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Crystal Structure of PqqC Active Site Mutant Y175S,R179S in complex with a reaction intermediate
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1OTV PDB ENTRY 1OTV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 293 0.2M Sodium chloride, 0.1M Tris pH 8.5, 25% w/v Polyethylene glycol 3350, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.39 48.53
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.792 α = 90 b = 115.347 β = 90 c = 67.062 γ = 90
Symmetry Space Group I 2 2 2
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 ADSC QUANTUM 210 2008-05-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-1 0.934 ESRF ID14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 1.8 49.629 97.7 0.074 0.066 13.7 4.5 26201
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.8 1.9 95.4 0.688 0.585 1.8 3.6 3686
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 1OTV 1.8 49.629 26199 1315 97.32 0.19 0.189 0.2247 0.22 0.2311 RANDOM 44.854
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] 0.44 -0.79 0.35
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.786 r_dihedral_angle_3_deg 15.531 r_dihedral_angle_4_deg 13.573 r_dihedral_angle_1_deg 4.915 r_scangle_it 3.553 r_scbond_it 2.43 r_angle_refined_deg 1.573 r_mcangle_it 1.561 r_mcbond_it 1.125 r_nbtor_refined 0.309
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.786 r_dihedral_angle_3_deg 15.531 r_dihedral_angle_4_deg 13.573 r_dihedral_angle_1_deg 4.915 r_scangle_it 3.553 r_scbond_it 2.43 r_angle_refined_deg 1.573 r_mcangle_it 1.561 r_mcbond_it 1.125 r_nbtor_refined 0.309 r_nbd_refined 0.219 r_symmetry_vdw_refined 0.185 r_xyhbond_nbd_refined 0.162 r_symmetry_hbond_refined 0.151 r_chiral_restr 0.121 r_bond_refined_d 0.019 r_gen_planes_refined 0.007
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1927 Nucleic Acid Atoms Solvent Atoms 87 Heterogen Atoms 24
Software Software Software Name Purpose MOSFLM data reduction SCALA data scaling MOLREP phasing REFMAC refinement PDB_EXTRACT data extraction