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Polymorphic form 2 of amyloid-beta derived peptide - IFAEDV
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other 5-residue beta strand
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 5 298 Reservoir contained 20% PEG 4000, 0.1M Sodium Citrate pH 5.6 and 20% Isopropanol
Crystal Properties Matthews coefficient Solvent content 1.48 16.77
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 39.52 α = 90 b = 9.542 β = 90 c = 43.439 γ = 90
Symmetry Space Group P 21 21 21
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 2014-12-07 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON APS BEAMLINE 24-ID-E 0.9791 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 1.45 29.23 99.8 0.158 8.99 5.4 3593
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 5 residue beta strand 1.45 29.23 2936 310 99.14 0.1253 0.1239 0.1243 0.1384 0.1414 RANDOM 7.477
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] -0.01 0.04 -0.02
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.956 r_dihedral_angle_3_deg 10.993 r_dihedral_angle_1_deg 8.451 r_angle_refined_deg 2.203 r_angle_other_deg 0.855 r_mcangle_it 0.744 r_mcbond_it 0.5 r_mcbond_other 0.49 r_chiral_restr 0.134 r_bond_refined_d 0.023
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 34.956 r_dihedral_angle_3_deg 10.993 r_dihedral_angle_1_deg 8.451 r_angle_refined_deg 2.203 r_angle_other_deg 0.855 r_mcangle_it 0.744 r_mcbond_it 0.5 r_mcbond_other 0.49 r_chiral_restr 0.134 r_bond_refined_d 0.023 r_gen_planes_refined 0.014 r_bond_other_d 0.003 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 196 Nucleic Acid Atoms Solvent Atoms 17 Heterogen Atoms 4
Software Software Software Name Purpose REFMAC refinement PDB_EXTRACT data extraction XDS data reduction SCALEPACK data scaling PHASER phasing