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2.20 Angstrom resolution structure of 3-phosphoshikimate 1-carboxyvinyltransferase (AroA) from Coxiella burnetii
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1RF5
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4 295 7.5 mg/ml, 0.5 M NaCl, 0.01 Tris, JCSG+, B1 0.8 M Ammonium Sulfate, 0.1 M tri-Sodium Citrate, pH 4.0, VAPOR DIFFUSION, SITTING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.11 41.69
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.164 α = 90 b = 116.408 β = 90 c = 160.749 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 100 CCD MARMOSAIC 225 mm CCD Beryllium lens 2011-02-17 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 21-ID-F 0.97872 APS 21-ID-F
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 2.2 30 100 0.07 51 6.9 40980 40980 -3 49.4
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 1RF5 2.2 29.1 38869 38869 2034 99.58 0.19323 0.19323 0.19054 0.1989 0.24308 0.2489 RANDOM 48.292
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] -0.42 0.67 -0.25
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.274 r_dihedral_angle_3_deg 10.97 r_dihedral_angle_4_deg 10.166 r_scangle_it 4.638 r_scbond_it 2.872 r_dihedral_angle_1_deg 2.728 r_mcangle_it 1.743 r_angle_refined_deg 1.372 r_mcbond_it 0.952 r_angle_other_deg 0.846
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 26.274 r_dihedral_angle_3_deg 10.97 r_dihedral_angle_4_deg 10.166 r_scangle_it 4.638 r_scbond_it 2.872 r_dihedral_angle_1_deg 2.728 r_mcangle_it 1.743 r_angle_refined_deg 1.372 r_mcbond_it 0.952 r_angle_other_deg 0.846 r_mcbond_other 0.253 r_chiral_restr 0.084 r_bond_refined_d 0.011 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6400 Nucleic Acid Atoms Solvent Atoms 198 Heterogen Atoms 84
Software Software Software Name Purpose Blu-Ice data collection BALBES phasing REFMAC refinement HKL-3000 data reduction HKL-3000 data scaling