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Galactose-specific lectin from Dolichos lablab
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1BJQ
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 289 30% PEG 6K, 100mM MES, 5% MPD , pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.25 45.26
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 73.99 α = 89.92 b = 84.13 β = 76.01 c = 93.159 γ = 77
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 MAR scanner 345 mm plate Mirrors 2005-06-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU RU200 1.54
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 3.11 90.17 94.3 0.096 11.3 5.7 41323 38.3
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 3.11 3.19 93.7 0.48 1.9 6.3 4092
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 1BJQ 3.11 90.17 34647 1820 95.68 0.2537 0.25087 0.2486 0.30649 0.2993 RANDOM 50.26
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] 2.7 -1.09 -2.03 -1.18 0.74 -0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.765 r_dihedral_angle_4_deg 16.114 r_dihedral_angle_3_deg 14.709 r_dihedral_angle_1_deg 5.399 r_angle_refined_deg 0.96 r_scangle_it 0.559 r_scbond_it 0.314 r_mcangle_it 0.299 r_mcbond_it 0.161 r_chiral_restr 0.062
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.765 r_dihedral_angle_4_deg 16.114 r_dihedral_angle_3_deg 14.709 r_dihedral_angle_1_deg 5.399 r_angle_refined_deg 0.96 r_scangle_it 0.559 r_scbond_it 0.314 r_mcangle_it 0.299 r_mcbond_it 0.161 r_chiral_restr 0.062 r_bond_refined_d 0.006 r_gen_planes_refined 0.004
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 14975 Nucleic Acid Atoms Solvent Atoms 22 Heterogen Atoms 119
Software Software Software Name Purpose MAR345dtb data collection PHASER phasing REFMAC refinement DENZO data reduction SCALEPACK data scaling