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Crystal structure of SusD homolog (NP_813570.1) from Bacteroides thetaiotaomicron VPI-5482 at 1.70 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9.1 277 0.2000M Na2HPO4, 20.0000% PEG-3350, No Buffer pH 9.1, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.42 49.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 62.908 α = 90 b = 72.318 β = 97.31 c = 131.629 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 MARMOSAIC 325 mm CCD Flat mirror (vertical focusing) 2009-04-15 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL11-1 0.91837,0.97864,0.97806 SSRL BL11-1
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 29.748 97.4 0.068 7.57 128297 -3 16.275
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 95.7 0.461 1.8
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 29.748 128277 6461 99.35 0.163 0.162 0.1707 0.193 0.2002 RANDOM 11.531
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] 0.61 -0.9 -0.62 -0.22
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.083 r_dihedral_angle_4_deg 14.63 r_dihedral_angle_3_deg 10.357 r_dihedral_angle_1_deg 4.166 r_scangle_it 3.185 r_scbond_it 2.064 r_angle_refined_deg 1.523 r_mcangle_it 1.218 r_angle_other_deg 1.032 r_mcbond_it 0.743
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.083 r_dihedral_angle_4_deg 14.63 r_dihedral_angle_3_deg 10.357 r_dihedral_angle_1_deg 4.166 r_scangle_it 3.185 r_scbond_it 2.064 r_angle_refined_deg 1.523 r_mcangle_it 1.218 r_angle_other_deg 1.032 r_mcbond_it 0.743 r_mcbond_other 0.257 r_chiral_restr 0.101 r_bond_refined_d 0.014 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 8554 Nucleic Acid Atoms Solvent Atoms 1248 Heterogen Atoms 88
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