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Thermocrispum municipale cyclohexanone monooxygenase bound to hexanoic acid
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5M10
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 293 100 mM Tris-HCl, 30 % PEG 4000
Crystal Properties Matthews coefficient Solvent content 2.02 39.14
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.069 α = 90 b = 93.69 β = 90 c = 159.639 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 PILATUS3 S 6M 2017-07-09 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID30B 0.97625 ESRF ID30B
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 2 44.4 99.7 0.148 0.993 6.7 4.2 65972
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.05 99.6 0.8 0.65 1.7 4.2
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 5M10 2 44.4 62601 3307 98.74 0.14178 0.13878 0.1508 0.19946 0.2077 RANDOM 23.505
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] 0.27 -0.46 0.18
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.843 r_sphericity_free 34.347 r_dihedral_angle_4_deg 16.838 r_dihedral_angle_3_deg 14.687 r_sphericity_bonded 13.017 r_dihedral_angle_1_deg 6.72 r_long_range_B_refined 5.738 r_long_range_B_other 5.602 r_scangle_other 5.517 r_rigid_bond_restr 5.374
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.843 r_sphericity_free 34.347 r_dihedral_angle_4_deg 16.838 r_dihedral_angle_3_deg 14.687 r_sphericity_bonded 13.017 r_dihedral_angle_1_deg 6.72 r_long_range_B_refined 5.738 r_long_range_B_other 5.602 r_scangle_other 5.517 r_rigid_bond_restr 5.374 r_scbond_it 4.778 r_scbond_other 4.778 r_mcangle_it 4.549 r_mcangle_other 4.548 r_mcbond_it 3.858 r_mcbond_other 3.839 r_angle_refined_deg 2.197 r_angle_other_deg 1.189 r_chiral_restr 0.131 r_bond_refined_d 0.024 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8288 Nucleic Acid Atoms Solvent Atoms 800 Heterogen Atoms 230
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling MOLREP phasing