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Crystal structure of the LecB lectin from Pseudomonas aeruginosa strain PA7 in complex with lewis a tetrasaccharide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1GZT PDB ENTRY 1GZT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 4.6 14% PEG6K, 0.2M LITHIUM CHLORIDE AND 0.1M SODIUM ACETATE PH 4.6. CRYO WITH 26% PEG 6K
Crystal Properties Matthews coefficient Solvent content 2.16 43.08
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 52.79 α = 90 b = 70.37 β = 90.5 c = 54.66 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 MARRESEARCH 2014-04-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A ESRF BM30A
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 1.75 42.23 99.4 0.06 13.7 3.4 40169 2
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 1.75 1.78 93.5 0.35 3 2.7
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 PDB ENTRY 1GZT 1.75 42.23 38130 1992 99.27 0.14928 0.14752 0.1592 0.18345 0.1922 RANDOM 12.49
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] -0.48 0.26 -0.01 0.49
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.902 r_dihedral_angle_4_deg 24.05 r_dihedral_angle_3_deg 11.215 r_dihedral_angle_1_deg 6.396 r_angle_refined_deg 1.619 r_scbond_it 1.615 r_mcangle_it 1.537 r_angle_other_deg 1.347 r_mcbond_it 0.969 r_mcbond_other 0.969
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.902 r_dihedral_angle_4_deg 24.05 r_dihedral_angle_3_deg 11.215 r_dihedral_angle_1_deg 6.396 r_angle_refined_deg 1.619 r_scbond_it 1.615 r_mcangle_it 1.537 r_angle_other_deg 1.347 r_mcbond_it 0.969 r_mcbond_other 0.969 r_chiral_restr 0.098 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 r_bond_other_d 0.009 r_gen_planes_other 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_mcangle_other r_scbond_other r_scangle_it r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3284 Nucleic Acid Atoms Solvent Atoms 644 Heterogen Atoms 197
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction Aimless data scaling PHASER phasing