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STRUCTURE OF THE LECB LECTIN FROM PSEUDOMONAS AERUGINOSA STRAIN PA14 IN COMPLEX WITH 3-Thiophenesulfonamide-2,5-dimethyl-N-methyl-beta-L-fucopyranoside
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 5A6Q
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8.5 292 22% PEG8K 50 mM AMSO4 0.1M Tris-HCl pH 8.5
Crystal Properties Matthews coefficient Solvent content 2.24 45.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 49.881 α = 90 b = 49.881 β = 90 c = 288.753 γ = 120
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 2M 2014-05-14 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID23-2 0.8726 ESRF ID23-2
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 1.45 37.07 100 0.057 1 27.1 11.3 71656 2 7.5
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 1.45 1.47 100 0.308 0.98 7.6 11
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 MOLECULAR REPLACEMENT THROUGHOUT 5a6q 1.45 37.07 67895 3598 99.99 0.12434 0.12336 0.1233 0.14196 0.1422 RANDOM 11.326
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] 0.27 0.14 0.27 -0.89
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 47.396 r_dihedral_angle_4_deg 10.389 r_dihedral_angle_3_deg 9.818 r_dihedral_angle_1_deg 6.579 r_long_range_B_refined 4.089 r_long_range_B_other 3.998 r_scangle_other 2.108 r_angle_refined_deg 1.788 r_scbond_it 1.452 r_scbond_other 1.452
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 47.396 r_dihedral_angle_4_deg 10.389 r_dihedral_angle_3_deg 9.818 r_dihedral_angle_1_deg 6.579 r_long_range_B_refined 4.089 r_long_range_B_other 3.998 r_scangle_other 2.108 r_angle_refined_deg 1.788 r_scbond_it 1.452 r_scbond_other 1.452 r_mcangle_it 1.233 r_mcangle_other 1.233 r_angle_other_deg 0.989 r_mcbond_it 0.827 r_mcbond_other 0.827 r_chiral_restr 0.104 r_bond_refined_d 0.016 r_gen_planes_refined 0.008 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 3292 Nucleic Acid Atoms Solvent Atoms 656 Heterogen Atoms 106
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing