3R9C

Crystal structure of Mycobacterium smegmatis CYP164A2 with Econazole bound


X-RAY DIFFRACTION

Starting Model(s)

Initial Refinement Model(s)
TypeSourceAccession CodeDetails
experimental modelPDB 3R9B 

Crystallization

Crystalization Experiments
IDMethodpHTemperatureDetails
1VAPOR DIFFUSION, SITTING DROP7.42910.1 M Potassium thiocyanate, 30% w/v PEG 2000MME, pH 7.4, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties
Matthews coefficientSolvent content
2.2344.75

Crystal Data

Unit Cell
Length ( Å )Angle ( ˚ )
a = 38.79α = 90
b = 85.79β = 90
c = 121.91γ = 90
Symmetry
Space GroupP 2 21 21

Diffraction

Diffraction Experiment
ID #Crystal IDScattering TypeData Collection TemperatureDetectorDetector TypeDetailsCollection DateMonochromatorProtocol
11x-ray100CCDADSC QUANTUM 315r2011-01-16MSINGLE WAVELENGTH
Radiation Source
ID #SourceTypeWavelength ListSynchrotron SiteBeamline
1SYNCHROTRONDIAMOND BEAMLINE I030.9793DiamondI03

Data Collection

Overall
ID #Resolution (High)Resolution (Low)Percent Possible (Observed)R Sym 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
12.1470.1697.10.10917.711.7225382253822
Highest Resolution Shell
ID #Resolution (High)Resolution (Low)Percent Possible (All)Percent Possible (Observed)R Merge I (Observed)R-Sym I (Observed)Rrim I (All)Rpim I (All)Mean I Over Sigma (Observed)RedundancyNumber Unique Reflections (All)
12.142.2692.10.5010.5010.5220.1431.511.73041

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-WorkR-FreeR-Free Selection DetailsMean Isotropic B
X-RAY DIFFRACTIONMOLECULAR REPLACEMENTTHROUGHOUT3R9B2.1470.1622446115496.630.2020.20030.2323RANDOM25.7285
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]
-0.37-0.831.2
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.954
r_dihedral_angle_4_deg15.591
r_dihedral_angle_3_deg13.621
r_dihedral_angle_1_deg4.256
r_scangle_it1.109
r_angle_refined_deg0.931
r_scbond_it0.634
r_mcangle_it0.377
r_mcbond_it0.194
r_chiral_restr0.058
RMS Deviations
KeyRefinement Restraint Deviation
r_dihedral_angle_2_deg29.954
r_dihedral_angle_4_deg15.591
r_dihedral_angle_3_deg13.621
r_dihedral_angle_1_deg4.256
r_scangle_it1.109
r_angle_refined_deg0.931
r_scbond_it0.634
r_mcangle_it0.377
r_mcbond_it0.194
r_chiral_restr0.058
r_bond_refined_d0.006
r_gen_planes_refined0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen AtomsNumber
Protein Atoms3055
Nucleic Acid Atoms
Solvent Atoms115
Heterogen Atoms116

Software

Software
Software NamePurpose
SCALAdata scaling
PHASERphasing
REFMACrefinement
PDB_EXTRACTdata extraction
GDAdata collection
MOSFLMdata reduction