2J57 | pdb_00002j57

X-ray reduced Paraccocus denitrificans methylamine dehydrogenase N- quinol in complex with amicyanin.

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)
L [auth N]	d2j57n_	Small proteins	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
K [auth M]	d2j57m_	Small proteins	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
J [auth L]	d2j57l_	Small proteins	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
I [auth K]	d2j57k_	Small proteins	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
H [auth J]	d2j57j_	All beta proteins	7-bladed beta-propeller	YVTN repeat-like/Quinoprotein amine dehydrogenase	automated matches	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
G [auth I]	d2j57i_	All beta proteins	7-bladed beta-propeller	YVTN repeat-like/Quinoprotein amine dehydrogenase	automated matches	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
F [auth H]	d2j57h_	All beta proteins	7-bladed beta-propeller	YVTN repeat-like/Quinoprotein amine dehydrogenase	automated matches	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
E [auth G]	d2j57g_	All beta proteins	7-bladed beta-propeller	YVTN repeat-like/Quinoprotein amine dehydrogenase	automated matches	automated matches	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
D	d2j57d_	All beta proteins	Cupredoxin-like	Cupredoxins	Plastocyanin/azurin-like	Amicyanin	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
C	d2j57c_	All beta proteins	Cupredoxin-like	Cupredoxins	Plastocyanin/azurin-like	Amicyanin	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
B	d2j57b_	All beta proteins	Cupredoxin-like	Cupredoxins	Plastocyanin/azurin-like	Amicyanin	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)
A	d2j57a_	All beta proteins	Cupredoxin-like	Cupredoxins	Plastocyanin/azurin-like	Amicyanin	(Paracoccus denitrificans ) [TaxId: 266 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
L [auth N]	SCOP2B Superfamily	Methylamine dehydrogenase, L chain	8041821	3000932	SCOP2B (2022-06-29)
K [auth M]	SCOP2B Superfamily	Methylamine dehydrogenase, L chain	8041821	3000932	SCOP2B (2022-06-29)
J [auth L]	SCOP2B Superfamily	Methylamine dehydrogenase, L chain	8041821	3000932	SCOP2B (2022-06-29)
I [auth K]	SCOP2B Superfamily	Methylamine dehydrogenase, L chain	8041821	3000932	SCOP2B (2022-06-29)
H [auth J]	SCOP2B Superfamily	YVTN repeat-like/Quinoprotein amine dehydrogenase	8042846	3001671	SCOP2B (2022-06-29)
G [auth I]	SCOP2B Superfamily	YVTN repeat-like/Quinoprotein amine dehydrogenase	8042846	3001671	SCOP2B (2022-06-29)
F [auth H]	SCOP2B Superfamily	YVTN repeat-like/Quinoprotein amine dehydrogenase	8042846	3001671	SCOP2B (2022-06-29)
E [auth G]	SCOP2B Superfamily	YVTN repeat-like/Quinoprotein amine dehydrogenase	8042846	3001671	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	Cupredoxins	8035199	3000886	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Cupredoxins	8035199	3000886	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	Cupredoxins	8035199	3000886	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Cupredoxins	8035199	3000886	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)
L [auth N]	Me-amine-dh_L	e2j57N1	A: few secondary structure elements	X: Methylamine dehydrogenase, L chain (From Topology)	H: Methylamine dehydrogenase, L chain (From Topology)	T: Methylamine dehydrogenase, L chain	F: Me-amine-dh_L	ECOD (1.6)
K [auth M]	Me-amine-dh_L	e2j57M1	A: few secondary structure elements	X: Methylamine dehydrogenase, L chain (From Topology)	H: Methylamine dehydrogenase, L chain (From Topology)	T: Methylamine dehydrogenase, L chain	F: Me-amine-dh_L	ECOD (1.6)
J [auth L]	Me-amine-dh_L	e2j57L1	A: few secondary structure elements	X: Methylamine dehydrogenase, L chain (From Topology)	H: Methylamine dehydrogenase, L chain (From Topology)	T: Methylamine dehydrogenase, L chain	F: Me-amine-dh_L	ECOD (1.6)
I [auth K]	Me-amine-dh_L	e2j57K1	A: few secondary structure elements	X: Methylamine dehydrogenase, L chain (From Topology)	H: Methylamine dehydrogenase, L chain (From Topology)	T: Methylamine dehydrogenase, L chain	F: Me-amine-dh_L	ECOD (1.6)
H [auth J]	Me-amine-dh_H	e2j57J1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: Me-amine-dh_H	ECOD (1.6)
G [auth I]	Me-amine-dh_H	e2j57I1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: Me-amine-dh_H	ECOD (1.6)
F [auth H]	Me-amine-dh_H	e2j57H1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: Me-amine-dh_H	ECOD (1.6)
E [auth G]	Me-amine-dh_H	e2j57G1	A: beta duplicates or obligate multimers	X: beta-propeller-like	H: beta-propeller	T: 7-bladed	F: Me-amine-dh_H	ECOD (1.6)
D	Copper-bind	e2j57D1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Copper-bind	ECOD (1.6)
C	Copper-bind	e2j57C1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Copper-bind	ECOD (1.6)
B	Copper-bind	e2j57B1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Copper-bind	ECOD (1.6)
A	Copper-bind	e2j57A1	A: beta sandwiches	X: Cupredoxin-like	H: Cupredoxin-related (From Topology)	T: Cupredoxin-related	F: Copper-bind	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
L [auth N]	2.60.30.10	Mainly Beta	Sandwich	Electron Transport Ethylamine Dehydrogenase	Methylamine/Aralkylamine dehydrogenase light chain	CATH (4.2.0)
K [auth M]	2.60.30.10	Mainly Beta	Sandwich	Electron Transport Ethylamine Dehydrogenase	Methylamine/Aralkylamine dehydrogenase light chain	CATH (4.2.0)
J [auth L]	2.60.30.10	Mainly Beta	Sandwich	Electron Transport Ethylamine Dehydrogenase	Methylamine/Aralkylamine dehydrogenase light chain	CATH (4.2.0)
I [auth K]	2.60.30.10	Mainly Beta	Sandwich	Electron Transport Ethylamine Dehydrogenase	Methylamine/Aralkylamine dehydrogenase light chain	CATH (4.2.0)
H [auth J]	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.2.0)
G [auth I]	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.2.0)
F [auth H]	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.2.0)
E [auth G]	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.2.0)
D	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.2.0)
C	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.2.0)
B	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.2.0)
A	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.2.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
I [auth K], J [auth L], K [auth M], L [auth N]	PF02975	Methylamine dehydrogenase, L chain (Me-amine-dh_L)	Methylamine dehydrogenase, L chain		Domain
E [auth G], F [auth H], G [auth I], H [auth J]	PF06433	Methylamine dehydrogenase heavy chain (MADH) (Me-amine-dh_H)	Methylamine dehydrogenase heavy chain (MADH)	-	Repeat
A, B, C, D	PF00127	Copper binding proteins, plastocyanin/azurin family (Copper-bind)	Copper binding proteins, plastocyanin/azurin family		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
I [auth K], J [auth L], K [auth M], L [auth N]	METHYLAMINE DEHYDROGENASE LIGHT CHAIN	oxidoreductase activity, acting on the CH-NH2 group of donors oxidoreductase activity methylamine dehydrogenase (amicyanin) activity oxidoreductase activity, acting on the CH-NH2 group of donors, with a copper protein as acceptor catalytic activity aliphatic amine dehydrogenase activity	amine metabolic process metabolic process cellular process	cellular anatomical structure outer membrane-bounded periplasmic space cell envelope periplasmic space
E [auth G], F [auth H], G [auth I], H [auth J]	METHYLAMINE DEHYDROGENASE HEAVY CHAIN	oxidoreductase activity, acting on the CH-NH2 group of donors oxidoreductase activity methylamine dehydrogenase (amicyanin) activity oxidoreductase activity, acting on the CH-NH2 group of donors, with a copper protein as acceptor catalytic activity aliphatic amine dehydrogenase activity	amine metabolic process methylamine metabolic process metabolic process cellular process	cellular anatomical structure periplasmic space
A, B, C, D	AMICYANIN	cation binding transition metal ion binding copper ion binding ion binding binding metal ion binding small molecule binding electron transfer activity	-	cellular anatomical structure periplasmic space

