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Crystal structure of thiolase mutation (V77Q,N153Y,A286K) from Clostridium acetobutylicum
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4N45
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.2 295 PEG 3350, K-citrate, NaCl
Crystal Properties Matthews coefficient Solvent content 2.34 47.41
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 116.434 α = 90 b = 131.201 β = 110.3 c = 54.12 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 ADSC QUANTUM 210r 2011-10-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) 1.23985 PAL/PLS 7A (6B, 6C1)
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 2.3 50 99.5 0.166 34.3 3.9 34051
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 2.3 2.34 99.5 0.307 10.4 3.7
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 4N45 2.3 50 31912 1690 98.68 0.1538 0.1506 0.1621 0.2131 0.2178 RANDOM 33.147
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] 3.9 -0.34 -1.94 -1.34
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.784 r_dihedral_angle_4_deg 17.905 r_dihedral_angle_3_deg 15.96 r_dihedral_angle_1_deg 6.906 r_mcangle_it 3.518 r_mcbond_it 2.368 r_mcbond_other 2.367 r_angle_refined_deg 1.703 r_angle_other_deg 1.009 r_chiral_restr 0.102
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.784 r_dihedral_angle_4_deg 17.905 r_dihedral_angle_3_deg 15.96 r_dihedral_angle_1_deg 6.906 r_mcangle_it 3.518 r_mcbond_it 2.368 r_mcbond_other 2.367 r_angle_refined_deg 1.703 r_angle_other_deg 1.009 r_chiral_restr 0.102 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5804 Nucleic Acid Atoms Solvent Atoms 261 Heterogen Atoms 47
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing