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The Structure of a Putative 3-Dehydroquinate Dehydratase from Streptococcus pyogenes.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 291 0.1M HEPES pH 7.5, 0.2M MgCl2, 25% PEG 3350, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.65 53.57
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.688 α = 90 b = 81.688 β = 90 c = 85.364 γ = 90
Symmetry Space Group P 43 21 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 315 2005-12-21 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97906, 0.97924 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.85 36.5 96.05 0.065 9.1 18.8 23052 23052 -3 30.3
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 1.85 1.898 77.96
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 MAD THROUGHOUT 1.85 36.5 23052 23052 1216 96.05 0.17763 0.17763 0.17492 0.1725 0.23041 0.2238 RANDOM 46.837
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] -1.41 -1.41 2.82
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.623 r_dihedral_angle_4_deg 14.629 r_dihedral_angle_3_deg 14.323 r_dihedral_angle_1_deg 5.519 r_scangle_it 4.056 r_scbond_it 2.647 r_angle_refined_deg 1.343 r_mcangle_it 1.318 r_mcbond_it 1.018 r_nbtor_refined 0.312
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.623 r_dihedral_angle_4_deg 14.629 r_dihedral_angle_3_deg 14.323 r_dihedral_angle_1_deg 5.519 r_scangle_it 4.056 r_scbond_it 2.647 r_angle_refined_deg 1.343 r_mcangle_it 1.318 r_mcbond_it 1.018 r_nbtor_refined 0.312 r_nbd_refined 0.209 r_symmetry_vdw_refined 0.192 r_symmetry_hbond_refined 0.163 r_xyhbond_nbd_refined 0.154 r_chiral_restr 0.097 r_metal_ion_refined 0.058 r_bond_refined_d 0.015 r_gen_planes_refined 0.006 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 1761 Nucleic Acid Atoms Solvent Atoms 311 Heterogen Atoms 17
Software Software Software Name Purpose REFMAC refinement SBC-Collect data collection HKL-2000 data reduction HKL-2000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building MLPHARE phasing DM phasing SOLVE phasing RESOLVE phasing ARP/wARP model building CCP4 phasing O model building Coot model building