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Crystal structure of dihydrodipicolinate synthase from Bacillus anthracis in complex with its substrate, pyruvate
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop vapor diffusion, crystal soak 8 277 20% PEG 3350, 0.1 M bis-tris propane, 0.2 M NaF, pH 8.0, hanging drop vapor diffusion, crystal soak, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.75 55.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 84.484 α = 90 b = 124.617 β = 90 c = 130.979 γ = 90
Symmetry Space Group P 21 21 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 110 CCD ADSC QUANTUM 210r 2008-08-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON AUSTRALIAN SYNCHROTRON BEAMLINE MX1 0.9536439 Australian Synchrotron MX1
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 2.15 37.27 100 75883 75883 2 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 2.15 2.27 100
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 MOLECULAR REPLACEMENT THROUGHOUT 2.15 37.27 75883 72739 3066 100 0.15507 0.15258 0.1534 0.20997 0.2099 RANDOM 19.182
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] -0.31 -1.9 2.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.441 r_dihedral_angle_4_deg 18.077 r_dihedral_angle_3_deg 14.528 r_dihedral_angle_1_deg 5.963 r_scangle_it 5.575 r_scbond_it 3.471 r_mcangle_it 1.97 r_angle_refined_deg 1.871 r_mcbond_it 1.1 r_nbtor_refined 0.297
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.441 r_dihedral_angle_4_deg 18.077 r_dihedral_angle_3_deg 14.528 r_dihedral_angle_1_deg 5.963 r_scangle_it 5.575 r_scbond_it 3.471 r_mcangle_it 1.97 r_angle_refined_deg 1.871 r_mcbond_it 1.1 r_nbtor_refined 0.297 r_nbd_refined 0.193 r_symmetry_vdw_refined 0.177 r_symmetry_hbond_refined 0.176 r_metal_ion_refined 0.156 r_chiral_restr 0.138 r_xyhbond_nbd_refined 0.132 r_bond_refined_d 0.024 r_gen_planes_refined 0.01 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 8776 Nucleic Acid Atoms Solvent Atoms 1153 Heterogen Atoms 28
Software Software Software Name Purpose MOSFLM data reduction PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection SCALA data scaling