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Crystal structure of acetohydroxy acid synthase Pf5 from Pseudomonas protegens
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1YBH PDB ENTRY 1YBH
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 10% (W/V) PEG 4000, 0.1 M MES/IMIDAZOLE PH 6.5, 0.3 M MGCL2, 0.3 M CACL2, 17% (V/V) GLYCEROL
Crystal Properties Matthews coefficient Solvent content 2.28 46
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.22 α = 90 b = 139.87 β = 97.87 c = 65.34 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 MARRESEARCH 2013-03-26 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 1.55 49.2 90.9 0.07 10 3.4 151815 2
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 1.55 1.58 81.6 0.58 2.3 3.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) 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 PDB ENTRY 1YBH 1.55 49.22 144040 7732 90.21 0.15227 0.1511 0.1511 0.1739 0.1681 RANDOM 17.199
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] -3.07 2.87 7.44 -4.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.366 r_dihedral_angle_4_deg 14.941 r_dihedral_angle_3_deg 13.353 r_dihedral_angle_1_deg 6.383 r_long_range_B_refined 3.116 r_long_range_B_other 2.974 r_angle_refined_deg 1.422 r_scangle_other 1.094 r_angle_other_deg 1.011 r_mcangle_it 0.929
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.366 r_dihedral_angle_4_deg 14.941 r_dihedral_angle_3_deg 13.353 r_dihedral_angle_1_deg 6.383 r_long_range_B_refined 3.116 r_long_range_B_other 2.974 r_angle_refined_deg 1.422 r_scangle_other 1.094 r_angle_other_deg 1.011 r_mcangle_it 0.929 r_mcangle_other 0.928 r_scbond_it 0.692 r_scbond_other 0.692 r_mcbond_it 0.551 r_mcbond_other 0.551 r_chiral_restr 0.084 r_bond_refined_d 0.01 r_gen_planes_refined 0.008 r_bond_other_d 0.004 r_gen_planes_other 0.003 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8530 Nucleic Acid Atoms Solvent Atoms 871 Heterogen Atoms 160
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction Aimless data scaling PHASER phasing