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1.95 Angstrom Crystal Structure of CocE/NonD family hydrolase (SACOL2612) from Staphylococcus aureus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 7 293 suberic acid, sebacic acid, hexadecanedioic acid, dodecanedioic acid 12mM each, PEG3350 20%, Hepes 0.1M pH 7.5, VAPOR DIFFUSION, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.25 45.35
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 74.498 α = 90 b = 74.498 β = 90 c = 210.681 γ = 90
Symmetry Space Group P 41 21 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 210r mirrors 2009-03-18 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9793 APS 19-BM
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 1.95 42.14 100 0.112 0.112 29.1 16.2 44452 44452 -3
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 1.95 1.98 100 0.637 0.637 4.1 15.3
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 SAD THROUGHOUT 1.95 42.14 42010 42010 2232 99.91 0.14669 0.14474 0.1725 0.18336 0.2038 RANDOM 8.694
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] 0.16 0.16 -0.32
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.283 r_dihedral_angle_4_deg 17.327 r_dihedral_angle_3_deg 12.63 r_dihedral_angle_1_deg 6.854 r_scangle_it 3.978 r_scbond_it 2.77 r_angle_other_deg 2.217 r_angle_refined_deg 1.605 r_mcangle_it 1.466 r_mcbond_it 0.899
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.283 r_dihedral_angle_4_deg 17.327 r_dihedral_angle_3_deg 12.63 r_dihedral_angle_1_deg 6.854 r_scangle_it 3.978 r_scbond_it 2.77 r_angle_other_deg 2.217 r_angle_refined_deg 1.605 r_mcangle_it 1.466 r_mcbond_it 0.899 r_mcbond_other 0.15 r_chiral_restr 0.107 r_bond_refined_d 0.02 r_gen_planes_refined 0.009 r_gen_planes_other 0.006 r_bond_other_d 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_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4506 Nucleic Acid Atoms Solvent Atoms 556 Heterogen Atoms 15
Software Software Software Name Purpose HKL-3000 data collection HKL-3000 phasing SHELXD phasing SHELXE model building MLPHARE phasing DM model building ARP/wARP model building CCP4 model building O model building Coot model building REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling DM phasing CCP4 phasing