3C75 | pdb_00003c75

Paracoccus versutus methylamine dehydrogenase in complex with amicyanin

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 [auth B]	d3c75b_	All beta proteins	Cupredoxin-like	Cupredoxins	Plastocyanin/azurin-like	automated matches	(Paracoccus versutus ) [TaxId: 34007 ],	SCOPe (2.08)
C [auth A]	d3c75a_	All beta proteins	Cupredoxin-like	Cupredoxins	Plastocyanin/azurin-like	automated matches	(Paracoccus versutus ) [TaxId: 34007 ],	SCOPe (2.08)
E [auth M]	d3c75m_	Small proteins	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	automated matches	(Paracoccus versutus ) [TaxId: 34007 ],	SCOPe (2.08)
B [auth L]	d3c75l_	Small proteins	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	Methylamine dehydrogenase, L chain	automated matches	(Paracoccus versutus ) [TaxId: 34007 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
F [auth B]	SCOP2B Superfamily	Cupredoxins	8033909	3000886	SCOP2B (2022-06-29)
C [auth A]	SCOP2B Superfamily	Cupredoxins	8033909	3000886	SCOP2B (2022-06-29)
E [auth M]	SCOP2B Superfamily	Methylamine dehydrogenase, L chain	8038877	3000932	SCOP2B (2022-06-29)
B [auth L]	SCOP2B Superfamily	Methylamine dehydrogenase, L chain	8038877	3000932	SCOP2B (2022-06-29)
D [auth J]	SCOP2B Superfamily	YVTN repeat-like/Quinoprotein amine dehydrogenase	8042847	3001671	SCOP2B (2022-06-29)
A [auth H]	SCOP2B Superfamily	YVTN repeat-like/Quinoprotein amine dehydrogenase	8042847	3001671	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)
F [auth B]	IL7	e3c75B1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (develop294)
C [auth A]	Thioesterase	e3c75A1	A: alpha bundles	X: OB-fold	H: Nucleic acid-binding protein	T: Nucleic acid-binding protein	F: Thioesterase	ECOD (develop294)
E [auth M]	IL7	e3c75M1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (develop294)
B [auth L]	Thioesterase	e3c75L1	A: alpha bundles	X: OB-fold	H: Nucleic acid-binding protein	T: Nucleic acid-binding protein	F: Thioesterase	ECOD (develop294)
D [auth J]	IL7	e3c75J1	A: alpha bundles	X: HTH	H: Nudix	T: Nudix	F: IL7	ECOD (develop294)
A [auth H]	Thioesterase	e3c75H1	A: alpha bundles	X: OB-fold	H: Nucleic acid-binding protein	T: Nucleic acid-binding protein	F: Thioesterase	ECOD (develop294)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F [auth B]	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.3.0)
C [auth A]	2.60.40.420	Mainly Beta	Sandwich	Immunoglobulin-like	Cupredoxins - blue copper proteins	CATH (4.3.0)
E [auth M]	2.60.30.10	Mainly Beta	Sandwich	Electron Transport Ethylamine Dehydrogenase	Methylamine/Aralkylamine dehydrogenase light chain	CATH (4.3.0)
B [auth L]	2.60.30.10	Mainly Beta	Sandwich	Electron Transport Ethylamine Dehydrogenase	Methylamine/Aralkylamine dehydrogenase light chain	CATH (4.3.0)
D [auth J]	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)
A [auth H]	2.130.10.10	Mainly Beta	7 Propeller	Methylamine Dehydrogenase	Chain H	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
C [auth A], F [auth B]	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
B [auth L], E [auth M]	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
A [auth H], D [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

InterPro: Protein Family Classification InterPro Database Homepage

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

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
B [auth L], E [auth M]	TRQ	Parent Component: TRP RESID: AA0148 PSI-MOD : oxidation of tryptophan to L-tryptophyl quinone MOD:00157

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.