☰ Navigation Tabs
Crystal structure of the 7-Fluorotryptophan RSL lectin in complex with Lewis x tetrasaccharide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2BT9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7.5 292 60mM divalent, 100 mM buffer 2 pH 7.5, 12.5% peg1K , 12.5% PEG3350 and 12.5% MPD
Crystal Properties Matthews coefficient Solvent content 2.31 16.9
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 129.152 α = 90 b = 129.152 β = 90 c = 129.152 γ = 90
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 ADSC QUANTUM 315r 2017-02-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM30A 0.9799 ESRF BM30A
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) 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 1.15 32.3 99.9 0.066 0.015 1 33.2 21.4 63033 2 7.4
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.15 1.17 100 0.641 0.148 0.962 5.6 20.6
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 2BT9 1.15 32.29 59892 3140 99.86 0.10481 0.10361 0.1049 0.12876 0.1306 RANDOM 10.991
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]
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.606 r_dihedral_angle_1_deg 24.136 r_sphericity_free 13.205 r_dihedral_angle_3_deg 9.511 r_sphericity_bonded 4.464 r_dihedral_angle_4_deg 4.414 r_rigid_bond_restr 4.075 r_angle_refined_deg 1.963 r_long_range_B_refined 1.923 r_long_range_B_other 1.565
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 36.606 r_dihedral_angle_1_deg 24.136 r_sphericity_free 13.205 r_dihedral_angle_3_deg 9.511 r_sphericity_bonded 4.464 r_dihedral_angle_4_deg 4.414 r_rigid_bond_restr 4.075 r_angle_refined_deg 1.963 r_long_range_B_refined 1.923 r_long_range_B_other 1.565 r_scangle_other 1.406 r_scbond_it 1.166 r_scbond_other 1.162 r_angle_other_deg 0.974 r_mcangle_it 0.959 r_mcangle_other 0.959 r_mcbond_other 0.743 r_chiral_restr 0.105 r_bond_refined_d 0.015 r_gen_planes_refined 0.011 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_scangle_it
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1378 Nucleic Acid Atoms Solvent Atoms 279 Heterogen Atoms 158
Software Software Software Name Purpose REFMAC refinement XDS data reduction Aimless data scaling PHASER phasing