SAXSdb — 9fcn

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1. Protein Identity and Related Structures Protein Identity & Related Structures

12-oxophytodienoate reductase 3,Old yellow enzyme OYE4

Solanum lycopersicum

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Monomer	Protein 1	FLAVIN MONONUCLEOTIDE × 1 1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE × 1 water × 1	Consistent with protein count
2	Insufficient information	Monomer	Protein 1	FLAVIN MONONUCLEOTIDE × 1 1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE × 1 water × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	I3V5V6_9BURK
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 290–301； UniProt 273–284 Author chain B； PDBConstruct 290–301； UniProt 273–284

12-oxophytodienoate reductase 3,Old yellow enzyme OYE4

Solanum lycopersicum

UniProt Q9FEW9

State in the Current Structure

Assembly	Physical composition	Protein state	Molecular copy count	Associated components	Data consistency
1	Insufficient information	Monomer	Protein 1	FLAVIN MONONUCLEOTIDE × 1 1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE × 1 water × 1	Consistent with protein count
2	Insufficient information	Monomer	Protein 1	FLAVIN MONONUCLEOTIDE × 1 1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE × 1 water × 1	Consistent with protein count

Other States of the Same Protein in the Database

View Construct and Data Evidence

UniProt name	OPR3_SOLLC
Isoform	—
PDB entities	1
Chains and sequence ranges	Author chain A； PDBConstruct 10–289； UniProt 1–280 Author chain A； PDBConstruct 302–400； UniProt 298–396 Author chain B； PDBConstruct 10–289； UniProt 1–280 Author chain B； PDBConstruct 302–400； UniProt 298–396

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

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2. Structure Basics 2. Structure Basics

Entry ID entry_id	9fcn
Deposition date deposition_date	2024-05-15
Structure title title	OPR3 loop swap variant L6(AchrOYE4) in complex with NADPH4
Keywords keywords	Flavoenzymes, ene-reductases, old yellow enzymes, coenzymes, FLAVOPROTEIN; FLAVOPROTEIN
Experimental Method method	X-RAY DIFFRACTION

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3. Official assembly/model SAXS Official SAXS Profiles

This page reads only the latest assembly calculations. Every curve maps to an explicit PDB entry, official biological assembly and coordinate model.

9fcn__assembly_1__model_1

Assembly 1 · Model 1 · CRYSOL 4.1.3-1-20251215 (887e7ef)

Download this curve (.dat)

9fcn__assembly_1__model_1 | I(q)

100 plotted points; both axes use logarithmic scales.

9fcn__assembly_1__model_1 | P(r) · Pending

P(r) will be calculated and displayed separately for the same assembly/model.

Rg（Guinier）	19.97 Å
Rg (electron density)	18.86 Å
Total Rg	19.81 Å
Atom count	2833
Residues	360
Excluded volume	50144 Å³
Maximum q	0.500 Å⁻¹

Assembly	Model	Structure unit	Oligomeric description	Status	CRYSOL	Actions
1	1	`9fcn__assembly_1__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download
2	1	`9fcn__assembly_2__model_1`	monomeric （1）	Success	4.1.3-1-20251215 (887e7ef)	View Download

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4. Crystallography and Experiment 4. Crystallography & Experiment

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5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Description description	12-oxophytodienoate reductase 3,Old yellow enzyme OYE4
Molecular weight formula_weight	44167.9 kDa
EC 编号 ec_number	1.3.1.42,1.6.99.1
Source method src_method	man
Copy count entity_count	2

Polymer Polymer

Polymer type type	polypeptide(L)
Chain IDs strand_id	A,B
Atom count atom_count	6142

