB1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
C	MTD	e1u6iC1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
D	MTD	e1u6iD1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
E	MTD	e1u6iE1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
F	MTD	e1u6iF1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
G	MTD	e1u6iG1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
H	MTD	e1u6iH1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
I	MTD	e1u6iI1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
J	MTD	e1u6iJ1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
K	MTD	e1u6iK1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)
L	MTD	e1u6iL1	A: a/b three-layered sandwiches	X: Flavodoxin-like	H: Class I glutamine amidotransferase-like	T: F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	F: MTD	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
A	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
B	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
B	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
C	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
C	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
D	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
D	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
E	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
E	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
F	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
F	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
G	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
G	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
H	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
H	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
I	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
I	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
J	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
J	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
K	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
K	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)
L	3.40.50.10830	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	F420-dependent methylenetetrahydromethanopterin dehydrogenase (MTD)	CATH (4.3.0)
L	6.10.140.120	Special	Helix non-globular	Helix Hairpins		CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	PF01993	methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase (MTD)	methylene-5,6,7,8-tetrahydromethanopterin dehydrogenase	-	Family

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	F420-dependent methylenetetrahydromethanopterin dehydrogenase	oxidoreductase activity oxidoreductase activity, acting on hydrogen as donor, iron-sulfur protein as acceptor oxidoreductase activity, acting on hydrogen as donor ferredoxin hydrogenase activity catalytic activity oxidoreductase activity, acting on the CH-NH group of donors methylenetetrahydromethanopterin dehydrogenase 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 alkane metabolic process biosynthetic process energy derivation by oxidation of reduced inorganic compounds methanogenesis metabolic process cellular process hydrocarbon biosynthetic process methanogenesis, from carbon dioxide cellular respiration energy derivation by oxidation of organic compounds alkane biosynthetic process methane metabolic process generation of precursor metabolites and energy hydrocarbon metabolic process alkane metabolic process biosynthetic process energy derivation by oxidation of reduced inorganic compounds methanogenesis metabolic process cellular process hydrocarbon biosynthetic process methanogenesis, from carbon dioxide anaerobic respiration small molecule metabolic process one-carbon metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR036080	F420-dependent methylenetetrahydromethanopterin dehydrogenase superfamily	Homologous Superfamily
A, B, C, D, E A, B, C, D, E, F, G, H, I, J, K, L	IPR002844	F420-dependent methylenetetrahydromethanopterin dehydrogenase	Family