3AEK | pdb_00003aek

Structure of the light-independent protochlorophyllide reductase catalyzing a key reduction for greening in the dark

External Resource: Annotation

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

Domain Annotation: ECOD Classification ECOD Database Homepage

Chains	Family Name	Domain Identifier	Architecture	Possible Homology	Homology	Topology	Family	Provenance Source (Version)
A	Oxidored_nitro	e3aekA1	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: TIM barrels	T: TIM barrels	F: Oxidored_nitro	ECOD (v294.1)
A	Peripla_BP_2	e3aekA2	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: TIM barrels	T: TIM barrels	F: Peripla_BP_2	ECOD (v294.1)
C	AARP2CN	e3aekC1	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: Spectrin repeat	T: Spectrin repeat	F: AARP2CN	ECOD (v294.1)
B	Peripla_BP_2	e3aekB1	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: TIM barrels	T: TIM barrels	F: Peripla_BP_2	ECOD (v294.1)
D	Peripla_BP_2	e3aekD1	A: a/b three-layered sandwiches	X: Spectrin repeat-like	H: TIM barrels	T: TIM barrels	F: Peripla_BP_2	ECOD (v294.1)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
A	3.40.50.1980	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nitrogenase molybdenum iron protein domain	CATH (4.3.0)
C	3.40.50.1980	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nitrogenase molybdenum iron protein domain	CATH (4.3.0)
B	3.40.50.1980	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nitrogenase molybdenum iron protein domain	CATH (4.3.0)
B	1.20.89.20	Mainly Alpha	Up-down Bundle	Nitrogenase Molybdenum-iron Protein, subunit B	domain 4	CATH (4.3.0)
D	3.40.50.1980	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nitrogenase molybdenum iron protein domain	CATH (4.3.0)
D	1.20.89.20	Mainly Alpha	Up-down Bundle	Nitrogenase Molybdenum-iron Protein, subunit B	domain 4	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
A, C	PF00148	Nitrogenase component 1 type Oxidoreductase (Oxidored_nitro)	Nitrogenase component 1 type Oxidoreductase		Domain
B, D	PF00148	Nitrogenase component 1 type Oxidoreductase (Oxidored_nitro)	Nitrogenase component 1 type Oxidoreductase		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
A, C	Light-independent protochlorophyllide reductase subunit N	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on iron-sulfur proteins as donors catalytic activity iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding cation binding metal ion binding oxidoreductase activity, acting on the CH-CH group of donors, iron-sulfur protein as acceptor oxidoreductase activity, acting on the CH-CH group of donors	pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process light-independent bacteriochlorophyll biosynthetic process chlorophyll metabolic process pigment biosynthetic process bacteriochlorophyll biosynthetic process light-independent chlorophyll biosynthetic process tetrapyrrole biosynthetic process biosynthetic process metabolic process cellular process porphyrin-containing compound metabolic process chlorophyll biosynthetic process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process light-independent bacteriochlorophyll biosynthetic process chlorophyll metabolic process pigment biosynthetic process bacteriochlorophyll biosynthetic process light-independent chlorophyll biosynthetic process tetrapyrrole biosynthetic process biosynthetic process metabolic process cellular process porphyrin-containing compound metabolic process chlorophyll biosynthetic process carbohydrate metabolic process photosynthesis carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process	-
B, D	Light-independent protochlorophyllide reductase subunit B	binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding binding adenyl ribonucleotide binding nucleotide binding purine ribonucleotide binding purine ribonucleoside triphosphate binding nucleoside phosphate binding ion binding purine nucleotide binding anion binding adenyl nucleotide binding ATP binding heterocyclic compound binding carbohydrate derivative binding ribonucleotide binding small molecule binding oxidoreductase activity oxidoreductase activity, acting on iron-sulfur proteins as donors catalytic activity iron-sulfur cluster binding 4 iron, 4 sulfur cluster binding metal cluster binding cation binding metal ion binding oxidoreductase activity, acting on the CH-CH group of donors, iron-sulfur protein as acceptor oxidoreductase activity, acting on the CH-CH group of donors	carbohydrate metabolic process biosynthetic process photosynthesis carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process metabolic process cellular process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process light-independent bacteriochlorophyll biosynthetic process chlorophyll metabolic process pigment biosynthetic process carbohydrate metabolic process biosynthetic process photosynthesis carbohydrate biosynthetic process photosynthesis, dark reaction primary metabolic process metabolic process cellular process pigment metabolic process porphyrin-containing compound biosynthetic process tetrapyrrole metabolic process light-independent bacteriochlorophyll biosynthetic process chlorophyll metabolic process pigment biosynthetic process bacteriochlorophyll biosynthetic process light-independent chlorophyll biosynthetic process tetrapyrrole biosynthetic process porphyrin-containing compound metabolic process chlorophyll biosynthetic process	-

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
A, C	IPR000510	Nitrogenase/oxidoreductase, component 1	Domain
A, C	IPR005970	Light-independent protochlorophyllide reductase, N subunit	Family
A, C	IPR050293	Light-independent protochlorophyllide reductase	Family
B, D	IPR013580	Light-independent protochlorophyllide reductase subunit B-like, C-terminal	Domain
B, D	IPR016209	Protochlorophyllide reductase, ChlB, light independent	Family
B, D	IPR000510	Nitrogenase/oxidoreductase, component 1	Domain
B, D	IPR042298	Proto-chlorophyllide reductase, C-terminal	Homologous Superfamily
B, D	IPR005969	Light-independent protochlorophyllide reductase, B subunit	Family
B, D	IPR050152	ChlB/BchB/BchZ	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. RCSB PDB uses resources of the National Energy Research Scientific Computing Center (NERSC), a Department of Energy User Facility.