5kwf

Joint X-ray Neutron Structure of Cholesterol Oxidase

Dmax: 73.9 Å Quality: GOOD

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

Cholesterol oxidase

Streptomyces sp. (strain SA-COO)

UniProt P12676

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein monomer Monomer Protein × 1 PDB declaration: monomeric(1) Consistent with protein copy count Chain A; UniProt 43–546 Not recorded FAD FLAVIN-ADENINE DINUCLEOTIDE × 1 Experimental method not declared X-ray crystallization conditions:VAPOR DIFFUSION;293 K;7% PEG 8000, 100mM MnSO4, 100mM cacodylic acid pH 5.2 Resolution not provided

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

22 other PDB entries and 22 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name CHOD_STRS0
Isoform
PDB entities 1
Chains and sequence ranges Author chain A; PDBConstruct 1–504; UniProt 43–546

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.

SAXS scattering curve SAXS Profile

SAXS profile for 5kwf

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 5kwf
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2. Structure Basics 2. Structure Basics

Entry ID entry_id5kwf
Deposition date deposition_date2016-07-18
Structure title titleJoint X-ray Neutron Structure of Cholesterol Oxidase
Keywords keywordsoxidoreductase, ISOMERASE; OXIDOREDUCTASE, ISOMERASE

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier22.96
Radius of gyration Rg (electron density) rg_electron21.95
Forward intensity I(0) i056674300.00
Molecular weight molecular_weight56939.0 kDa
Excluded volume excluded_volume70278 ų
Envelope volume envelope_volume79970 ų
Hydration-shell volume shell_volume29123 ų
Envelope diameter envelope_diameter79.9
Shell Rg shell_rg30.01
Envelope Rg envelope_rg22.27
Shape Rg shape_rg21.92
Total Rg total_rg22.89
Total atoms total_atoms7907
Residues n_residues499
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax73.9
Rg (real space) rg_real22.83
Rg uncertainty (real space) rg_real_error0.43
I(0) (real space) i0_real5.6670e+07
I(0) uncertainty (real space) i0_real_error7.0840e+05
Rg (reciprocal space) rg_reciprocal22.86
I(0) (reciprocal space) i0_reciprocal56680000.0000
Solution quality estimate total_estimate0.8075
Solution quality rating solution_quality GOOD a GOOD solution
P(r) peaks n_peaks2
Primary peak position r_peak_primary64.8
Skewness Skewness skewness0.209
Kurtosis Kurtosis kurtosis-0.330
Angular range angular_range— – 0.3450 −1
Current regularization parameter α current_alpha0.0000
Highest regularization parameter α highest_alpha15600000.0000
Real-space data points n_real_points66
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.834; Stabil: 0.999; Sysdev: 1.000; Positv: 1.000; Valcen: 0.992; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (3)

7. Fold Classification (SCOP + CATH) 2 domains

CATH v4.4 (2 domains)

Domain ID domain_id5kwfA01
Class class3 — Alpha Beta
Architecture architecture50 — 3-Layer(bba) Sandwich
Topology topology50 — FAD/NAD(P)-binding domain
Homologous superfamily homologous superfamily60 — FAD/NAD(P)-binding domain
Domain ID domain_id5kwfA02
Class class3 — Alpha Beta
Architecture architecture30 — 2-Layer Sandwich
Topology topology410 — Cholesterol Oxidase; domain 2
Homologous superfamily homologous superfamily10 — Cholesterol Oxidase; domain 2

8. Citations (1)

9. Files and Curves (10)