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Crystal structure of the potent anti-HIV cyanobacterial lectin from Oscillatoria Agardhii
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 8 298 1.2 M NaH2PO4/0.8 M K2HPO4, 0.2 M Li2SO4, 0.1 M CAPS (pH 10.5), VAPOR DIFFUSION, SITTING DROP, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.71 54.54
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 42.752 α = 78.16 b = 47.275 β = 62.99 c = 47.367 γ = 63.14
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 277 IMAGE PLATE MAR scanner 300 mm plate MIRRORS 2010-02-25 M MAD
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-BM 0.9795, 0.9793, 0.9718 APS 22-BM
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 1.1 22.64 92 0.079 7.5 3.81 86175 1 3
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 1.14 83.1 0.434 2.1 3.73 9892
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MAD THROUGHOUT 1.2 22.64 1 77522 77522 8658 93.46 0.14024 0.1571 0.16923 0.1829 RANDOM 13.854
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] 2.76 0.19 -1.34 -1.23 0.5 -0.69
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.628 r_sphericity_free 25.579 r_sphericity_bonded 13.59 r_dihedral_angle_3_deg 11.352 r_scangle_it 8.27 r_dihedral_angle_4_deg 7.403 r_scbond_it 6.83 r_dihedral_angle_1_deg 6.111 r_mcangle_it 4.926 r_rigid_bond_restr 4.157
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 43.628 r_sphericity_free 25.579 r_sphericity_bonded 13.59 r_dihedral_angle_3_deg 11.352 r_scangle_it 8.27 r_dihedral_angle_4_deg 7.403 r_scbond_it 6.83 r_dihedral_angle_1_deg 6.111 r_mcangle_it 4.926 r_rigid_bond_restr 4.157 r_mcbond_it 3.777 r_mcbond_other 2.525 r_angle_refined_deg 1.356 r_angle_other_deg 0.746 r_chiral_restr 0.099 r_bond_refined_d 0.013 r_gen_planes_refined 0.006 r_gen_planes_other 0.001 r_bond_other_d
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1966 Nucleic Acid Atoms Solvent Atoms 344 Heterogen Atoms 56
Software Software Software Name Purpose d*TREK data scaling PHENIX model building PHASER phasing REFMAC refinement d*TREK data reduction PHENIX phasing