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Crystal structure of (S)-3-hydroxybutyryl-CoA dehydrogenase PaaH1 in complex with acetoacetyl-CoA
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 295 2M (NH4)2SO4, 0.1M Cacodylate pH 6.5 and 0.2M Sodium Chloride, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.83 56.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 234.243 α = 90 b = 135.373 β = 90.09 c = 97.356 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 270 2013-09-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PAL/PLS BEAMLINE 7A (6B, 6C1) PAL/PLS 7A (6B, 6C1)
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 2.7 50 76529
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.7 2.8 94
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) 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 FOURIER SYNTHESIS THROUGHOUT 2.7 50 79295 71952 3770 90.7 0.213 0.21 0.2146 0.285 0.2858 RANDOM 72.05
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] 3.62 0.5 4.53 -8.15
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.719 r_dihedral_angle_3_deg 18.699 r_dihedral_angle_4_deg 16.258 r_long_range_B_refined 10.347 r_long_range_B_other 10.347 r_scangle_other 7.512 r_mcangle_it 6.767 r_mcangle_other 6.767 r_dihedral_angle_1_deg 6.749 r_scbond_it 4.928
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 41.719 r_dihedral_angle_3_deg 18.699 r_dihedral_angle_4_deg 16.258 r_long_range_B_refined 10.347 r_long_range_B_other 10.347 r_scangle_other 7.512 r_mcangle_it 6.767 r_mcangle_other 6.767 r_dihedral_angle_1_deg 6.749 r_scbond_it 4.928 r_scbond_other 4.927 r_mcbond_it 4.513 r_mcbond_other 4.513 r_angle_refined_deg 1.584 r_angle_other_deg 0.856 r_chiral_restr 0.085 r_bond_refined_d 0.011 r_gen_planes_refined 0.006 r_bond_other_d 0.001 r_gen_planes_other 0.001 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 18918 Nucleic Acid Atoms Solvent Atoms 113 Heterogen Atoms 486
Software Software Software Name Purpose HKL-2000 data collection MLPHARE phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling