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2.75 Angstrom Crystal Structure of Galactarate Dehydratase from Escherichia coli.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 292 Protein: 7.6 mg/ml, 0.5 Sodium chloride, 0.01M Tris pH 8.3;
Screen: PACT (D11), 0.2M Calcium chloride, 0.1M Tris pH 8.0, 20% (w/v) PEG 6000.
Crystal Properties Matthews coefficient Solvent content 2.8 56.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 58.462 α = 90 b = 167.574 β = 103.97 c = 117.065 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 MARMOSAIC 300 mm CCD C(111) 2017-11-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.9786 APS 21-ID-G
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.75 30 99.2 0.1 0.1 0.109 0.044 16.7 6.1 56199 -3 59.2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.75 2.8 100 0.793 0.793 0.867 0.349 0.779 2.2 6.2
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 2.75 29.23 53337 2734 98.79 0.2082 0.2065 0.2081 0.2409 0.2424 RANDOM 72.094
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] 3.51 -1.47 -7.34 4.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 18.806 r_dihedral_angle_4_deg 8.64 r_dihedral_angle_3_deg 7.565 r_dihedral_angle_1_deg 1.745 r_angle_refined_deg 1.198 r_angle_other_deg 0.321 r_chiral_restr 0.053 r_gen_planes_refined 0.053 r_gen_planes_other 0.049 r_bond_refined_d 0.004
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 18.806 r_dihedral_angle_4_deg 8.64 r_dihedral_angle_3_deg 7.565 r_dihedral_angle_1_deg 1.745 r_angle_refined_deg 1.198 r_angle_other_deg 0.321 r_chiral_restr 0.053 r_gen_planes_refined 0.053 r_gen_planes_other 0.049 r_bond_refined_d 0.004 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 13852 Nucleic Acid Atoms Solvent Atoms 150 Heterogen Atoms 16
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-3000 data reduction HKL-3000 data scaling PHENIX phasing