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Crystal structure of E112Q/H136A double mutant of 3-keto-L-gulonate 6-phosphate decarboxylase with bound L-threonohydroxamate 4-phosphate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 7 293 16% PEG 5000, methyl ether, 100 mM BTP pH 7.0, 5 mM MgCl2, Microbatch, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.21 44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 122.769 α = 90 b = 41.807 β = 97.22 c = 90.944 γ = 90
Symmetry Space Group C 1 2 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 CUSTOM-MADE 2003-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.961 APS 19-ID
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 1.902 91.29 95.1 0.064 14 34631 34631
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.902 1.97 96.2 3.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.902 91.29 34631 32895 1736 95.03 0.16046 0.16046 0.15793 0.1685 0.20798 0.215 RANDOM 15.365
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] -1.75 0.02 2.68 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.72 r_scangle_it 3.778 r_scbond_it 2.39 r_angle_refined_deg 1.518 r_mcangle_it 1.429 r_angle_other_deg 0.84 r_mcbond_it 0.789 r_nbd_refined 0.289 r_symmetry_vdw_other 0.265 r_nbd_other 0.251
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.72 r_scangle_it 3.778 r_scbond_it 2.39 r_angle_refined_deg 1.518 r_mcangle_it 1.429 r_angle_other_deg 0.84 r_mcbond_it 0.789 r_nbd_refined 0.289 r_symmetry_vdw_other 0.265 r_nbd_other 0.251 r_symmetry_hbond_refined 0.229 r_xyhbond_nbd_refined 0.189 r_symmetry_vdw_refined 0.151 r_chiral_restr 0.094 r_nbtor_other 0.085 r_bond_refined_d 0.016 r_metal_ion_refined 0.013 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_nbtor_refined r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_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 3267 Nucleic Acid Atoms Solvent Atoms 438 Heterogen Atoms 30
Software Software Software Name Purpose HKL-2000 data collection SCALEPACK data scaling MOLREP phasing REFMAC refinement HKL-2000 data reduction