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THE CRYSTAL STRUCTURE OF DER P 1 ALLERGEN COMPLEXED WITH FAB FRAGMENT OF MAB 5H8
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 3F5V 3F5V, 3RVT experimental model PDB 3RVT 3F5V, 3RVT
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 7 293 100 MM MES, 10% W/V PEG 6000, 5% MPD,
PH 7.0, VAPOR DIFFUSION, HANGING DROP, TEMPERATURE 293K
Crystal Properties Matthews coefficient Solvent content 2.3 46.44
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 47.743 α = 90 b = 73.263 β = 91.09 c = 200.34 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 ADSC QUANTUM 315r MIRRORS 2011-10-22 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 19-ID 0.97912 APS 19-ID
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) R Sym 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 3 50 99.9 0.165 0.165 10 4.1 28001 -3
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 3 3.05 100 0.653 0.653 2.3 4.2
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-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 3F5V, 3RVT 3 50 26581 1404 99.9 0.221 0.219 0.265 0.2332 RANDOM 50.05
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] 1.22 -1.27 -3.39 2.21
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.042 r_dihedral_angle_3_deg 17.636 r_dihedral_angle_4_deg 16.922 r_dihedral_angle_1_deg 5.676 r_long_range_B_refined 4.26 r_long_range_B_other 4.26 r_mcangle_it 2.696 r_scangle_other 2.154 r_mcangle_other 1.913 r_scbond_it 1.704
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 35.042 r_dihedral_angle_3_deg 17.636 r_dihedral_angle_4_deg 16.922 r_dihedral_angle_1_deg 5.676 r_long_range_B_refined 4.26 r_long_range_B_other 4.26 r_mcangle_it 2.696 r_scangle_other 2.154 r_mcangle_other 1.913 r_scbond_it 1.704 r_mcbond_it 1.547 r_mcbond_other 1.547 r_scbond_other 1.397 r_angle_other_deg 1.364 r_angle_refined_deg 1.247 r_chiral_restr 0.063 r_bond_refined_d 0.009 r_gen_planes_refined 0.005 r_bond_other_d 0.003 r_gen_planes_other 0.003 r_nbd_refined r_nbd_other r_nbtor_refined r_nbtor_other r_xyhbond_nbd_refined r_xyhbond_nbd_other r_metal_ion_refined r_metal_ion_other r_symmetry_vdw_refined r_symmetry_vdw_other r_symmetry_hbond_refined r_symmetry_hbond_other r_symmetry_metal_ion_refined r_symmetry_metal_ion_other r_scangle_it r_rigid_bond_restr r_sphericity_free r_sphericity_bonded
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 9748 Nucleic Acid Atoms Solvent Atoms 74 Heterogen Atoms 48
Software Software Software Name Purpose HKL-3000 data reduction HKL-3000 data scaling HKL-3000 phasing MOLREP phasing REFMAC refinement