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
I [auth K], J [auth L], K [auth M], L [auth N]	IPR004229	Methylamine dehydrogenase light chain	Family
I [auth K], J [auth L], K [auth M], L [auth N]	IPR016008	Amine dehydrogenase light chain	Family
I [auth K], J [auth L], K [auth M], L [auth N]	IPR036560	Methylamine/Aralkylamine dehydrogenase light chain superfamily	Homologous Superfamily
I [auth K], J [auth L], K [auth M], L [auth N]	IPR013504	Methylamine/Aralkylamine dehydrogenase light chain, C-terminal domain	Domain
E [auth G], F [auth H], G [auth I], H [auth J]	IPR009451	Amine dehydrogenase heavy chain	Family
E [auth G], F [auth H], G [auth I], H [auth J]	IPR011044	Quinoprotein amine dehydrogenase, beta chain-like	Homologous Superfamily
E [auth G], F [auth H], G [auth I], H [auth J]	IPR015943	WD40/YVTN repeat-like-containing domain superfamily	Homologous Superfamily
E [auth G], F [auth H], G [auth I], H [auth J]	IPR013476	Methylamine dehydrogenase heavy chain	Family
A, B, C, D	IPR035668	Amicyanin	Family
A, B, C, D	IPR052721	Electron Transfer Amicyanin	Family
A, B, C, D	IPR002386	Amicyanin/Pseudoazurin	Family
A, B, C, D	IPR013475	Amicyanin, Paracoccus/Methylobacterium	Family
A, B, C, D	IPR000923	Blue (type 1) copper domain	Domain
A, B, C, D	IPR028871	Blue (type 1) copper protein, binding site	Binding Site
A, B, C, D	IPR008972	Cupredoxin	Homologous Superfamily
A, B, C, D	IPR001235	Blue (type 1) copper protein, plastocyanin-type	Family

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.