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BpGH86A: A beta-porphyranase of glycoside hydrolase family 86 from the human gut bacterium Bacteroides plebeius
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 27% PEG MME 2000, 0.1 M POTASSIUM THIOCYANATE AND 150 MM SODIUM IODIDE
Crystal Properties Matthews coefficient Solvent content 2.8 56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 71.33 α = 90 b = 87.7 β = 90 c = 114.45 γ = 90
Symmetry Space Group P 21 21 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 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON CLSI BEAMLINE 08ID-1 CLSI 08ID-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 1.33 31.41 99 0.06 15.8 7.3 163194 2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 NONE 1.33 69.61 154892 8189 99.66 0.13813 0.13742 0.1456 0.15157 0.157 RANDOM 11.553
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] -0.32 0.27 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.769 r_dihedral_angle_4_deg 15.774 r_dihedral_angle_3_deg 11.044 r_dihedral_angle_1_deg 6.31 r_scangle_it 4.767 r_scbond_it 3.439 r_mcangle_it 2.531 r_mcbond_it 1.644 r_angle_refined_deg 1.632 r_rigid_bond_restr 1.421
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.769 r_dihedral_angle_4_deg 15.774 r_dihedral_angle_3_deg 11.044 r_dihedral_angle_1_deg 6.31 r_scangle_it 4.767 r_scbond_it 3.439 r_mcangle_it 2.531 r_mcbond_it 1.644 r_angle_refined_deg 1.632 r_rigid_bond_restr 1.421 r_angle_other_deg 0.972 r_mcbond_other 0.604 r_chiral_restr 0.108 r_bond_refined_d 0.015 r_gen_planes_refined 0.009 r_bond_other_d 0.002 r_gen_planes_other 0.001 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 4475 Nucleic Acid Atoms Solvent Atoms 594 Heterogen Atoms 107
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling