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Crystal structure of a putative alpha-L-fucosidase (BACOVA_04357) from Bacteroides ovatus ATCC 8483 at 1.59 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 277 24.0% polyethylene glycol 3350, 0.11M potassium chloride
Crystal Properties Matthews coefficient Solvent content 2.35 47.58
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 63.021 α = 90 b = 71.754 β = 106.98 c = 73.106 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 Vertical focusing mirror; double crystal Si(111) monochromator 2014-12-10 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL14-1 .979230 SSRL BL14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.59 28.599 97.5 0.043 0.052 14.68 3.2 81860 -3 21.531
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.59 1.65 96.4 0.576 0.691 2
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 1.59 28.599 81838 4082 97.65 0.1526 0.1515 0.1617 0.1752 0.1828 RANDOM 28.6366
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] -0.27 -0.51 -2.14 2.29
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.068 r_dihedral_angle_4_deg 16.526 r_dihedral_angle_3_deg 12.987 r_dihedral_angle_1_deg 6.24 r_angle_refined_deg 1.648 r_mcangle_it 1.593 r_mcbond_it 1.021 r_mcbond_other 1.02 r_angle_other_deg 0.943 r_chiral_restr 0.108
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.068 r_dihedral_angle_4_deg 16.526 r_dihedral_angle_3_deg 12.987 r_dihedral_angle_1_deg 6.24 r_angle_refined_deg 1.648 r_mcangle_it 1.593 r_mcbond_it 1.021 r_mcbond_other 1.02 r_angle_other_deg 0.943 r_chiral_restr 0.108 r_bond_refined_d 0.018 r_gen_planes_refined 0.01 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4667 Nucleic Acid Atoms Solvent Atoms 595 Heterogen Atoms 28
Software Software Software Name Purpose PDB_EXTRACT data extraction SHELX phasing SHARP phasing XSCALE data scaling REFMAC refinement SHELXD phasing XDS data reduction