☰ Navigation Tabs
Photorhabdus laumondii lectin PLL2 in complex with O-methylated PGL-1-derived disaccharide
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 4.6 293 12.5% PEG 4000, 0.1 M sodium acetate pH 4.6
Crystal Properties Matthews coefficient Solvent content 2.55 51.73
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 68.304 α = 90 b = 89.347 β = 101.35 c = 68.401 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 PIXEL DECTRIS PILATUS 6M-F 2018-10-30 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PETRA III, EMBL c/o DESY BEAMLINE P13 (MX1) 0.9763 PETRA III, EMBL c/o DESY P13 (MX1)
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 2.2 67.03 99.8 0.096 0.993 5.1 3.8 40910 46.387
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 2.2 2.32 99.8 0.922 0.541 1.1 3.8
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2.2 67.03 38568 2033 99.09 0.20019 0.19897 0.22356 0.2422 RANDOM 62.054
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] -2.72 1.76 0.41 1.48
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.926 r_dihedral_angle_3_deg 14.128 r_dihedral_angle_4_deg 10.084 r_long_range_B_other 8.975 r_long_range_B_refined 8.974 r_dihedral_angle_1_deg 8.313 r_scangle_other 6.949 r_mcangle_it 5.814 r_mcangle_other 5.814 r_scbond_it 4.684
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 31.926 r_dihedral_angle_3_deg 14.128 r_dihedral_angle_4_deg 10.084 r_long_range_B_other 8.975 r_long_range_B_refined 8.974 r_dihedral_angle_1_deg 8.313 r_scangle_other 6.949 r_mcangle_it 5.814 r_mcangle_other 5.814 r_scbond_it 4.684 r_scbond_other 4.683 r_mcbond_it 4.196 r_mcbond_other 4.193 r_angle_other_deg 2.431 r_angle_refined_deg 1.43 r_chiral_restr 0.054 r_bond_other_d 0.037 r_bond_refined_d 0.007 r_gen_planes_other 0.007 r_gen_planes_refined 0.006 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 5219 Nucleic Acid Atoms Solvent Atoms 16 Heterogen Atoms 117
Software Software Software Name Purpose REFMAC refinement XDS data reduction SCALA data scaling MOLREP phasing