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Crystal structure of the Ru(bpy)2PhenA functionalized P450 BM3 L407C heme domain mutant in complex with DMSO.
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1JPZ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 150 mM MgCl2, 125 mM Na-MOPS, 20% PEG 3350,
cryo: 30% glycerol
Crystal Properties Matthews coefficient Solvent content 2.54 51.61
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.69 α = 90 b = 145.39 β = 97.08 c = 62.9 γ = 90
Symmetry Space Group P 1 21 1
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2015-12-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SLS BEAMLINE X10SA 1.0 SLS X10SA
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.4 47.36 79.5 0.044 0.998 9.61 3.2 183724 -3 24.898
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.4 1.5 48.1 0.829 0.96
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 MOLECULAR REPLACEMENT THROUGHOUT 1JPZ 1.5 47.36 153091 8058 96.75 0.1745 0.1733 0.173 0.1977 0.1972 RANDOM 22.68
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] -0.9 -0.26 -0.65 1.57
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.78 r_dihedral_angle_4_deg 14.865 r_dihedral_angle_3_deg 11.79 r_dihedral_angle_1_deg 6.074 r_mcangle_it 2.117 r_angle_refined_deg 1.561 r_mcbond_it 1.361 r_mcbond_other 1.36 r_angle_other_deg 0.961 r_chiral_restr 0.091
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.78 r_dihedral_angle_4_deg 14.865 r_dihedral_angle_3_deg 11.79 r_dihedral_angle_1_deg 6.074 r_mcangle_it 2.117 r_angle_refined_deg 1.561 r_mcbond_it 1.361 r_mcbond_other 1.36 r_angle_other_deg 0.961 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.008 r_gen_planes_other 0.006 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7368 Nucleic Acid Atoms Solvent Atoms 699 Heterogen Atoms 188
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PHASER phasing PDB_EXTRACT data extraction XDS data reduction