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PFA1 Fab fragment complexed with Abeta 1-8 peptide
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2IQ9 PDB ENTRY 2IQ9
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION 8.5 294 0.1 M Tris, 25% PEG3350, pH 8.5, VAPOR DIFFUSION, temperature 294K
Crystal Properties Matthews coefficient Solvent content 2.17 43.29
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 43.07 α = 72.32 b = 70.335 β = 86.08 c = 74.197 γ = 86.02
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 113 IMAGE PLATE RIGAKU RAXIS IV mirrors 2006-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ROTATING ANODE RIGAKU 1.54
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (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 1.65 23.53 90.7 0.055 3.1 90408
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R-Sym I (Observed) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.65 1.71 66.3 0.467 2.4 2.9
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 PDB ENTRY 2IQ9 1.65 23.53 90407 4515 90.53 0.184 0.182 0.2287 0.225 0.2579 RANDOM 14.361
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] 0.25 0.01 0.2 -0.01 -0.59 0.1
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.33 r_dihedral_angle_4_deg 18.75 r_dihedral_angle_3_deg 13.138 r_dihedral_angle_1_deg 6.564 r_scangle_it 2.613 r_scbond_it 1.954 r_angle_refined_deg 1.436 r_mcangle_it 1.234 r_mcbond_it 1.045 r_angle_other_deg 0.876
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 33.33 r_dihedral_angle_4_deg 18.75 r_dihedral_angle_3_deg 13.138 r_dihedral_angle_1_deg 6.564 r_scangle_it 2.613 r_scbond_it 1.954 r_angle_refined_deg 1.436 r_mcangle_it 1.234 r_mcbond_it 1.045 r_angle_other_deg 0.876 r_symmetry_vdw_other 0.252 r_nbd_other 0.2 r_mcbond_other 0.192 r_nbd_refined 0.188 r_nbtor_refined 0.174 r_symmetry_vdw_refined 0.17 r_symmetry_hbond_refined 0.146 r_xyhbond_nbd_refined 0.134 r_chiral_restr 0.087 r_nbtor_other 0.085 r_bond_refined_d 0.012 r_gen_planes_refined 0.005 r_bond_other_d 0.001 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 6846 Nucleic Acid Atoms Solvent Atoms 118 Heterogen Atoms 48
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction CrystalClear data collection HKL-2000 data reduction HKL-2000 data scaling MOLREP phasing