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Crystal Structure of peroxinitrite treated Major Birch Pollen Allergen Bet v 1.0101 (isoform a)
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 4A88 PDB ENTRY 4A88
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 6.5 pH 6.5
Crystal Properties Matthews coefficient Solvent content 1.9 35.19
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 32.4 α = 90 b = 54.55 β = 93.04 c = 37.61 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 2013-07-23 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON ESRF BEAMLINE ID29 ESRF ID29
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 1.47 37.56 97.1 0.05 9.3 3.1 21550
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 1.47 1.55 98 0.47 2.1 3.1
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 4A88 1.47 37.56 20428 1103 96.9 0.19009 0.18761 0.1906 0.23467 0.2348 RANDOM 21.133
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] -0.17 0.27 0.99 -0.79
RMS Deviations Key Refinement Restraint Deviation r_mcbond_other 91.487 r_dihedral_angle_2_deg 33.467 r_dihedral_angle_4_deg 24.288 r_sphericity_free 20.172 r_dihedral_angle_3_deg 13.08 r_mcangle_it 12.733 r_mcbond_it 9.663 r_sphericity_bonded 9.424 r_dihedral_angle_1_deg 5.445 r_rigid_bond_restr 2.372
RMS Deviations Key Refinement Restraint Deviation r_mcbond_other 91.487 r_dihedral_angle_2_deg 33.467 r_dihedral_angle_4_deg 24.288 r_sphericity_free 20.172 r_dihedral_angle_3_deg 13.08 r_mcangle_it 12.733 r_mcbond_it 9.663 r_sphericity_bonded 9.424 r_dihedral_angle_1_deg 5.445 r_rigid_bond_restr 2.372 r_angle_refined_deg 1.627 r_angle_other_deg 0.856 r_nbd_refined 0.393 r_symmetry_vdw_other 0.246 r_nbd_other 0.24 r_symmetry_vdw_refined 0.228 r_xyhbond_nbd_refined 0.194 r_nbtor_refined 0.176 r_chiral_restr 0.174 r_symmetry_hbond_refined 0.091 r_nbtor_other 0.088 r_bond_refined_d 0.006 r_bond_other_d 0.006 r_gen_planes_refined 0.004 r_gen_planes_other 0.001 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_it r_scbond_other r_scangle_it 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 1234 Nucleic Acid Atoms Solvent Atoms 73 Heterogen Atoms 8
Software Software Software Name Purpose REFMAC refinement iMOSFLM data reduction SCALA data scaling PHASER phasing