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Crystal structure of the calcium-binding pollen allergen Che a 3
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1K9U pdb entry 1K9U
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 3.4 293 0.2 M ammonium sulfate, 22% PEG 4000, 0.1 M alanine/HCl, pH 3.4, VAPOR DIFFUSION, SITTING DROP, temperature 293K
Crystal Properties Matthews coefficient Solvent content 2.4 48.83
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 72.24 α = 90 b = 73.874 β = 90 c = 68.939 γ = 90
Symmetry Space Group P 21 21 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 ADSC QUANTUM 4 2002-10-06 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID14-4 ESRF ID14-4
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 1.75 30 97.9 0.057 18.1 7.8 37929 37132 1 1 24.7
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 1.75 1.81 84.5 0.283 3.2 3151
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 (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 pdb entry 1K9U 1.75 30 37132 33503 2815 95.87 0.20172 0.20172 0.19802 0.2044 0.24713 0.2509 RANDOM 25.066
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] -0.33 -1.47 1.8
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.423 r_dihedral_angle_4_deg 19.676 r_dihedral_angle_3_deg 14.654 r_dihedral_angle_1_deg 4.925 r_scangle_it 3.912 r_scbond_it 2.63 r_mcangle_it 1.758 r_angle_refined_deg 1.571 r_mcbond_it 1.162 r_angle_other_deg 0.956
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 27.423 r_dihedral_angle_4_deg 19.676 r_dihedral_angle_3_deg 14.654 r_dihedral_angle_1_deg 4.925 r_scangle_it 3.912 r_scbond_it 2.63 r_mcangle_it 1.758 r_angle_refined_deg 1.571 r_mcbond_it 1.162 r_angle_other_deg 0.956 r_mcbond_other 0.327 r_nbd_refined 0.244 r_symmetry_vdw_other 0.23 r_nbd_other 0.2 r_nbtor_refined 0.186 r_xyhbond_nbd_refined 0.171 r_symmetry_vdw_refined 0.151 r_metal_ion_refined 0.117 r_symmetry_hbond_refined 0.102 r_chiral_restr 0.101 r_nbtor_other 0.085 r_bond_refined_d 0.018 r_gen_planes_refined 0.007 r_bond_other_d 0.002 r_gen_planes_other 0.002
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 2575 Nucleic Acid Atoms Solvent Atoms 272 Heterogen Atoms 28
Software Software Software Name Purpose REFMAC refinement HKL-2000 data reduction HKL-2000 data scaling BEAST phasing