☰ Navigation Tabs
Crystal structure of the Ru(bpy)2PhenA functionalized P450 BM3 L407C heme domain mutant in complex with N-palmitoylglycine
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3NPL
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 2.51 51.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 59.88 α = 90 b = 112.54 β = 90 c = 156.36 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 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 1.9 47.54 99.2 0.129 0.997 10.47 5 83423 -3 31.496
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 1.9 2 99.5 1.104 1.4
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 3NPL 2 47.54 68037 3581 99.13 0.1764 0.1742 0.183 0.2181 0.2261 RANDOM 29.25
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] -0.99 1.07 -0.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.891 r_dihedral_angle_4_deg 15.433 r_dihedral_angle_3_deg 14.034 r_dihedral_angle_1_deg 6.633 r_mcangle_it 3.352 r_mcbond_it 2.231 r_mcbond_other 2.229 r_angle_refined_deg 1.817 r_angle_other_deg 1.039 r_chiral_restr 0.113
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.891 r_dihedral_angle_4_deg 15.433 r_dihedral_angle_3_deg 14.034 r_dihedral_angle_1_deg 6.633 r_mcangle_it 3.352 r_mcbond_it 2.231 r_mcbond_other 2.229 r_angle_refined_deg 1.817 r_angle_other_deg 1.039 r_chiral_restr 0.113 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_gen_planes_other 0.006 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7367 Nucleic Acid Atoms Solvent Atoms 491 Heterogen Atoms 216
Software Software Software Name Purpose REFMAC refinement XSCALE data scaling PHASER phasing PDB_EXTRACT data extraction XDS data reduction