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Crystal structures of novel monomeric monocot mannose-binding lectins from Gastrodia elata
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6.5 277 ammonium sulfate, MPD, MES, pH 6.5, VAPOR DIFFUSION, HANGING DROP, temperature 277.0K
Crystal Properties Matthews coefficient Solvent content 2.88 56.97
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.07 α = 90 b = 97.48 β = 90 c = 36.12 γ = 90
Symmetry Space Group C 2 2 21
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 298 DIFFRACTOMETER WEISSENBERG 2001-04-15 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON PHOTON FACTORY BEAMLINE BL-6B 0.98 Photon Factory BL-6B
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Sym 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 18.93 95.5 0.067 7.1 9647 9217 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 2 2.07 91.4
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Cut-off Sigma (F) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 2 18.93 2 9092 8143 948 100 0.218 0.20267 0.19856 0.1999 0.23829 0.24 RANDOM 25.504
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] 1.55 -0.8 -0.75
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.215 r_scangle_it 3.137 r_scbond_it 1.959 r_mcangle_it 1.495 r_angle_refined_deg 1.297 r_mcbond_it 0.8 r_symmetry_hbond_refined 0.46 r_symmetry_vdw_refined 0.235 r_nbd_refined 0.198 r_xyhbond_nbd_refined 0.132
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_1_deg 6.215 r_scangle_it 3.137 r_scbond_it 1.959 r_mcangle_it 1.495 r_angle_refined_deg 1.297 r_mcbond_it 0.8 r_symmetry_hbond_refined 0.46 r_symmetry_vdw_refined 0.235 r_nbd_refined 0.198 r_xyhbond_nbd_refined 0.132 r_chiral_restr 0.096 r_bond_refined_d 0.01 r_gen_planes_refined 0.004 r_bond_other_d r_angle_other_deg r_dihedral_angle_2_deg r_dihedral_angle_3_deg r_dihedral_angle_4_deg r_gen_planes_other r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_other r_symmetry_hbond_other r_mcbond_other r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 846 Nucleic Acid Atoms Solvent Atoms 43 Heterogen Atoms 5
Software Software Software Name Purpose REFMAC refinement DENZO data reduction SCALEPACK data scaling AMoRE phasing