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Amyloid forming segment, AVVTGVTAV, from the NAC domain of Parkinson's disease protein alpha-synuclein, residues 69-77
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other a geometrically ideal b-strand composed of nine alanine residues.
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, HANGING DROP 4.6 273 0.9M Ammonium Phosphate, 0.1M Sodium Acetate, pH 4.6, vapor diffusion, hanging drop, temperature 273K
Crystal Properties Matthews coefficient Solvent content 1.52 19.22
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 61.864 α = 90 b = 4.799 β = 104.13 c = 17.263 γ = 90
Symmetry Space Group C 1 2 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 315 2011-08-23 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 1.85 100 97.7 0.117 11.1 4.1 521 521 -3
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 1.85 1.92 97.7 0.248 4 43
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model 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 poly alanine 1.854 30 470 470 51 97.93 0.1802 0.1802 0.1758 0.1837 0.2211 0.2481 RANDOM 17.341
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] -0.23 -0.06 -0.02 0.25
RMS Deviations Key Refinement Restraint Deviation r_mcangle_it 8.406 r_dihedral_angle_1_deg 8.198 r_mcbond_it 5.852 r_mcbond_other 5.851 r_dihedral_angle_3_deg 5.082 r_angle_refined_deg 1.123 r_angle_other_deg 0.602 r_chiral_restr 0.049 r_bond_other_d 0.011 r_bond_refined_d 0.005
RMS Deviations Key Refinement Restraint Deviation r_mcangle_it 8.406 r_dihedral_angle_1_deg 8.198 r_mcbond_it 5.852 r_mcbond_other 5.851 r_dihedral_angle_3_deg 5.082 r_angle_refined_deg 1.123 r_angle_other_deg 0.602 r_chiral_restr 0.049 r_bond_other_d 0.011 r_bond_refined_d 0.005 r_gen_planes_refined 0.002 r_gen_planes_other
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 57 Nucleic Acid Atoms Solvent Atoms 3 Heterogen Atoms
Software Software Software Name Purpose SCALEPACK data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction DENZO data reduction