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Crystal structure of cytochrome P450 CYP121 S237A mutant from Mycobacterium tuberculosis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1N40
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7 277 2M ammonium sulphate, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.67 53.98
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.83 α = 90 b = 77.83 β = 90 c = 264.672 γ = 120
Symmetry Space Group P 65 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD ADSC QUANTUM 210 2007-05-05 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-3 0.96 ESRF ID14-3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.9 67.42 99.8 36503 36503
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1N40 1.9 67.42 36503 36503 1959 99.82 0.20366 0.20212 0.2093 0.23249 0.2313 RANDOM 19.18
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] 0.67 0.34 0.67 -1.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.759 r_dihedral_angle_4_deg 15.828 r_dihedral_angle_3_deg 13.564 r_dihedral_angle_1_deg 5.567 r_scangle_it 2.943 r_scbond_it 1.885 r_angle_other_deg 1.509 r_angle_refined_deg 1.493 r_mcangle_it 1.263 r_mcbond_it 0.806
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.759 r_dihedral_angle_4_deg 15.828 r_dihedral_angle_3_deg 13.564 r_dihedral_angle_1_deg 5.567 r_scangle_it 2.943 r_scbond_it 1.885 r_angle_other_deg 1.509 r_angle_refined_deg 1.493 r_mcangle_it 1.263 r_mcbond_it 0.806 r_symmetry_vdw_other 0.225 r_nbd_refined 0.216 r_mcbond_other 0.199 r_nbd_other 0.188 r_nbtor_refined 0.172 r_xyhbond_nbd_refined 0.127 r_symmetry_vdw_refined 0.126 r_symmetry_hbond_refined 0.11 r_chiral_restr 0.088 r_nbtor_other 0.086 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2979 Nucleic Acid Atoms Solvent Atoms 197 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement ADSC data collection MOSFLM data reduction SCALEPACK data scaling REFMAC phasing