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Crystal structure of peanut major allergen ara h 3
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 295 0.1 M Sodium Acetate trihydrate, 8% PEG 4000, pH 4.6, VAPOR DIFFUSION, HANGING DROP, temperature 295K
Crystal Properties Matthews coefficient Solvent content 2.25 45.34
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 144.929 α = 90 b = 144.929 β = 90 c = 86.924 γ = 120
Symmetry Space Group P 63 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 110 CCD MARMOSAIC 300 mm CCD 2007-07-03 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0 APS 22-ID
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 1.73 50 98.8 0.117 14.4 10.2 55487 1.6
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1.73 1.79 90.7 1.61 5.7 5014
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method 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 Selection Details Mean Isotropic B X-RAY DIFFRACTION THROUGHOUT 1.73 41.63 52096 2631 92.76 0.189 0.186 0.1834 0.248 RANDOM 36.219
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] 0.71 0.35 0.71 -1.06
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.315 r_dihedral_angle_4_deg 20.704 r_dihedral_angle_3_deg 18.474 r_sphericity_free 11.021 r_sphericity_bonded 10.805 r_scangle_it 6.593 r_dihedral_angle_1_deg 6.55 r_scbond_it 4.489 r_mcangle_it 3.263 r_rigid_bond_restr 3.145
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.315 r_dihedral_angle_4_deg 20.704 r_dihedral_angle_3_deg 18.474 r_sphericity_free 11.021 r_sphericity_bonded 10.805 r_scangle_it 6.593 r_dihedral_angle_1_deg 6.55 r_scbond_it 4.489 r_mcangle_it 3.263 r_rigid_bond_restr 3.145 r_mcbond_it 2.194 r_angle_refined_deg 2.104 r_nbtor_refined 0.309 r_symmetry_hbond_refined 0.262 r_nbd_refined 0.226 r_symmetry_vdw_refined 0.219 r_chiral_restr 0.177 r_xyhbond_nbd_refined 0.168 r_bond_refined_d 0.026 r_gen_planes_refined 0.01
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 3277 Nucleic Acid Atoms Solvent Atoms 285 Heterogen Atoms 1
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data collection HKL-2000 data reduction HKL-2000 data scaling