2JE2

Cytochrome P460 from Nitrosomonas europaea - probable nonphysiological oxidized form


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelOtherINITIAL MODEL FROM SULPHUR SAD STRUCTURE

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
15.2pH 5.20
Crystal Properties
Matthews coefficientSolvent content
2.651.1

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 53.256α = 90
b = 53.256β = 90
c = 127.033γ = 120
Symmetry
Space GroupP 31 2 1

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100IMAGE PLATERIGAKU IMAGE PLATEVARIMAX CONFOCAL MAXFLUX2005-05-05MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1ROTATING ANODERIGAKU MICROMAX-007

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Merge I (Observed)Net I Over Average Sigma (I)RedundancyNumber Reflections (All)Number Reflections (Observed)Observed Criterion Sigma (F)Observed Criterion Sigma (I)B (Isotropic) From Wilson Plot
11.694380.90.0417.72.917631225.3
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
11.691.7513.50.12.81.1

Refinement

Statistics
Diffraction IDStructure Solution MethodCross Validation methodStarting modelResolution (High)Resolution (Low)Number Reflections (Observed)Number Reflections (R-Free)Percent Reflections (Observed)R-Factor (Observed)R-Work (Depositor)R-Work (DCC)R-Free (Depositor)R-Free (DCC)R-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUTINITIAL MODEL FROM SULPHUR SAD STRUCTURE1.843.361763195292.50.1990.1970.190.2370.23RANDOM26.3
Temperature Factor Modeling
Anisotropic B[1][1]Anisotropic B[1][2]Anisotropic B[1][3]Anisotropic B[2][2]Anisotropic B[2][3]Anisotropic B[3][3]
0.010.01-0.01
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg37.586
r_dihedral_angle_4_deg21.394
r_dihedral_angle_3_deg14.826
r_dihedral_angle_1_deg8.107
r_scangle_it3.398
r_scbond_it2.283
r_mcangle_it1.756
r_angle_refined_deg1.641
r_mcbond_it1.023
r_nbtor_refined0.304
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms1223
Nucleic Acid Atoms
Solvent Atoms132
Heterogen Atoms58

Software

Software
Software NamePurpose
REFMACrefinement
HKL-2000data reduction
SCALEPACKdata scaling