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Structure of an amyloid forming peptide KLVFFA from amyloid beta in complex with orange G
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 291 reservoir contained 30% w/v Polyethylene glycol 1,500, 20% v/v Glycerol, vapor diffusion, hanging drop, temperature 291K 2 VAPOR DIFFUSION, HANGING DROP 291 reservoir contained 10% w/v Polyethylene glycol 1,500, 30% v/v Glycerol, vapor diffusion, hanging drop, temperature 291K
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 9.536 α = 62.28 b = 26.008 β = 88.59 c = 25.803 γ = 88.45
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 315 2008-11-16 M SINGLE WAVELENGTH 2 2 x-ray 100 CCD ADSC QUANTUM 315 2009-11-13 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.9792 APS 24-ID-E 2 SYNCHROTRON APS BEAMLINE 24-ID-E 0.9792 APS 24-ID-E
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 1,2 1.8 90 91.5 0.189 8.2 3.8 1870 1870 -3 22.6
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) 1,2 1.8 1.94 71.7 0.414 1.7 304
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Resolution (High) Resolution (Low) Number Reflections (All) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (All) 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 1.8 23.02 1864 1864 172 91.87 0.2067 0.2067 0.2054 0.2093 0.2195 0.2197 RANDOM 16.4603
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] -0.3 -0.07 0.03 -0.1 -0.11 0.52
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.05 r_dihedral_angle_3_deg 17.862 r_dihedral_angle_1_deg 6.107 r_scangle_it 5.097 r_scbond_it 3.191 r_mcangle_it 2.11 r_angle_refined_deg 1.69 r_mcbond_it 1.214 r_angle_other_deg 0.69 r_mcbond_other 0.26
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 37.05 r_dihedral_angle_3_deg 17.862 r_dihedral_angle_1_deg 6.107 r_scangle_it 5.097 r_scbond_it 3.191 r_mcangle_it 2.11 r_angle_refined_deg 1.69 r_mcbond_it 1.214 r_angle_other_deg 0.69 r_mcbond_other 0.26 r_chiral_restr 0.091 r_bond_refined_d 0.011 r_gen_planes_refined 0.007 r_bond_other_d 0.005 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 208 Nucleic Acid Atoms Solvent Atoms 11 Heterogen Atoms 54
Software Software Software Name Purpose SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction ADSC data collection DENZO data reduction