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Structure of the R17A mutant of the Ralstonia soleanacerum lectin at 1.5 Angstrom in complex with L-fucose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BT9 PDB ENTRY 2BT9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 30MM MGCL2, 30MM CACL2, 100MM MES/IMIDAZOLE PH 6.5, 12.5 % OF MPD, PEG1K AND PEG3350
Crystal Properties Matthews coefficient Solvent content 2.8 56.2
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.399 α = 90 b = 72.399 β = 90 c = 35.99 γ = 120
Symmetry Space Group P 3 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 PIXEL DECTRIS PILATUS 6M 2012-03-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON SOLEIL BEAMLINE PROXIMA 1 SOLEIL PROXIMA 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 1.5 36.2 99.3 0.05 15.9 5.4 17523 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 1.5 1.58 98.7 0.31 4.8 5.5
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 2BT9 1.5 36.2 16628 892 99.01 0.1351 0.13357 0.1471 0.1656 0.1844 RANDOM 19.041
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] 0.33 0.33 0.33 -1.08
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.774 r_sphericity_free 19.038 r_dihedral_angle_3_deg 12.848 r_dihedral_angle_1_deg 6.849 r_sphericity_bonded 6.48 r_rigid_bond_restr 5.533 r_dihedral_angle_4_deg 2.892 r_mcangle_it 2.477 r_scbond_it 2.22 r_mcbond_it 2.198
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 30.774 r_sphericity_free 19.038 r_dihedral_angle_3_deg 12.848 r_dihedral_angle_1_deg 6.849 r_sphericity_bonded 6.48 r_rigid_bond_restr 5.533 r_dihedral_angle_4_deg 2.892 r_mcangle_it 2.477 r_scbond_it 2.22 r_mcbond_it 2.198 r_mcbond_other 2.16 r_angle_refined_deg 1.614 r_angle_other_deg 0.846 r_symmetry_vdw_refined 0.257 r_nbd_refined 0.241 r_symmetry_vdw_other 0.207 r_nbd_other 0.198 r_nbtor_refined 0.192 r_xyhbond_nbd_refined 0.165 r_chiral_restr 0.114 r_nbtor_other 0.093 r_symmetry_hbond_refined 0.056 r_bond_refined_d 0.015 r_gen_planes_refined 0.01 r_bond_other_d 0.001 r_gen_planes_other 0.001 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other 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
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 682 Nucleic Acid Atoms Solvent Atoms 105 Heterogen Atoms 19
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALA data scaling PHASER phasing