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Crystal structure of a phosphotriesterase-like lactonase Gkap in native form
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 287 14% PEG 20000, 0.1M MES pH6.5
Crystal Properties Matthews coefficient Solvent content 2.79 55.96
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 51.398 α = 90 b = 89.38 β = 99.33 c = 89.915 γ = 90
Symmetry Space Group P 1 21 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 315r 2012-06-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRF BEAMLINE BL17U 0.97916 SSRF BL17U
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 1.9 50 99.8 16.9 7.6 63053
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 THROUGHOUT 1.9 50 59836 3194 99.56 0.16757 0.16626 0.1762 0.192 0.198 RANDOM 15.616
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] -0.55 -0.77 0.21 0.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.782 r_dihedral_angle_4_deg 20.163 r_dihedral_angle_3_deg 14.629 r_dihedral_angle_1_deg 6.035 r_long_range_B_refined 4.141 r_long_range_B_other 4.141 r_scangle_other 2.497 r_mcangle_it 1.729 r_mcangle_other 1.729 r_angle_refined_deg 1.474
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 32.782 r_dihedral_angle_4_deg 20.163 r_dihedral_angle_3_deg 14.629 r_dihedral_angle_1_deg 6.035 r_long_range_B_refined 4.141 r_long_range_B_other 4.141 r_scangle_other 2.497 r_mcangle_it 1.729 r_mcangle_other 1.729 r_angle_refined_deg 1.474 r_scbond_it 1.464 r_scbond_other 1.464 r_mcbond_it 1.002 r_mcbond_other 1 r_angle_other_deg 0.828 r_chiral_restr 0.079 r_bond_refined_d 0.008 r_gen_planes_refined 0.006 r_bond_other_d 0.005 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 5086 Nucleic Acid Atoms Solvent Atoms 332 Heterogen Atoms 12
Software Software Software Name Purpose REFMAC refinement SCALEPACK data scaling HKL-2000 data reduction PHASER phasing