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Crystal structure of recombinant Dioclea guianensis lectin S131H complexed with 5-bromo-4-chloro-3-indolyl-a-D-mannose
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1H9W PDB ENTRY 1H9W
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 CRYSTALS WERE GROWN WITH 0.6M NACL, 0.1 HEPES, PH 7.0.
Crystal Properties Matthews coefficient Solvent content 2.6 51.6
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 65.661 α = 90 b = 88.014 β = 90 c = 91.536 γ = 90
Symmetry Space Group I 2 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 MARRESEARCH 2005-11-24 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE BM14 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 1.65 44 98.8 0.05 8.4 3.1 31757 2
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 1.65 1.74 99.3 0.36 3 3
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-Free (Depositor) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT PDB ENTRY 1H9W 1.65 63.5 30142 1614 98.4 0.156 0.154 0.201 RANDOM 20.62
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] -0.02 -0.36 0.38
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.106 r_dihedral_angle_3_deg 12.691 r_dihedral_angle_4_deg 8.353 r_dihedral_angle_1_deg 6.948 r_scangle_it 3.959 r_scbond_it 2.942 r_mcangle_it 1.963 r_angle_refined_deg 1.474 r_mcbond_it 1.246 r_nbtor_refined 0.304
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.106 r_dihedral_angle_3_deg 12.691 r_dihedral_angle_4_deg 8.353 r_dihedral_angle_1_deg 6.948 r_scangle_it 3.959 r_scbond_it 2.942 r_mcangle_it 1.963 r_angle_refined_deg 1.474 r_mcbond_it 1.246 r_nbtor_refined 0.304 r_symmetry_vdw_refined 0.246 r_symmetry_hbond_refined 0.209 r_nbd_refined 0.207 r_xyhbond_nbd_refined 0.176 r_chiral_restr 0.098 r_bond_refined_d 0.012 r_gen_planes_refined 0.006 r_bond_other_d r_angle_other_deg r_gen_planes_other r_nbd_other r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcbond_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1799 Nucleic Acid Atoms Solvent Atoms 255 Heterogen Atoms 25
Software Software Software Name Purpose REFMAC refinement MOSFLM data reduction SCALEPACK data scaling MOLREP phasing