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Crystal structure of SusD-like carbohydrate binding protein (YP_001298396.1) from Bacteroides vulgatus ATCC 8482 at 1.70 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 6.5 277 5.0000% polyethylene glycol 3000, 32.0000% polyethylene glycol 400, 0.1M MES pH 6.5, NANODROP', VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.78 55.82
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 191.772 α = 90 b = 46.707 β = 106.55 c = 73.524 γ = 90
Symmetry Space Group C 1 2 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 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 0.91837,0.97954 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 1.7 39.368 99.5 0.07 11.49 68815 -3 27.053
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 1.7 1.76 98.6 0.627 2.1
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 1.7 39.368 68804 3490 99.54 0.146 0.145 0.1583 0.17 0.1809 RANDOM 20.068
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] 0.1 -0.44 -0.97 0.62
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.619 r_dihedral_angle_4_deg 16.824 r_dihedral_angle_3_deg 12.655 r_dihedral_angle_1_deg 6.047 r_scangle_it 3.624 r_scbond_it 2.288 r_angle_refined_deg 1.486 r_mcangle_it 1.463 r_angle_other_deg 0.962 r_mcbond_it 0.827
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.619 r_dihedral_angle_4_deg 16.824 r_dihedral_angle_3_deg 12.655 r_dihedral_angle_1_deg 6.047 r_scangle_it 3.624 r_scbond_it 2.288 r_angle_refined_deg 1.486 r_mcangle_it 1.463 r_angle_other_deg 0.962 r_mcbond_it 0.827 r_mcbond_other 0.247 r_chiral_restr 0.101 r_bond_refined_d 0.017 r_gen_planes_refined 0.008 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3813 Nucleic Acid Atoms Solvent Atoms 527 Heterogen Atoms 113
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