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Directed evolutionary changes in Kemp Eliminase KE07 - Crystal 28 round 5
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5C7M
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.25 277 25 mM HEPES, pH 7.25, 0.1 M NaCl
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 97.35 α = 90 b = 97.35 β = 90 c = 156.171 γ = 120
Symmetry Space Group P 61 2 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 CCD ADSC QUANTUM 315r 2013-10-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.9537 Australian Synchrotron MX1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (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 1.65 42 100 0.13 0.13 0.999 15.4 18.8 52414
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 1.65 1.68 100 2 0.38 0.9 8.7
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 5C7M 1.65 43 50485 2666 99.98 0.17212 0.1716 0.1843 0.18152 0.1943 RANDOM 27.921
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] 0.39 0.19 0.39 -1.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.783 r_dihedral_angle_4_deg 15.907 r_dihedral_angle_3_deg 13.324 r_sphericity_bonded 12.708 r_sphericity_free 11.039 r_dihedral_angle_1_deg 5.898 r_long_range_B_refined 4.164 r_long_range_B_other 4.163 r_scangle_other 3.753 r_mcangle_other 2.98
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.783 r_dihedral_angle_4_deg 15.907 r_dihedral_angle_3_deg 13.324 r_sphericity_bonded 12.708 r_sphericity_free 11.039 r_dihedral_angle_1_deg 5.898 r_long_range_B_refined 4.164 r_long_range_B_other 4.163 r_scangle_other 3.753 r_mcangle_other 2.98 r_scbond_it 2.867 r_scbond_other 2.866 r_mcangle_it 2.817 r_rigid_bond_restr 2.663 r_mcbond_it 1.931 r_mcbond_other 1.83 r_angle_refined_deg 1.297 r_angle_other_deg 1.022 r_chiral_restr 0.074 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_gen_planes_other 0.004 r_bond_other_d 0.001 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 1952 Nucleic Acid Atoms Solvent Atoms 274 Heterogen Atoms 20
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling MOLREP phasing