☰ Navigation Tabs
The structure of a putative 4-hydroxybutyrate CoA-transferase from Porphyromonas gingivalis W83
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8.5 291 0.2M MgCl2, 0.1M Tris pH8.5, 16% PEG 4K, VAPOR DIFFUSION, SITTING DROP, temperature 291K
Crystal Properties Matthews coefficient Solvent content 2.11 41.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.704 α = 90 b = 72.704 β = 90 c = 133.694 γ = 120
Symmetry Space Group P 32 1 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 315 2006-10-21 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97922 APS 19-ID
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 2.05 44.56 99.6 0.12 6.3 11 25521 -3 30.5
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 2.052 2.105 96.83 0.623 2.7 7
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 (All) 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 SAD THROUGHOUT 2.05 44.56 25521 25521 1299 99.6 0.173 0.173 0.171 0.1785 0.208 0.2099 RANDOM 26.712
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] -1.85 -0.92 -1.85 2.77
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.862 r_dihedral_angle_4_deg 21.112 r_dihedral_angle_3_deg 15.067 r_dihedral_angle_1_deg 5.87 r_scangle_it 3.533 r_scbond_it 2.187 r_angle_refined_deg 1.413 r_mcangle_it 1.287 r_angle_other_deg 0.908 r_mcbond_it 0.702
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.862 r_dihedral_angle_4_deg 21.112 r_dihedral_angle_3_deg 15.067 r_dihedral_angle_1_deg 5.87 r_scangle_it 3.533 r_scbond_it 2.187 r_angle_refined_deg 1.413 r_mcangle_it 1.287 r_angle_other_deg 0.908 r_mcbond_it 0.702 r_mcbond_other 0.172 r_chiral_restr 0.086 r_bond_refined_d 0.014 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3060 Nucleic Acid Atoms Solvent Atoms 249 Heterogen Atoms 2
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MLPHARE phasing DM phasing REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing SHELXD phasing SHELXE model building SOLVE phasing RESOLVE phasing ARP/wARP model building CCP4 phasing O model building Coot model building