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Crystal structure of a monomeric dehydratase domain from a trans AT polyketide synthase split module
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3KG8
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 291 0.02 M sodium/potassium phosphate, 0.1 M Bis-Tris propane, 20% PEG 3350
Crystal Properties Matthews coefficient Solvent content 2.56 52.01
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 38.03 α = 89.99 b = 63.82 β = 89.82 c = 66.99 γ = 79.23
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS 6M 2012-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON DIAMOND BEAMLINE I04 0.9919 Diamond I04
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 1.87 66.98 95 0.058 0.068 0.035 13.9 3.8 48286 48286
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rpim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.87 1.98 91 0.253 0.253 0.148 2.9 3.8 6758
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 3KG8 1.874 37.39 46387 2481 96.17 0.2256 0.2244 0.2291 0.2476 0.2518 RANDOM 27.234
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 -0.26 0.31 0.23 0.05 -1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.43 r_dihedral_angle_3_deg 16.83 r_dihedral_angle_4_deg 15.325 r_dihedral_angle_1_deg 6.679 r_angle_refined_deg 1.997 r_angle_other_deg 1.034 r_chiral_restr 0.14 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.003
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.43 r_dihedral_angle_3_deg 16.83 r_dihedral_angle_4_deg 15.325 r_dihedral_angle_1_deg 6.679 r_angle_refined_deg 1.997 r_angle_other_deg 1.034 r_chiral_restr 0.14 r_bond_refined_d 0.019 r_gen_planes_refined 0.01 r_bond_other_d 0.003 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4270 Nucleic Acid Atoms Solvent Atoms 112 Heterogen Atoms
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction