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Crystal structure of the cytochrome P450 CYP121 P346L mutant from M. 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 7 297 2 M ammonium sulphate, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 297K
Crystal Properties Matthews coefficient Solvent content 2.67 53.87
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.714 α = 90 b = 77.714 β = 90 c = 265.046 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 2007-10-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-2 0.96 ESRF ID14-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.45 20 100 0.057 78019 78019
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 (All) 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 1.45 25.4 78019 78019 4114 100 0.15408 0.15408 0.15241 0.1531 0.18598 0.1847 RANDOM 16.583
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] -0.04 -0.02 -0.04 0.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.574 r_dihedral_angle_4_deg 15.365 r_dihedral_angle_3_deg 12.199 r_sphericity_free 5.464 r_dihedral_angle_1_deg 5.193 r_scangle_it 3.133 r_sphericity_bonded 2.719 r_scbond_it 2.203 r_angle_other_deg 1.868 r_mcangle_it 1.593
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.574 r_dihedral_angle_4_deg 15.365 r_dihedral_angle_3_deg 12.199 r_sphericity_free 5.464 r_dihedral_angle_1_deg 5.193 r_scangle_it 3.133 r_sphericity_bonded 2.719 r_scbond_it 2.203 r_angle_other_deg 1.868 r_mcangle_it 1.593 r_angle_refined_deg 1.391 r_mcbond_it 1.172 r_rigid_bond_restr 1.149 r_mcbond_other 0.523 r_symmetry_vdw_refined 0.428 r_symmetry_vdw_other 0.247 r_symmetry_hbond_refined 0.245 r_nbd_refined 0.224 r_nbd_other 0.187 r_nbtor_refined 0.176 r_xyhbond_nbd_refined 0.174 r_nbtor_other 0.085 r_chiral_restr 0.081 r_bond_refined_d 0.011 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3067 Nucleic Acid Atoms Solvent Atoms 726 Heterogen Atoms 71
Software Software Software Name Purpose REFMAC refinement ADSC data collection DENZO data reduction SCALEPACK data scaling REFMAC phasing