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The crystal structures of two fragments truncated from 5-bladed beta-propeller lectin, tachylectin-2 (Lib2-D2-15)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1TL2
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 Microbatch under oil 7 298 100mM HEPES, 0.2M magnesium chloride, 20% PEG 6000, pH 7, Microbatch under oil, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.37 48.16
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 125.566 α = 90 b = 56.418 β = 122.9 c = 86.306 γ = 90
Symmetry Space Group C 1 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 IMAGE PLATE RIGAKU RAXIS IV++ 2009-04-06 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) 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 2.49 50 98.9 17718
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.5 2.54 90.3
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (All) 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 1TL2 2.49 50 17081 16813 905 98.43 0.23654 0.23311 0.2322 0.29903 0.2943 RANDOM 37.346
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] -0.48 -2.01 0.04 -1.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.096 r_dihedral_angle_3_deg 18.737 r_dihedral_angle_4_deg 17.372 r_dihedral_angle_1_deg 7.007 r_scangle_it 2.162 r_angle_refined_deg 1.52 r_scbond_it 1.346 r_mcangle_it 1.052 r_mcbond_it 0.56 r_chiral_restr 0.107
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.096 r_dihedral_angle_3_deg 18.737 r_dihedral_angle_4_deg 17.372 r_dihedral_angle_1_deg 7.007 r_scangle_it 2.162 r_angle_refined_deg 1.52 r_scbond_it 1.346 r_mcangle_it 1.052 r_mcbond_it 0.56 r_chiral_restr 0.107 r_bond_refined_d 0.012 r_gen_planes_refined 0.006
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3675 Nucleic Acid Atoms Solvent Atoms 6 Heterogen Atoms 60
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling