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Crystal structure of Putative sugar binding protein (YP_001299726.1) from Bacteroides vulgatus ATCC 8482 at 1.90 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.9 277 0.2000M (NH4)2HPO4, 20.0000% PEG-3350, No Buffer pH 7.9, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.25 45.39
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 88.498 α = 90 b = 91.088 β = 90 c = 117.861 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 2009-05-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 1.9 29.748 99.3 0.152 0.152 8.9 4.8 75204 15.886
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 1.9 1.95 92.9 0.643 0.643 1 3.5 5109
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 SAD THROUGHOUT 1.9 29.748 75129 3785 99.31 0.155 0.152 0.1714 0.204 0.217 RANDOM 14.755
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] -0.24 -0.83 1.07
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.428 r_dihedral_angle_4_deg 19.059 r_dihedral_angle_3_deg 12.908 r_scangle_it 6.252 r_dihedral_angle_1_deg 6.089 r_scbond_it 4.633 r_mcangle_it 2.596 r_mcbond_it 1.775 r_angle_refined_deg 1.441 r_angle_other_deg 0.946
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.428 r_dihedral_angle_4_deg 19.059 r_dihedral_angle_3_deg 12.908 r_scangle_it 6.252 r_dihedral_angle_1_deg 6.089 r_scbond_it 4.633 r_mcangle_it 2.596 r_mcbond_it 1.775 r_angle_refined_deg 1.441 r_angle_other_deg 0.946 r_mcbond_other 0.567 r_chiral_restr 0.092 r_bond_refined_d 0.016 r_gen_planes_refined 0.007 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7110 Nucleic Acid Atoms Solvent Atoms 998 Heterogen Atoms 72
Software Software Software Name Purpose REFMAC refinement PHENIX refinement SHELX phasing MolProbity model building SCALA data scaling PDB_EXTRACT data extraction MOSFLM data reduction SHELXD phasing autoSHARP phasing