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Crystal structure of Ara h 8.0201
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 6V8H
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8 298 0.1M HEPES, 2.0M Ammonium Sulfate, pH 8.0
Crystal Properties Matthews coefficient Solvent content 2.38 48.28
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 78.161 α = 94.13 b = 90.027 β = 106.91 c = 94.245 γ = 97.23
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 RAYONIX MX300-HS 2015-02-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 22-ID 1.0000 APS 22-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym I (Observed) Rrim I (All) Rpim I (All) 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 2.1 40 91.6 0.056 0.056 0.08 0.056 19.7 1.9 129928 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Rrim I (All) Rpim I (All) CC (Half) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 2.1 2.14 96.3 0.239 0.239 0.337 0.239 0.924 4.4 1.9
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-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 6V8H 2.1 38.09 123122 6331 91.52 0.2336 0.232 0.2392 0.2661 0.2738 RANDOM 38.003
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] 1.21 -0.82 0.05 -0.41 -2.4 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 39.785 r_dihedral_angle_3_deg 13.609 r_dihedral_angle_1_deg 7.15 r_angle_other_deg 2.284 r_angle_refined_deg 1.628 r_chiral_restr 0.08 r_bond_other_d 0.035 r_gen_planes_other 0.017 r_bond_refined_d 0.013 r_gen_planes_refined 0.009
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 18239 Nucleic Acid Atoms Solvent Atoms 1066 Heterogen Atoms 2147
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing Coot model building