MASHHHHHHMASSAQDGNNPLFSPYKMGKFNLSHRVVLAPMTRCRALNNIPQAALGEYYEQRATAGGFLITEGTMISPTSAGFPHVPGIFTKEQVREWKKIVDVVHAKGAVIFCQLWHVGRASHEVYQPAGAAPISSTEKPISNRWRILMPDGTHGIYPKPRAIGTYEISQVVEDYRRSALNAIEAGFDGIEIHGAHGYLIDQFLKDGINDRTDEYGGSLANRCKFITQVVQAVVSAIGADRVGVRVSPAIDHLDAMDSNPLSLGLAVVERLNKIQLHSGSKLAYLHVTAEADWDDAPDMPEEEEARLMRTLRNAYQGTFICSGGYTRELGIEAVAQGDADLVSYGRLFISNPDLVMRIKLNAPLNKYNRKTFYTQDPVVGYTDYPFLQGNGSNGPLSRL

Source Source

Source organism organism	Solanum lycopersicum
Common name common_name	tomato
NCBI taxonomy ID ncbi_taxonomy_id	4081
Host organism host_organism	Escherichia coli

Entity 2 Entity 2 non-polymer

Description description	FLAVIN MONONUCLEOTIDE
Molecular weight formula_weight	456.3 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 3 Entity 3 non-polymer

Description description	1,4,5,6-TETRAHYDRONICOTINAMIDE ADENINE DINUCLEOTIDE PHOSPHATE
Molecular weight formula_weight	747.4 kDa
Source method src_method	syn
Copy count entity_count	2

Entity 4 Entity 4 water

Description description	water
Molecular weight formula_weight	18.0 kDa
Source method src_method	nat
Copy count entity_count	479

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Unit-cell length a length_a	49.322 Å
Unit-cell length b length_b	93.996 Å
Unit-cell length c length_c	89.275 Å
Unit-cell angle α angle_alpha	90.00 °
Unit-cell angle β angle_beta	97.60 °
Unit-cell angle γ angle_gamma	90.00 °
Molecules per unit cell Z z_pdb	4

Space group space_group	P 1 21 1
Space-group number int_tables_number	4
Crystal system crystal_system	monoclinic

Resolution resolution	2.250 Å
Low-resolution limit resolution_low	45.410 Å
R factor r_factor	0.1863
R_work r_work	0.1837
R_free r_free	0.2348

OPR3 loop swap variant L6(AchrOYE4) in complex with NADPH4

1. Protein Identity and Related Structures Protein Identity & Related Structures

12-oxophytodienoate reductase 3,Old yellow enzyme OYE4

State in the Current Structure

Other States of the Same Protein in the Database

12-oxophytodienoate reductase 3,Old yellow enzyme OYE4

State in the Current Structure

Other States of the Same Protein in the Database

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9fcn__assembly_1__model_1

9fcn__assembly_1__model_1 | I(q)

9fcn__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

7. Citations (1)

OPR3 loop swap variant L6(AchrOYE4) in complex with NADPH4

1. Protein Identity and Related Structures Protein Identity & Related Structures

12-oxophytodienoate reductase 3,Old yellow enzyme OYE4

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

12-oxophytodienoate reductase 3,Old yellow enzyme OYE4

State in the Current Structure

Other States of the Same Protein in the Database

Monomer

Homodimer

Homotetramer

Other homooligomers

Heteromeric or nucleic-acid complex

2. Structure Basics 2. Structure Basics

3. Official assembly/model SAXS Official SAXS Profiles

9fcn__assembly_1__model_1

9fcn__assembly_1__model_1 | I(q)

9fcn__assembly_1__model_1 | P(r) · Pending

4. Crystallography and Experiment 4. Crystallography & Experiment

Unit cell Unit Cell

Symmetry Symmetry

Refinement Refinement

Diffraction experiment Diffraction

5. Entities and Polymers Entities & Polymers (4)

Entity 1 Entity 1 polymer

Polymer Polymer

Source Source

Entity 2 Entity 2 non-polymer

Entity 3 Entity 3 non-polymer

Entity 4 Entity 4 water

7. Citations (1)