3W5U | pdb_00003w5u

Cross-linked complex between Ferredoxin and Ferredoxin-NADP+ reductase

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)
H	d3w5uh_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	2Fe-2S ferredoxin-like	2Fe-2S ferredoxin-related	2Fe-2S ferredoxin	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
F	d3w5uf_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	2Fe-2S ferredoxin-like	2Fe-2S ferredoxin-related	2Fe-2S ferredoxin	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
D	d3w5ud_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	2Fe-2S ferredoxin-like	2Fe-2S ferredoxin-related	2Fe-2S ferredoxin	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
B	d3w5ub_	Alpha and beta proteins (a+b)	beta-Grasp (ubiquitin-like)	2Fe-2S ferredoxin-like	2Fe-2S ferredoxin-related	2Fe-2S ferredoxin	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
G	d3w5ug1	All beta proteins	Reductase/isomerase/elongation factor common domain	Riboflavin synthase domain-like	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
G	d3w5ug2	Alpha and beta proteins (a/b)	Ferredoxin reductase-like, C-terminal NADP-linked domain	Ferredoxin reductase-like, C-terminal NADP-linked domain	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
E	d3w5ue1	All beta proteins	Reductase/isomerase/elongation factor common domain	Riboflavin synthase domain-like	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
E	d3w5ue2	Alpha and beta proteins (a/b)	Ferredoxin reductase-like, C-terminal NADP-linked domain	Ferredoxin reductase-like, C-terminal NADP-linked domain	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
C	d3w5uc1	All beta proteins	Reductase/isomerase/elongation factor common domain	Riboflavin synthase domain-like	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
C	d3w5uc2	Alpha and beta proteins (a/b)	Ferredoxin reductase-like, C-terminal NADP-linked domain	Ferredoxin reductase-like, C-terminal NADP-linked domain	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
A	d3w5ua1	All beta proteins	Reductase/isomerase/elongation factor common domain	Riboflavin synthase domain-like	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)
A	d3w5ua2	Alpha and beta proteins (a/b)	Ferredoxin reductase-like, C-terminal NADP-linked domain	Ferredoxin reductase-like, C-terminal NADP-linked domain	automated matches	automated matches	maize (Zea mays ) [TaxId: 4577 ],	SCOPe (2.08)

Domain Annotation: SCOP2 Classification SCOP2 Database Homepage

Chains	Type	Family Name	Domain Identifier	Family Identifier	Provenance Source (Version)
H	SCOP2B Superfamily	2Fe-2S ferredoxin-like	8034525	3000113	SCOP2B (2022-06-29)
F	SCOP2B Superfamily	2Fe-2S ferredoxin-like	8034525	3000113	SCOP2B (2022-06-29)
D	SCOP2B Superfamily	2Fe-2S ferredoxin-like	8034525	3000113	SCOP2B (2022-06-29)
B	SCOP2B Superfamily	2Fe-2S ferredoxin-like	8034525	3000113	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Riboflavin synthase domain-like	8042047	3001812	SCOP2B (2022-06-29)
G	SCOP2B Superfamily	Ferredoxin reductase-like, C-terminal NADP-linked domain	8044185	3001461	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Ferredoxin reductase-like, C-terminal NADP-linked domain	8044185	3001461	SCOP2B (2022-06-29)
E	SCOP2B Superfamily	Riboflavin synthase domain-like	8042047	3001812	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Ferredoxin reductase-like, C-terminal NADP-linked domain	8044185	3001461	SCOP2B (2022-06-29)
C	SCOP2B Superfamily	Riboflavin synthase domain-like	8042047	3001812	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Riboflavin synthase domain-like	8042047	3001812	SCOP2B (2022-06-29)
A	SCOP2B Superfamily	Ferredoxin reductase-like, C-terminal NADP-linked domain	8044185	3001461	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)
H	Fer2	e3w5uH1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Fer2	ECOD (1.6)
F	Fer2	e3w5uF1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Fer2	ECOD (1.6)
D	Fer2	e3w5uD1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Fer2	ECOD (1.6)
B	Fer2	e3w5uB1	A: a+b two layers	X: beta-Grasp	H: Ubiquitin-related	T: Ubiquitin-like	F: Fer2	ECOD (1.6)
G	FAD_binding_1_1st	e3w5uG1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: FAD_binding_1_1st	ECOD (1.6)
G	NAD_binding_1	e3w5uG2	A: a/b three-layered sandwiches	X: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	H: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	T: Ferredoxin reductase-like, C-terminal NADP-linked domain	F: NAD_binding_1	ECOD (1.6)
E	FAD_binding_1_1st	e3w5uE1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: FAD_binding_1_1st	ECOD (1.6)
E	NAD_binding_1	e3w5uE2	A: a/b three-layered sandwiches	X: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	H: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	T: Ferredoxin reductase-like, C-terminal NADP-linked domain	F: NAD_binding_1	ECOD (1.6)
C	FAD_binding_1_1st	e3w5uC1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: FAD_binding_1_1st	ECOD (1.6)
C	NAD_binding_1	e3w5uC2	A: a/b three-layered sandwiches	X: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	H: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	T: Ferredoxin reductase-like, C-terminal NADP-linked domain	F: NAD_binding_1	ECOD (1.6)
A	FAD_binding_1_1st	e3w5uA1	A: beta barrels	X: cradle loop barrel	H: RIFT-related	T: Alanine racemase-C	F: FAD_binding_1_1st	ECOD (1.6)
A	NAD_binding_1	e3w5uA2	A: a/b three-layered sandwiches	X: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	H: Ferredoxin reductase-like, C-terminal NADP-linked domain (From Topology)	T: Ferredoxin reductase-like, C-terminal NADP-linked domain	F: NAD_binding_1	ECOD (1.6)

Domain Annotation: CATH CATH Database Homepage

Chain	Domain	Class	Architecture	Topology	Homology	Provenance Source (Version)
H	3.10.20.30	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Beta-grasp domain	CATH (4.3.0)
F	3.10.20.30	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Beta-grasp domain	CATH (4.3.0)
D	3.10.20.30	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Beta-grasp domain	CATH (4.3.0)
B	3.10.20.30	Alpha Beta	Roll	Ubiquitin-like (UB roll)	Beta-grasp domain	CATH (4.3.0)
G	2.40.30.10	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
G	3.40.50.80	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module	CATH (4.3.0)
E	2.40.30.10	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
E	3.40.50.80	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module	CATH (4.3.0)
C	2.40.30.10	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
C	3.40.50.80	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module	CATH (4.3.0)
A	2.40.30.10	Mainly Beta	Beta Barrel	Elongation Factor Tu (Ef-tu)	domain 3	CATH (4.3.0)
A	3.40.50.80	Alpha Beta	3-Layer(aba) Sandwich	Rossmann fold	Nucleotide-binding domain of ferredoxin-NADP reductase (FNR) module	CATH (4.3.0)

Protein Family Annotation Pfam Database Homepage

Chains	Accession	Name	Description	Comments	Source
B, D, F, H	PF00111	2Fe-2S iron-sulfur cluster binding domain (Fer2)	2Fe-2S iron-sulfur cluster binding domain		Domain
A, C, E, G	PF00175	Oxidoreductase NAD-binding domain (NAD_binding_1)	Oxidoreductase NAD-binding domain	Xanthine dehydrogenases, that also bind FAD/NAD, have essentially no similarity.	Domain
A, C, E, G	PF00970	Oxidoreductase FAD-binding domain (FAD_binding_6)	Oxidoreductase FAD-binding domain		Domain

