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Crystal Structure of the acyltransferase domain from the third module of the ansamitocin polyketide synthase
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2HG4
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 6 293 0.2M K2HPO4 (pH 6) , 7% PEG 3350 (W/V)
Crystal Properties Matthews coefficient Solvent content 2.67 53.85
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 214.299 α = 90 b = 100.778 β = 113.13 c = 103.267 γ = 90
Symmetry Space Group C 1 2 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 225 mm CCD 2018-04-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL18U1 0.9792 SSRF BL18U1
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 1.77 98.54 97.37 0.1 3 3.1 186560
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 1.77 98.54 0.1
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 2HG4 1.77 98.54 186560 9904 99.64 0.1899 0.1885 0.2017 0.2161 0.2257 RANDOM 20.072
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] -0.56 -0.36 2.12 -0.92
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.455 r_dihedral_angle_4_deg 18.662 r_dihedral_angle_3_deg 13.073 r_dihedral_angle_1_deg 6.356 r_angle_refined_deg 1.176 r_angle_other_deg 0.684 r_chiral_restr 0.086 r_gen_planes_refined 0.015 r_bond_refined_d 0.013 r_gen_planes_other 0.002
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.455 r_dihedral_angle_4_deg 18.662 r_dihedral_angle_3_deg 13.073 r_dihedral_angle_1_deg 6.356 r_angle_refined_deg 1.176 r_angle_other_deg 0.684 r_chiral_restr 0.086 r_gen_planes_refined 0.015 r_bond_refined_d 0.013 r_gen_planes_other 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 12426 Nucleic Acid Atoms Solvent Atoms 1218 Heterogen Atoms 86
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling PHASER phasing