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Photorhabdus asymbiotica lectin (PHL) in complex with synthetic C-fucoside
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 7.5 293 4.7 M NaCl, 100 mM HEPES
Crystal Properties Matthews coefficient Solvent content 2.71 54.56
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 81.94 α = 90 b = 81.94 β = 90 c = 224.645 γ = 120
Symmetry Space Group P 32 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 RAYONIX MX-225 2016-06-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.3 0.8943 BESSY 14.3
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) CC (Half) 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 1.78 44.93 100 0.242 0.991 9 11 85234
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.78 1.87 99.5 1.325 0.53 1.7 10.8
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 MOLECULAR REPLACEMENT THROUGHOUT 1.78 44.93 80956 4196 99.92 0.18599 0.18411 0.1923 0.22218 0.2246 RANDOM 12.354
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 -0.11 -0.23 0.73
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.009 r_dihedral_angle_3_deg 12.21 r_dihedral_angle_4_deg 11.305 r_dihedral_angle_1_deg 7.73 r_long_range_B_refined 3.232 r_long_range_B_other 3.04 r_angle_refined_deg 1.712 r_scangle_other 1.682 r_mcangle_it 1.328 r_mcangle_other 1.328
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.009 r_dihedral_angle_3_deg 12.21 r_dihedral_angle_4_deg 11.305 r_dihedral_angle_1_deg 7.73 r_long_range_B_refined 3.232 r_long_range_B_other 3.04 r_angle_refined_deg 1.712 r_scangle_other 1.682 r_mcangle_it 1.328 r_mcangle_other 1.328 r_scbond_it 1.121 r_scbond_other 1.121 r_angle_other_deg 1.046 r_mcbond_it 0.878 r_mcbond_other 0.878 r_chiral_restr 0.113 r_bond_refined_d 0.019 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_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 5332 Nucleic Acid Atoms Solvent Atoms 700 Heterogen Atoms 225
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling PHASER phasing