Gene Ontology: Gene Product Annotation Gene Ontology Database Homepage

Chains	Polymer	Molecular Function	Biological Process	Cellular Component
B, D, F, H	Ferredoxin-1, chloroplastic	iron-sulfur cluster binding 2 iron, 2 sulfur cluster binding binding metal cluster binding small molecule binding electron transfer activity cation binding ion binding metal ion binding	electron transport chain metabolic process cellular process generation of precursor metabolites and energy response to light stimulus response to stimulus response to radiation response to abiotic stimulus	membrane-bounded organelle intracellular organelle cellular anatomical structure intracellular anatomical structure plastid organelle cytoplasm intracellular membrane-bounded organelle chloroplast plastid stroma chloroplast stroma
A, C, E, G	Ferredoxin	oxidoreductase activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, heme protein as acceptor catalytic activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding ferredoxin-[NAD(P)H] reductase activity ferredoxin-NADP+ reductase activity oxidoreductase activity, acting on iron-sulfur proteins as donors oxidoreductase activity, acting on iron-sulfur proteins as donors, NAD or NADP as acceptor electron transfer activity oxidoreductase activity oxidoreductase activity, acting on NAD(P)H oxidoreductase activity, acting on NAD(P)H, heme protein as acceptor catalytic activity binding nucleoside phosphate binding nucleotide binding heterocyclic compound binding small molecule binding ferredoxin-[NAD(P)H] reductase activity ferredoxin-NADP+ reductase activity oxidoreductase activity, acting on iron-sulfur proteins as donors oxidoreductase activity, acting on iron-sulfur proteins as donors, NAD or NADP as acceptor electron transfer activity NADPH dehydrogenase activity	electron transport chain metabolic process cellular process generation of precursor metabolites and energy photosynthesis	chloroplast thylakoid membrane membrane-bounded organelle plastid membrane protein-containing complex intracellular anatomical structure plastid membrane protein complex organelle outer membrane plastid thylakoid membrane plastid thylakoid intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle chloroplast thylakoid membrane membrane-bounded organelle plastid membrane protein-containing complex intracellular anatomical structure plastid membrane protein complex organelle outer membrane plastid thylakoid membrane plastid thylakoid intracellular organelle organelle envelope cellular anatomical structure bounding membrane of organelle membraneless organelle plastid envelope thylakoid chloroplast membrane intracellular membraneless organelle intracellular membrane-bounded organelle thylakoid membrane chloroplast thylakoid membrane protein complex organelle chloroplast thylakoid outer membrane cytoplasm photosynthetic membrane organelle membrane

InterPro: Protein Family Classification InterPro Database Homepage

Chains	Accession	Name	Type
B, D, F, H	IPR036010	2Fe-2S ferredoxin-like superfamily	Homologous Superfamily
B, D, F, H	IPR010241	Ferredoxin [2Fe-2S], plant	Family
B, D, F, H	IPR001041	2Fe-2S ferredoxin-type iron-sulfur binding domain	Domain
B, D, F, H	IPR012675	Beta-grasp domain superfamily	Homologous Superfamily
B, D, F, H	IPR006058	2Fe-2S ferredoxin, iron-sulphur binding site	Binding Site
A, C, E, G	IPR001709	Flavoprotein pyridine nucleotide cytochrome reductase	Domain
A, C, E, G	IPR001433	Oxidoreductase FAD/NAD(P)-binding	Domain
A, C, E, G	IPR035442	Ferredoxin--NADP reductase, plant and Cyanobacteria type	Family
A, C, E, G	IPR039261	Ferredoxin-NADP reductase (FNR), nucleotide-binding domain	Homologous Superfamily
A, C, E, G	IPR008333	Flavoprotein pyridine nucleotide cytochrome reductase-like, FAD-binding domain	Domain
A, C, E, G	IPR017938	Riboflavin synthase-like beta-barrel	Homologous Superfamily
A, C, E, G	IPR017927	FAD-binding domain, ferredoxin reductase-type	Domain
A, C, E, G	IPR015701	Ferredoxin--NADP reductase	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.