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Crystal structure of the Shikimate 5-Dehydrogenase (aroE) from Helicobacter pylori
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 293 0.2M magnesium chloride, 35% PEG 3350, 0.1M Tris-HCl, pH 7.5, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 45.328 α = 90 b = 46.181 β = 99.04 c = 118.702 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 2 x-ray 110 CCD ADSC QUANTUM 315r 2009-01-17 M SINGLE WAVELENGTH 2 1 x-ray 100 CCD ADSC QUANTUM 210r 2008-07-02 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON NSRRC BEAMLINE BL13B1 1.0000 NSRRC BL13B1 2 SYNCHROTRON SPRING-8 BEAMLINE BL12B2 0.978998 SPring-8 BL12B2
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 1.57 30 99.5 0.064 0.064 19.8 3.8 66787 1 1
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 1.57 1.63 90.1 0.448 0.448 2.39 3.1 6065
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 (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 1.57 23.56 66787 63407 3377 98.29 0.20162 0.19958 0.1983 0.23967 0.2393 RANDOM 18.956
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] 1.91 -0.07 -0.87 -1.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.6 r_dihedral_angle_3_deg 15.506 r_dihedral_angle_4_deg 11.376 r_dihedral_angle_1_deg 5.271 r_scangle_it 4.786 r_scbond_it 3.023 r_mcangle_it 1.915 r_angle_refined_deg 1.602 r_mcbond_it 1.054 r_chiral_restr 0.11
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.6 r_dihedral_angle_3_deg 15.506 r_dihedral_angle_4_deg 11.376 r_dihedral_angle_1_deg 5.271 r_scangle_it 4.786 r_scbond_it 3.023 r_mcangle_it 1.915 r_angle_refined_deg 1.602 r_mcbond_it 1.054 r_chiral_restr 0.11 r_bond_refined_d 0.014 r_gen_planes_refined 0.008
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4019 Nucleic Acid Atoms Solvent Atoms 355 Heterogen Atoms
Software Software Software Name Purpose HKL-2000 data collection AMoRE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling