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Crystal structure of a putative two-domain sugar hydrolase (BACCAC_02064) from Bacteroides caccae ATCC 43185 at 1.35 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 2.0M ammonium sulfate, 2.0% polyethylene glycol 400, 0.1M sodium HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 3.17 61.23
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.055 α = 90 b = 117.803 β = 90 c = 113.748 γ = 90
Symmetry Space Group C 2 2 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 Vertical focusing mirror; double crystal Si(111) monochromator 2014-04-16 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL14-1 SSRL BL14-1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.35 29.812 99.8 0.11 8.2 5.7 127336 127336
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 1.35 1.39 97.4 0.501 0.501 1.5 2.6 8830
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 1.35 29.812 127307 6399 99.72 0.1074 0.106 0.1331 0.1336 0.1515 RANDOM 20.6094
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] -0.29 0.08 0.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.285 r_sphericity_free 31.118 r_dihedral_angle_4_deg 23.349 r_sphericity_bonded 13.206 r_dihedral_angle_3_deg 11.167 r_dihedral_angle_1_deg 6.703 r_rigid_bond_restr 6.354 r_angle_refined_deg 2.263 r_mcangle_it 2.172 r_mcbond_it 1.914
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.285 r_sphericity_free 31.118 r_dihedral_angle_4_deg 23.349 r_sphericity_bonded 13.206 r_dihedral_angle_3_deg 11.167 r_dihedral_angle_1_deg 6.703 r_rigid_bond_restr 6.354 r_angle_refined_deg 2.263 r_mcangle_it 2.172 r_mcbond_it 1.914 r_mcbond_other 1.861 r_angle_other_deg 1.121 r_chiral_restr 0.134 r_bond_refined_d 0.026 r_gen_planes_refined 0.012 r_gen_planes_other 0.004 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3230 Nucleic Acid Atoms Solvent Atoms 690 Heterogen Atoms 88
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing SCALA data scaling REFMAC refinement MOSFLM data reduction SHELXD phasing