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Crystal structure of a 6-phosphogluconolactonase (Sbal_2240) from Shewanella baltica OS155 at 1.40 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 10.0000% Glycerol, 5.0000% PEG-3000, 30.0000% PEG-400, 0.1M HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.48 50.49
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 46.179 α = 90 b = 72.019 β = 90 c = 154.13 γ = 90
Symmetry Space Group P 21 21 21
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 MARMOSAIC 325 mm CCD Flat collimating mirror, toroid focusing mirror 2009-11-06 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 0.91162,0.97951,0.97936 SSRL BL9-2
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 1.4 27.367 92 0.021 17.24 3.25 98437 -3 19.284
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 1.4 1.45 62.3 0.317 1.4
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 MAD THROUGHOUT 1.4 27.367 98361 4919 96.42 0.169 0.168 0.1764 0.186 0.1948 RANDOM 22.929
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] 0.22 -1.78 1.56
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.671 r_dihedral_angle_4_deg 11.545 r_dihedral_angle_3_deg 11.054 r_scangle_it 6.627 r_dihedral_angle_1_deg 5.975 r_scbond_it 4.398 r_mcangle_it 2.565 r_angle_refined_deg 1.625 r_mcbond_it 1.594 r_angle_other_deg 0.963
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.671 r_dihedral_angle_4_deg 11.545 r_dihedral_angle_3_deg 11.054 r_scangle_it 6.627 r_dihedral_angle_1_deg 5.975 r_scbond_it 4.398 r_mcangle_it 2.565 r_angle_refined_deg 1.625 r_mcbond_it 1.594 r_angle_other_deg 0.963 r_mcbond_other 0.466 r_chiral_restr 0.098 r_bond_refined_d 0.018 r_gen_planes_refined 0.008 r_gen_planes_other 0.003 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3563 Nucleic Acid Atoms Solvent Atoms 487 Heterogen Atoms 70
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing