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Galactose-specific lectin from Dolichos lablab in P6522 space group
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, SITTING DROP 7.5 289 30% PEG 4K, 100mM Tris, 200mM Lithium sulphate
, pH 7.5, VAPOR DIFFUSION, SITTING DROP, temperature 289K
Crystal Properties Matthews coefficient Solvent content 2.5 55.75
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 90.496 α = 90 b = 90.496 β = 90 c = 514.24 γ = 120
Symmetry Space Group P 65 2 2
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 CCD MARMOSAIC 300 mm CCD 2010-07-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 0.97 ESRF BM14
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 2.5 50 93.4 0.101 27.1 9.7 44836 57.7
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) 1 2.5 2.54 95.7 0.448 2.7 4.8 2032
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 2.5 50 40489 2147 95 0.27459 0.27344 0.2702 0.29624 0.2923 RANDOM 37.259
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] -1.59 -0.79 -1.59 2.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.31 r_dihedral_angle_4_deg 17.076 r_dihedral_angle_3_deg 14.192 r_dihedral_angle_1_deg 6.14 r_scangle_it 2.122 r_scbond_it 1.142 r_angle_refined_deg 1.045 r_mcangle_it 0.96 r_mcbond_it 0.501 r_chiral_restr 0.069
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.31 r_dihedral_angle_4_deg 17.076 r_dihedral_angle_3_deg 14.192 r_dihedral_angle_1_deg 6.14 r_scangle_it 2.122 r_scbond_it 1.142 r_angle_refined_deg 1.045 r_mcangle_it 0.96 r_mcbond_it 0.501 r_chiral_restr 0.069 r_bond_refined_d 0.007 r_gen_planes_refined 0.005
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 7560 Nucleic Acid Atoms Solvent Atoms 167 Heterogen Atoms 102
Software Software Software Name Purpose HKL-2000 data collection PHASER phasing REFMAC refinement HKL-2000 data reduction SCALA data scaling