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High resolution structure of a cherry allergen Pru av 2
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 1THV PDB ENTRY 1THV
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 MICROBATCH 3.5 298 PEG 3350, citric acid, pH 3.5, Microbatch, temperature 298K
Crystal Properties Matthews coefficient Solvent content 2.1 44.1
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 44.288 α = 90 b = 41.15 β = 107.08 c = 58.946 γ = 90
Symmetry Space Group P 1 21 1
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 MARRESEARCH M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON EMBL/DESY, HAMBURG BEAMLINE X11 0.8126 EMBL/DESY, HAMBURG X11
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 1.3 16.69 100 0.051 28.6 3.8 49825
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.3 1.32 100 100 0.165 9.8 3.7
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 PDB ENTRY 1THV 1.3 16.69 42877 36754 2223 85.6 0.117 0.117 0.1492 0.146 0.1517 RANDOM 14.535
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]
RMS Deviations Key Refinement Restraint Deviation s_non_zero_chiral_vol 0.089 s_approx_iso_adps 0.083 s_zero_chiral_vol 0.082 s_anti_bump_dis_restr 0.07 s_from_restr_planes 0.033 s_similar_adp_cmpnt 0.033 s_angle_d 0.031 s_bond_d 0.013 s_rigid_bond_adp_cmpnt 0.004 s_similar_dist
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1630 Nucleic Acid Atoms Solvent Atoms 235 Heterogen Atoms
Software Software Software Name Purpose DENZO data reduction SCALEPACK data scaling MOLREP phasing SHELX refinement PDB_EXTRACT data extraction SHELXL-97 refinement