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Crystal structure of mandelate racemase/muconate lactonizing enzyme from Roseovarius nubinhibens ISM
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 294 0.1M HEPES pH 7.5, 30% PEG MME550, 10% Glycerol, 50mM Magnesium chloride, VAPOR DIFFUSION, SITTING DROP, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.41 48.91
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 169.415 α = 90 b = 169.219 β = 90 c = 223.476 γ = 90
Symmetry Space Group I 2 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 MAR CCD 165 mm MIRRORS 2007-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 31-ID 0.9796 APS 31-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 50 96.7 0.108 0.078 3.6 2.7 215416 -0.5 28.8
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2 2.07 96 0.66 0.76 0.6 2.4
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 SAD THROUGHOUT 2 20 204242 6351 97.9 0.196 0.194 0.1968 0.256 0.2547 RANDOM 28.48
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] -1.31 0.06 1.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.688 r_dihedral_angle_3_deg 17.148 r_dihedral_angle_4_deg 15.461 r_scangle_it 14.136 r_scbond_it 11.718 r_mcangle_it 7.532 r_mcbond_it 6.245 r_dihedral_angle_1_deg 5.593 r_angle_refined_deg 1.264 r_nbtor_refined 0.295
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.688 r_dihedral_angle_3_deg 17.148 r_dihedral_angle_4_deg 15.461 r_scangle_it 14.136 r_scbond_it 11.718 r_mcangle_it 7.532 r_mcbond_it 6.245 r_dihedral_angle_1_deg 5.593 r_angle_refined_deg 1.264 r_nbtor_refined 0.295 r_xyhbond_nbd_refined 0.163 r_nbd_refined 0.147 r_symmetry_hbond_refined 0.124 r_metal_ion_refined 0.119 r_symmetry_vdw_refined 0.111 r_chiral_restr 0.079 r_bond_refined_d 0.008 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 22587 Nucleic Acid Atoms Solvent Atoms 1025 Heterogen Atoms 50
Software Software Software Name Purpose SHELX model building REFMAC refinement MAR345 data collection HKL-2000 data reduction HKL-2000 data scaling SHELX phasing