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Crystal structure of cytochrome P450 CYP121 R386L 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 7 278 2 M ammonium sulphate, pH 7, VAPOR DIFFUSION, SITTING DROP, temperature 278K
Crystal Properties Matthews coefficient Solvent content 2.64 53.47
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.438 α = 90 b = 77.438 β = 90 c = 264.275 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 270 2006-05-05 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) 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 1.08 20 100 0.087 174111 174111
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1N40 1.08 19.93 174111 174111 9199 100 0.14711 0.14711 0.14598 0.16855 0.1849 RANDOM 9.234
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] -0.02 -0.01 -0.02 0.04
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.517 r_dihedral_angle_4_deg 14.553 r_dihedral_angle_3_deg 11.635 r_dihedral_angle_1_deg 5.396 r_sphericity_free 4.585 r_scangle_it 2.879 r_sphericity_bonded 2.815 r_scbond_it 1.995 r_angle_other_deg 1.703 r_mcangle_it 1.595
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 28.517 r_dihedral_angle_4_deg 14.553 r_dihedral_angle_3_deg 11.635 r_dihedral_angle_1_deg 5.396 r_sphericity_free 4.585 r_scangle_it 2.879 r_sphericity_bonded 2.815 r_scbond_it 1.995 r_angle_other_deg 1.703 r_mcangle_it 1.595 r_angle_refined_deg 1.411 r_mcbond_it 1.108 r_rigid_bond_restr 0.968 r_mcbond_other 0.52 r_nbd_refined 0.231 r_symmetry_vdw_other 0.221 r_nbd_other 0.19 r_nbtor_refined 0.176 r_symmetry_vdw_refined 0.151 r_xyhbond_nbd_refined 0.136 r_symmetry_hbond_refined 0.117 r_nbtor_other 0.089 r_chiral_restr 0.085 r_bond_refined_d 0.01 r_gen_planes_refined 0.007 r_bond_other_d 0.004 r_gen_planes_other 0.002 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 2977 Nucleic Acid Atoms Solvent Atoms 897 Heterogen Atoms 58
Software Software Software Name Purpose REFMAC refinement ADSC data collection DENZO data reduction SCALEPACK data scaling REFMAC phasing