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Glycosyl hydrolase family 88 from Bacteroides vulgatus
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 289 0.2 M lithium sulfate, 0.1 M HEPES buffer, 25% PEG 3350, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 3.19 61.43
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 55.415 α = 65.3 b = 73.502 β = 83.66 c = 73.183 γ = 90.94
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 210r 2013-11-27 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-BM 0.9792 APS 19-BM
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 1.73 26.8 89.9 0.082 16.9 1.9 96838 96838 32.9
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 1.73 1.76 53.4 0.35 2.09 1.6 2834
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.73 26.8 96837 96837 4892 88.99 0.1367 0.1367 0.1352 0.1479 0.1642 0.1753 RANDOM 25.391
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] 1 -1.08 0.48 -0.07 0.5 -0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.112 r_dihedral_angle_4_deg 18.702 r_dihedral_angle_3_deg 11.532 r_dihedral_angle_1_deg 5.714 r_mcangle_it 1.918 r_angle_refined_deg 1.616 r_mcbond_it 1.371 r_mcbond_other 1.366 r_angle_other_deg 0.87 r_chiral_restr 0.105
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.112 r_dihedral_angle_4_deg 18.702 r_dihedral_angle_3_deg 11.532 r_dihedral_angle_1_deg 5.714 r_mcangle_it 1.918 r_angle_refined_deg 1.616 r_mcbond_it 1.371 r_mcbond_other 1.366 r_angle_other_deg 0.87 r_chiral_restr 0.105 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5723 Nucleic Acid Atoms Solvent Atoms 904 Heterogen Atoms 31
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling REFMAC refinement PDB_EXTRACT data extraction SBC-Collect data collection HKL-3000 data reduction HKL-3000 data scaling SHELXCD phasing SHELXD phasing MLPHARE phasing DM phasing ARP/wARP model building HKL-3000 phasing