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The structure of natural P450BM3-H derived from Bacillus megaterium for catalyzing the steroid DHEA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 293 0.2 M Magnesium chloride hexahydrate, 0.1 M HEPES pH 7.5, 25% w/v Polyethylene glycol 3,350
Crystal Properties Matthews coefficient Solvent content 2.58 52.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.914 α = 90 b = 145.713 β = 97.513 c = 63.233 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 293 PIXEL DECTRIS PILATUS3 6M 2024-05-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL12-2 0.97919 SSRL BL12-2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.52 72.82 97 0.996 11.2 4.6 156546
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.52 1.56 97 0.996
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 MAD THROUGHOUT 1.52 72.82 148647 7852 96.87 0.225 0.221 0.2213 0.227 0.2273 RANDOM 23.711
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] 0.17 -0.54 -0.99 0.93
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.086 r_dihedral_angle_1_deg 6.734 r_long_range_B_refined 6.615 r_long_range_B_other 6.53 r_dihedral_angle_2_deg 6.183 r_scangle_other 4.686 r_mcangle_it 3.407 r_mcangle_other 3.407 r_scbond_it 2.947 r_scbond_other 2.947
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_3_deg 15.086 r_dihedral_angle_1_deg 6.734 r_long_range_B_refined 6.615 r_long_range_B_other 6.53 r_dihedral_angle_2_deg 6.183 r_scangle_other 4.686 r_mcangle_it 3.407 r_mcangle_other 3.407 r_scbond_it 2.947 r_scbond_other 2.947 r_mcbond_it 2.281 r_mcbond_other 2.278 r_angle_refined_deg 1.558 r_angle_other_deg 0.507 r_chiral_restr 0.076 r_bond_refined_d 0.008 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.001 r_dihedral_angle_4_deg 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7378 Nucleic Acid Atoms Solvent Atoms 552 Heterogen Atoms
Software Software Software Name Purpose REFMAC refinement Aimless data scaling XDS data reduction PHASER phasing