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Structure of CYP2B6 (Y226H/K262R) with additional mutation Y244W in complex with alpha-Pinene
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4I91 PDB entry 4I91
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 0.1 M HEPES sodium, pH 7.5, 20% w/v Polyethylene glycol 10,000
Crystal Properties Matthews coefficient Solvent content 3.22 62
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 77.24 α = 90 b = 77.24 β = 90 c = 204.25 γ = 120
Symmetry Space Group P 32 2 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 PSI PILATUS 6M 2015-04-12 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.98 SSRL BL12-2
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 2.24 68.08 97 0.113 7.9 4.8 33577
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.24 2.37 88.4 3.1 4.6
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 PDB entry 4I91 2.24 68.08 31737 1699 96.34 0.17215 0.16904 0.1901 0.23218 0.2287 RANDOM 38.051
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] 1.67 0.84 1.67 -2.51
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.784 r_dihedral_angle_4_deg 21.655 r_dihedral_angle_3_deg 14.611 r_dihedral_angle_1_deg 6.349 r_scangle_it 5.717 r_scbond_it 3.534 r_mcangle_it 2.113 r_angle_refined_deg 1.992 r_mcbond_it 1.131 r_chiral_restr 0.124
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.784 r_dihedral_angle_4_deg 21.655 r_dihedral_angle_3_deg 14.611 r_dihedral_angle_1_deg 6.349 r_scangle_it 5.717 r_scbond_it 3.534 r_mcangle_it 2.113 r_angle_refined_deg 1.992 r_mcbond_it 1.131 r_chiral_restr 0.124 r_bond_refined_d 0.023 r_gen_planes_refined 0.011 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3736 Nucleic Acid Atoms Solvent Atoms 267 Heterogen Atoms 98
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling Coot model building