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Crystal structure of the A264M heme domain of cytochrome P450 BM3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IJ3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6 293 Magnesiumsulphate and PEG, pH 6.0, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.86 57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.769 α = 90 b = 125.171 β = 90 c = 153.943 γ = 90
Symmetry Space Group P 21 21 21
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 2006-01-01 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 1.0 ESRF ID14-1
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 2.5 20 99.37 0.062 16.2 40923 40923
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 Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2IJ3 2.5 20 40923 40923 2179 99.37 0.21853 0.21853 0.21673 0.2207 0.25197 RANDOM 29.123
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] 0.41 0.85 -1.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.782 r_dihedral_angle_3_deg 17.112 r_dihedral_angle_4_deg 16.441 r_dihedral_angle_1_deg 6.657 r_scangle_it 2.95 r_scbond_it 2.054 r_angle_refined_deg 2.002 r_mcangle_it 1.308 r_angle_other_deg 1.265 r_mcbond_it 1.054
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.782 r_dihedral_angle_3_deg 17.112 r_dihedral_angle_4_deg 16.441 r_dihedral_angle_1_deg 6.657 r_scangle_it 2.95 r_scbond_it 2.054 r_angle_refined_deg 2.002 r_mcangle_it 1.308 r_angle_other_deg 1.265 r_mcbond_it 1.054 r_nbd_refined 0.213 r_symmetry_vdw_other 0.213 r_nbd_other 0.184 r_nbtor_refined 0.165 r_mcbond_other 0.158 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.105 r_nbtor_other 0.082 r_symmetry_vdw_refined 0.078 r_symmetry_hbond_refined 0.037 r_bond_refined_d 0.026 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 7247 Nucleic Acid Atoms Solvent Atoms 172 Heterogen Atoms 104
Software Software Software Name Purpose ADSC data collection REFMAC refinement MOSFLM data reduction SCALA data scaling