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Crystal structure of an exo-alpha-1,6-mannosidase (bacova_03347) from bacteroides ovatus at 1.60 a resolution
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 9 277 20.00% PEG-6000, 0.1M Bicine pH 9.0, NANODROP, VAPOR DIFFUSION, SITTING DROP, temperature 277K
Crystal Properties Matthews coefficient Solvent content 2.36 47.93
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 64.722 α = 90 b = 89.854 β = 105.61 c = 90.387 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 2010-05-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SSRL BEAMLINE BL9-2 SSRL BL9-2
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 1.6 29.521 99 0.068 10.65 130811 -3 17.675
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 1.6 1.66 97.9 0.725 1.5
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION SAD THROUGHOUT 1.6 29.521 130777 6582 99.72 0.1356 0.1339 0.1682 0.1656 RANDOM 24.506
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] -1.38 -0.82 0.78 0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.26 r_dihedral_angle_4_deg 18.245 r_dihedral_angle_3_deg 11.942 r_dihedral_angle_1_deg 5.947 r_scangle_it 4.847 r_scbond_it 3.565 r_mcangle_it 2.292 r_mcbond_it 1.626 r_angle_refined_deg 1.534 r_angle_other_deg 0.965
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 40.26 r_dihedral_angle_4_deg 18.245 r_dihedral_angle_3_deg 11.942 r_dihedral_angle_1_deg 5.947 r_scangle_it 4.847 r_scbond_it 3.565 r_mcangle_it 2.292 r_mcbond_it 1.626 r_angle_refined_deg 1.534 r_angle_other_deg 0.965 r_mcbond_other 0.54 r_chiral_restr 0.102 r_bond_refined_d 0.017 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 7128 Nucleic Acid Atoms Solvent Atoms 1150 Heterogen Atoms 62
Software Software Software Name Purpose SHELX phasing REFMAC refinement XSCALE data scaling PDB_EXTRACT data extraction XDS data reduction SHELXD phasing autoSHARP phasing