1QYD | pdb_00001qyd

Crystal structures of pinoresinol-lariciresinol and phenylcoumaran benzylic ether reductases, and their relationship to isoflavone reductases

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

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

Chains	Domain Info	Class	Fold	Superfamily	Family	Domain	Species	Provenance Source (Version)
C	d1qydc_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	Pinoresinol-lariciresinol reductase	giant arborvitae (Thuja plicata ) [TaxId: 3316 ],	SCOPe (2.08)
D	d1qydd_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	Pinoresinol-lariciresinol reductase	giant arborvitae (Thuja plicata ) [TaxId: 3316 ],	SCOPe (2.08)
B	d1qydb_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	Pinoresinol-lariciresinol reductase	giant arborvitae (Thuja plicata ) [TaxId: 3316 ],	SCOPe (2.08)
A	d1qyda_	Alpha and beta proteins (a/b)	NAD(P)-binding Rossmann-fold domains	NAD(P)-binding Rossmann-fold domains	Tyrosine-dependent oxidoreductases	Pinoresinol-lariciresinol reductase	giant arborvitae (Thuja plicata ) [TaxId: 3316 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
C	SCOP2B Superfamily	SDR-like	8058112	3000038	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	SDR-like	8058112	3000038	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	SDR-like	8058112	3000038	SCOP2B (2022-06-29)
A	SCOP2 Family	UDP-glucose 4-epimerase GalE-lke	8058111	4000088	SCOP2 (2022-06-29)
A	SCOP2 Superfamily	SDR-like	8058112	3000038	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)
C		e1qydC1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: NAD_binding_3	F:	ECOD (20:10:01)
D		e1qydD1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: NAD_binding_3	F:	ECOD (20:10:01)
B		e1qydB1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: NAD_binding_3	F:	ECOD (20:10:01)
A		e1qydA1	A: C-terminal subdomain in Lon-related proteases catalytic domains	X: C-terminal subdomain in Lon-related proteases catalytic domains	H: C-terminal subdomain in Lon-related proteases catalytic domains	T: NAD_binding_3	F:	ECOD (20:10:01)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
C	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
D	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
D	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
B	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
B	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
A	3.90.25.10	Alpha Beta	Alpha-Beta Complex	UDP-galactose 4-epimerase	domain 1	CATH (4.3.0)

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, B, C, D	pinoresinol-lariciresinol reductase	oxidoreductase activity, reducing C-O-C group as acceptor oxidoreductase activity pinoresinol reductase activity catalytic activity lariciresinol reductase activity	(+)-pinoresinol catabolic process phenylpropanoid catabolic process phenylpropanoid metabolic process catabolic process lignan catabolic process benzene-containing compound metabolic process ether catabolic process lignan metabolic process secondary metabolic process phenol-containing compound catabolic process phenol-containing compound metabolic process metabolic process cellular process lignan biosynthetic process (+)-pinoresinol catabolic process phenylpropanoid catabolic process phenylpropanoid metabolic process catabolic process lignan catabolic process benzene-containing compound metabolic process ether catabolic process lignan metabolic process secondary metabolic process phenol-containing compound catabolic process phenol-containing compound metabolic process metabolic process cellular process lignan biosynthetic process (-)-lariciresinol biosynthetic process phenylpropanoid biosynthetic process biosynthetic process secondary metabolite biosynthetic process phenol-containing compound biosynthetic process (-)-lariciresinol catabolic process (+)-secoisolariciresinol biosynthetic process polyol metabolic process small molecule biosynthetic process alcohol metabolic process diol biosynthetic process diol metabolic process polyol biosynthetic process alcohol biosynthetic process small molecule metabolic process (-)-pinoresinol metabolic process (-)-pinoresinol catabolic process ether biosynthetic process primary alcohol biosynthetic process (+)-lariciresinol biosynthetic process primary alcohol metabolic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, B, C, D	IPR008030	NmrA-like domain	Domain
A, B, C, D	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A, B, C, D	IPR050608	NmrA-type oxidoreductase, Isoflavone reductase subfamily	Family
A, B, C, D	IPR045312	Phenylcoumaran benzylic ether reductase-like	Domain

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.