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Crystal structure of the common edible mushroom (Agaricus bisporus) lectin in complex with Lacto-N-biose
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 8 277 Sodium formate, Tris, pH 8.0, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K
Crystal Properties Matthews coefficient Solvent content 2.6 51.8
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 91.61 α = 90 b = 96.09 β = 90 c = 75.06 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 IMAGE PLATE MARRESEARCH Xenocs Fox 2D Cu 12_38P 2004-06-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU300 1.5418
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 1.8 25 98.6 0.067 9.7 5.4 28137 28137
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.8 1.9 96 0.35 2.2
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) R-Factor (Observed) R-Work (Depositor) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION FOURIER SYNTHESIS THROUGHOUT 1.85 25 26700 26700 1418 98.24 0.2027 0.2027 0.20212 0.21371 0.203 RANDOM 23.295
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] -0.81 0.97 -0.16
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.102 r_scangle_it 1.626 r_scbond_it 0.97 r_angle_refined_deg 0.948 r_mcangle_it 0.722 r_mcbond_it 0.383 r_nbd_refined 0.173 r_symmetry_hbond_refined 0.144 r_symmetry_vdw_refined 0.137 r_xyhbond_nbd_refined 0.093
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.102 r_scangle_it 1.626 r_scbond_it 0.97 r_angle_refined_deg 0.948 r_mcangle_it 0.722 r_mcbond_it 0.383 r_nbd_refined 0.173 r_symmetry_hbond_refined 0.144 r_symmetry_vdw_refined 0.137 r_xyhbond_nbd_refined 0.093 r_chiral_restr 0.065 r_bond_refined_d 0.006 r_gen_planes_refined 0.003 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2270 Nucleic Acid Atoms Solvent Atoms 96 Heterogen Atoms 52
Software Software Software Name Purpose REFMAC refinement MAR345 data collection AUTOMAR data reduction