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Peanut lectin-lactose complex in acidic pH
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2PEL
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 hanging drop method 4.6 293 PEG 8000, 0.2M calcium acetate, 0.1M cacodylate pH 6.5, pH 4.6, hanging drop method, temperature 293K
Crystal Properties Matthews coefficient Solvent content 3.1 60.06
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 128.609 α = 90 b = 125.749 β = 90 c = 76.049 γ = 90
Symmetry Space Group P 21 21 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 293 IMAGE PLATE MARRESEARCH Mirror M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.5418
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 2.15 20 0.131 5.8 67860 67601 27.7
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) 2.15 2.17 0.575 5.6 3325
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-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION Isomorphous replacement THROUGHOUT 2PEL 2.15 20 64350 2639 99.9 0.184 0.1782 0.218 0.2113 RANDOM 27.7
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] 4.79 -3.58 -1.21
RMS Deviations Key Refinement Restraint Deviation c_dihedral_angle_d 26.4 c_scangle_it 2.98 c_mcangle_it 2.21 c_scbond_it 2.06 c_angle_deg 1.4 c_mcbond_it 1.39 c_improper_angle_d 0.85 c_bond_d 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6976 Nucleic Acid Atoms Solvent Atoms 423 Heterogen Atoms 100
Software Software Software Name Purpose CNS refinement DENZO data reduction SCALEPACK data scaling