6EL3 | pdb_00006el3

Structure of Progesterone 5beta-Reductase from Arabidopsis thaliana in complex with NADP

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
F	GDP_Man_Dehyd_1	e6el3F1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: GDP_Man_Dehyd_1	ECOD (1.6)
E	GDP_Man_Dehyd_1	e6el3E1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: GDP_Man_Dehyd_1	ECOD (1.6)
D	GDP_Man_Dehyd_1	e6el3D1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: GDP_Man_Dehyd_1	ECOD (1.6)
C	GDP_Man_Dehyd_1	e6el3C1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: GDP_Man_Dehyd_1	ECOD (1.6)
B	GDP_Man_Dehyd_1	e6el3B1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: GDP_Man_Dehyd_1	ECOD (1.6)
A	GDP_Man_Dehyd_1	e6el3A1	A: a/b three-layered sandwiches	X: Rossmann-like	H: Rossmann-related	T: NAD(P)-binding Rossmann-fold domains	F: GDP_Man_Dehyd_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
F	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)
E	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	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)
C	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	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)
A	3.40.50.720	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	NAD(P)-binding Rossmann-like Domain	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
F	PF22917	PRISE-like Rossmann-fold domain (PRISE)	PRISE-like Rossmann-fold domain	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide ...	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide and iridoid biosynthesis. This domain is also found in the short chain dehydrogenase ausT, involved in the terpenoid biosynthesis pathway.	Domain
E	PF22917	PRISE-like Rossmann-fold domain (PRISE)	PRISE-like Rossmann-fold domain	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide ...	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide and iridoid biosynthesis. This domain is also found in the short chain dehydrogenase ausT, involved in the terpenoid biosynthesis pathway.	Domain
D	PF22917	PRISE-like Rossmann-fold domain (PRISE)	PRISE-like Rossmann-fold domain	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide ...	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide and iridoid biosynthesis. This domain is also found in the short chain dehydrogenase ausT, involved in the terpenoid biosynthesis pathway.	Domain
C	PF22917	PRISE-like Rossmann-fold domain (PRISE)	PRISE-like Rossmann-fold domain	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide ...	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide and iridoid biosynthesis. This domain is also found in the short chain dehydrogenase ausT, involved in the terpenoid biosynthesis pathway.	Domain
B	PF22917	PRISE-like Rossmann-fold domain (PRISE)	PRISE-like Rossmann-fold domain	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide ...	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide and iridoid biosynthesis. This domain is also found in the short chain dehydrogenase ausT, involved in the terpenoid biosynthesis pathway.	Domain
A	PF22917	PRISE-like Rossmann-fold domain (PRISE)	PRISE-like Rossmann-fold domain	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide ...	This NAD(P)-binding Rossmann-fold-like domain is found in a number of enzymes with oxidoreductase activity. Amongst them are the PRISEs (Progesterone 5beta-reductase and/or iridoid synthase-like 1,4-enone reductases) that are involved in cardenolide and iridoid biosynthesis. This domain is also found in the short chain dehydrogenase ausT, involved in the terpenoid biosynthesis pathway.	Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
F	3-oxo-Delta(4,5)-steroid 5-beta-reductase	enone reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor Delta4-3-oxosteroid 5beta-reductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity protein binding binding protein dimerization activity	steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress response to wounding	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
E	3-oxo-Delta(4,5)-steroid 5-beta-reductase	enone reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor Delta4-3-oxosteroid 5beta-reductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity protein binding binding protein dimerization activity	steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress response to wounding	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
D	3-oxo-Delta(4,5)-steroid 5-beta-reductase	enone reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor Delta4-3-oxosteroid 5beta-reductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity protein binding binding protein dimerization activity	steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress response to wounding	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
C	3-oxo-Delta(4,5)-steroid 5-beta-reductase	enone reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor Delta4-3-oxosteroid 5beta-reductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity protein binding binding protein dimerization activity	steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress response to wounding	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
B	3-oxo-Delta(4,5)-steroid 5-beta-reductase	enone reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor Delta4-3-oxosteroid 5beta-reductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity protein binding binding protein dimerization activity	steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress response to wounding	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol
A	3-oxo-Delta(4,5)-steroid 5-beta-reductase	enone reductase activity oxidoreductase activity oxidoreductase activity, acting on the CH-CH group of donors, NAD or NADP as acceptor Delta4-3-oxosteroid 5beta-reductase activity oxidoreductase activity, acting on the CH-CH group of donors catalytic activity protein binding binding protein dimerization activity	steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress steroid metabolic process primary metabolic process metabolic process cellular process lipid metabolic process developmental process multicellular organism development multicellular organismal process xylem and phloem pattern formation anatomical structure development pattern specification process regionalization response to stimulus response to stress response to wounding	cellular anatomical structure intracellular anatomical structure cytoplasm cytosol

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
F	IPR055222	PRISE-like, Rossmann-fold domain	Domain
F	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
E	IPR055222	PRISE-like, Rossmann-fold domain	Domain
E	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
D	IPR055222	PRISE-like, Rossmann-fold domain	Domain
D	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
C	IPR055222	PRISE-like, Rossmann-fold domain	Domain
C	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
B	IPR055222	PRISE-like, Rossmann-fold domain	Domain
B	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily
A	IPR055222	PRISE-like, Rossmann-fold domain	Domain
A	IPR036291	NAD(P)-binding domain superfamily	Homologous Superfamily

Protein Modification Annotation

Modified Residue(s)
Chain	Residue(s)	Description
F	MLY	Parent Component: LYS RESID: AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084
E	MLY	Parent Component: LYS RESID: AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084
D	MLY	Parent Component: LYS RESID: AA0075 , AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084
C	MLY	Parent Component: LYS RESID: AA0075 , AA0075 , AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084
B	MLY	Parent Component: LYS RESID: AA0075 , AA0075 , AA0075 , AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084
A	MLY	Parent Component: LYS RESID: AA0075 , AA0075 , AA0075 , AA0075 , AA0075 , AA0075 PSI-MOD : N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084 , N6,N6-dimethyl-L-lysine MOD:00084

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.