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Atomic Resolution Structures of Escherichia coli and Bacillis anthracis Malate Synthase A: Comparison with Isoform G and Implications for Structure Based Drug Design
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model Other truncated E. coli malate synthase A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 298 0.1M Tris pH 7.5, 0.2M calcium acetate, 22%PEG 8K. Prior to collection crystal incubated in similar solution with magnesium acetate instead of calcium acetate, VAPOR DIFFUSION, HANGING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.27 45.81
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.077 α = 90 b = 73.888 β = 98.03 c = 71.739 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 315 2005-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ALS BEAMLINE 5.0.2 0.90 ALS 5.0.2
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.04 30 89.5 228574 2
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.04 1.08 50.9
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation 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) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT E. coli malate synthase A 1.04 25.61 2 216908 11644 89.25 0.15336 0.1527 0.1605 0.16593 0.1741 RANDOM 8.172
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] 0.01 -0.01
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.312 r_dihedral_angle_4_deg 13.268 r_dihedral_angle_3_deg 11.602 r_dihedral_angle_1_deg 5.463 r_sphericity_free 2.414 r_rigid_bond_restr 1.915 r_scangle_it 1.798 r_sphericity_bonded 1.626 r_scbond_it 1.303 r_angle_refined_deg 1.074
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.312 r_dihedral_angle_4_deg 13.268 r_dihedral_angle_3_deg 11.602 r_dihedral_angle_1_deg 5.463 r_sphericity_free 2.414 r_rigid_bond_restr 1.915 r_scangle_it 1.798 r_sphericity_bonded 1.626 r_scbond_it 1.303 r_angle_refined_deg 1.074 r_mcangle_it 0.901 r_angle_other_deg 0.868 r_mcbond_it 0.634 r_mcbond_other 0.248 r_symmetry_vdw_other 0.217 r_nbd_refined 0.206 r_nbd_other 0.186 r_nbtor_refined 0.177 r_symmetry_vdw_refined 0.116 r_nbtor_other 0.083 r_xyhbond_nbd_refined 0.083 r_symmetry_hbond_refined 0.065 r_chiral_restr 0.064 r_metal_ion_refined 0.023 r_bond_refined_d 0.006 r_gen_planes_refined 0.004 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4341 Nucleic Acid Atoms Solvent Atoms 637 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement ADSC data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing