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2.6 Angstrom Crystal Structure of UDP-N-acetylglucosamine 1-carboxyvinyltransferase 1 (MurA1) from Bacillus anthracis
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1EJD
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 295 Protein solution: 7.7 mg/mL, 0.25M Sodium chloride, 0.01M Tris-HCl (pH 8.3), Screen solution: PEG's II, condition D10, 0.2M Sodium acetate, 0.1M Tris (pH 8.5), 30% (w/v) PEG 4000, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 1.9 35.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.666 α = 90 b = 125.217 β = 105.73 c = 79.472 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 MARMOSAIC 300 mm CCD Beryllium lenses 2009-07-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-G 0.97856 APS 21-ID-G
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 2.6 30 100 0.103 12.6 3.8 45804 45804 -3 45.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.6 2.64 100 0.509 2.7 3.8 2277
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 1EJD 2.6 29.88 43242 43242 2299 99.96 0.1836 0.1836 0.1798 0.1852 0.25472 0.2548 RANDOM 32.778
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] 0.7 0.45 -0.02 -0.44
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.47 r_dihedral_angle_4_deg 9.342 r_dihedral_angle_3_deg 8.892 r_scangle_it 5.506 r_scbond_it 3.296 r_mcangle_it 1.937 r_dihedral_angle_1_deg 1.612 r_angle_refined_deg 1.27 r_mcbond_it 1.02 r_angle_other_deg 0.772
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 22.47 r_dihedral_angle_4_deg 9.342 r_dihedral_angle_3_deg 8.892 r_scangle_it 5.506 r_scbond_it 3.296 r_mcangle_it 1.937 r_dihedral_angle_1_deg 1.612 r_angle_refined_deg 1.27 r_mcbond_it 1.02 r_angle_other_deg 0.772 r_mcbond_other 0.312 r_chiral_restr 0.073 r_bond_refined_d 0.007 r_gen_planes_refined 0.003 r_bond_other_d 0.001 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12624 Nucleic Acid Atoms Solvent Atoms 494 Heterogen Atoms 23
Software Software Software Name Purpose Blu-Ice data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling