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Crystal structure of a putative GDSL-like lipase (BACOVA_00914) from Bacteroides ovatus ATCC 8483 at 1.40 A resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 277 0.0500M lithium sulfate, 10.00% Glycerol, 30.00% polyethylene glycol 600, 0.1M HEPES pH 7.5, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.07 40.59
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 87.89 α = 90 b = 71.573 β = 125.89 c = 63.102 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 Vertical focusing mirror; double crystal Si(111) monochromator 2012-01-14 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 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 1.4 29.317 98.1 0.066 8.87 61438 -3 12.95
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 1.4 1.45 98.9 0.618 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 1.4 29.317 61401 3096 98.62 0.128 0.1261 0.1386 0.1637 0.1752 RANDOM 16.3098
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] -0.23 0.02 0.59 -0.33
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.298 r_dihedral_angle_4_deg 16.538 r_dihedral_angle_3_deg 11.285 r_sphericity_free 7.213 r_scangle_it 6.793 r_dihedral_angle_1_deg 6.093 r_scbond_it 4.574 r_sphericity_bonded 3.67 r_mcangle_it 3.277 r_mcbond_it 2.352
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.298 r_dihedral_angle_4_deg 16.538 r_dihedral_angle_3_deg 11.285 r_sphericity_free 7.213 r_scangle_it 6.793 r_dihedral_angle_1_deg 6.093 r_scbond_it 4.574 r_sphericity_bonded 3.67 r_mcangle_it 3.277 r_mcbond_it 2.352 r_rigid_bond_restr 1.714 r_angle_refined_deg 1.558 r_mcbond_other 1.366 r_angle_other_deg 1.075 r_chiral_restr 0.097 r_bond_refined_d 0.013 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2644 Nucleic Acid Atoms Solvent Atoms 369 Heterogen Atoms 20
Software Software Software Name Purpose MolProbity model building PDB_EXTRACT data extraction SHELX phasing SHARP phasing XSCALE data scaling REFMAC refinement XDS data reduction SHELXD phasing