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Structure of broad spectrum racemase from Aeromonas hydrophila
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4BEU PDB ENTRY 4BEU
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7.5 pH 7.5
Crystal Properties Matthews coefficient Solvent content 1.64 25.05
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 56.666 α = 90 b = 81.85 β = 98.97 c = 78.286 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 100 CCD ADSC QUANTUM 315r 2011-09-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge 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 1.45 42.1 99.9 0.09 12.8 7.4 124710 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.45 1.53 99.6 0.83 2.5 7
Refinement Statistics Diffraction ID Structure Solution Method Starting model Resolution (High) Resolution (Low) Cut-off Sigma (F) 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) Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT PDB ENTRY 4BEU 1.45 42.122 1.35 124710 8964 99.92 0.1929 0.1917 0.1901 0.2079 0.2063 18.82
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] -1.955 -0.1897 6.3048 -4.3498
RMS Deviations Key Refinement Restraint Deviation f_dihedral_angle_d 11.799 f_angle_d 0.62 f_chiral_restr 0.038 f_bond_d 0.004 f_plane_restr 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6120 Nucleic Acid Atoms Solvent Atoms 931 Heterogen Atoms 96
Software Software Software Name Purpose PHENIX refinement XDS data reduction SCALA data scaling MOLREP phasing