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Crystal Structure of native Birch Pollen Allergen Bet v 1 isoform j
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4A80 PDB ENTRY 4A80
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 7 pH 7
Crystal Properties Matthews coefficient Solvent content 1.97 37.7
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.66 α = 90 b = 55.69 β = 93.8 c = 38.05 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 MARMOSAIC 225 mm CCD MIRRORS 2010-08-11 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 BESSY 14.1
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 1.16 18.98 98.1 0.04 17 3.6 46196
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 1.16 1.22 88.1 0.14 7.3 3.2
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 PDB ENTRY 4A80 1.16 37.97 43861 2318 98.13 0.12048 0.11902 0.131 0.14867 0.1601 RANDOM 11.008
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] -0.16 -0.03 0.18 -0.03
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.98 r_dihedral_angle_4_deg 35.189 r_sphericity_free 32.767 r_scangle_it 16.388 r_dihedral_angle_3_deg 11.758 r_scbond_it 11.663 r_mcangle_it 9.009 r_sphericity_bonded 8.995 r_mcbond_it 6.791 r_dihedral_angle_1_deg 5.546
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 38.98 r_dihedral_angle_4_deg 35.189 r_sphericity_free 32.767 r_scangle_it 16.388 r_dihedral_angle_3_deg 11.758 r_scbond_it 11.663 r_mcangle_it 9.009 r_sphericity_bonded 8.995 r_mcbond_it 6.791 r_dihedral_angle_1_deg 5.546 r_mcbond_other 3.381 r_rigid_bond_restr 2.293 r_angle_refined_deg 1.576 r_angle_other_deg 1.098 r_symmetry_vdw_refined 0.303 r_nbd_refined 0.249 r_symmetry_vdw_other 0.237 r_nbd_other 0.197 r_chiral_restr 0.191 r_nbtor_refined 0.181 r_symmetry_hbond_refined 0.172 r_xyhbond_nbd_refined 0.155 r_nbtor_other 0.09 r_bond_refined_d 0.01 r_gen_planes_refined 0.006 r_bond_other_d 0.002 r_gen_planes_other 0.002 r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_mcangle_other r_scbond_other r_scangle_other r_long_range_B_refined r_long_range_B_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1224 Nucleic Acid Atoms Solvent Atoms 207 Heterogen Atoms 78
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing