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Crystal Structure of a novel form of mistletoe lectin from Himalayan Viscum album L. at 3.8A resolution
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1CE7
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 6 293 Ammonium Sulphate, pH 6, VAPOR DIFFUSION, HANGING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 4.91 74.95
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 109.182 α = 90 b = 109.182 β = 90 c = 309.44 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 290 IMAGE PLATE MARRESEARCH mirrors 2001-03-08 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) 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 3.8 32.44 99.5 0.179 6.1 7.9 11420 11420
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3.8 3.94 99.5 0.517 2.1
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 1CE7 3.8 20 11420 10779 641 100 0.23074 0.22843 0.222 0.27106 0.2323 RANDOM 59.322
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] 1.78 0.89 1.78 -2.67
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 21.065 r_scangle_it 6.33 r_dihedral_angle_1_deg 4.854 r_scbond_it 3.362 r_mcangle_it 2.444 r_angle_refined_deg 2.338 r_angle_other_deg 1.941 r_mcbond_it 1.239 r_nbtor_other 0.629 r_symmetry_hbond_refined 0.415
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 21.065 r_scangle_it 6.33 r_dihedral_angle_1_deg 4.854 r_scbond_it 3.362 r_mcangle_it 2.444 r_angle_refined_deg 2.338 r_angle_other_deg 1.941 r_mcbond_it 1.239 r_nbtor_other 0.629 r_symmetry_hbond_refined 0.415 r_nbd_refined 0.315 r_nbd_other 0.299 r_symmetry_vdw_other 0.205 r_xyhbond_nbd_refined 0.19 r_symmetry_vdw_refined 0.16 r_xyhbond_nbd_other 0.153 r_chiral_restr 0.152 r_bond_refined_d 0.024 r_gen_planes_refined 0.006 r_gen_planes_other 0.005 r_bond_other_d 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3813 Nucleic Acid Atoms Solvent Atoms 13 Heterogen Atoms 109
Software Software Software Name Purpose REFMAC refinement MAR345 data collection SCALEPACK data scaling AMoRE phasing