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Cyclohexanone dehydrogenase (CDH) from Alicycliphilus denitrificans K601 - wildtype
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 289 240 mM ammonium citrate tribasic
20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.22 44.48
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.699 α = 90 b = 90.699 β = 90 c = 278.239 γ = 90
Symmetry Space Group P 43 21 2
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 EIGER2 X 16M 2017-09-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04-1 1.6 Diamond I04-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) 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 1.86 90.7 98.8 0.131 1 15.1 5.08 97297
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 1.86 1.89 83.1 0.4 0.9
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 (All) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.86 86.233 96606 4719 98.16 0.172 0.1705 0.1704 0.2071 0.2071 RANDOM 25.086
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] 0.001 0.001 -0.001
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.644 r_dihedral_angle_4_deg 19.451 r_dihedral_angle_3_deg 11.806 r_dihedral_angle_1_deg 6.627 r_lrange_it 5.177 r_scangle_it 4.053 r_scbond_it 2.768 r_mcangle_it 2.382 r_mcbond_it 1.729 r_angle_refined_deg 1.427
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 29.644 r_dihedral_angle_4_deg 19.451 r_dihedral_angle_3_deg 11.806 r_dihedral_angle_1_deg 6.627 r_lrange_it 5.177 r_scangle_it 4.053 r_scbond_it 2.768 r_mcangle_it 2.382 r_mcbond_it 1.729 r_angle_refined_deg 1.427 r_nbtor_refined 0.313 r_symmetry_nbd_refined 0.266 r_nbd_refined 0.208 r_symmetry_xyhbond_nbd_refined 0.165 r_xyhbond_nbd_refined 0.139 r_chiral_restr 0.101 r_ncsr_local_group_1 0.065 r_gen_planes_refined 0.009 r_bond_refined_d 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8196 Nucleic Acid Atoms Solvent Atoms 910 Heterogen Atoms 127
Software Software Software Name Purpose REFMAC refinement PHASER phasing SHELXDE phasing Coot model building CRANK phasing PDB_EXTRACT data extraction