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MicroED structure of the segment, GVVHGVTTVA, from the A53T familial mutant of Parkinson's disease protein, alpha-synuclein residues 47-56
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details in silico model Other Ideal model
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 BATCH MODE 7 310 1 mg of synthetic peptide GVVHGVTTVA was dissolved in 200 microliters of 50 mM phosphate buffer pH 7.0 and 0.1% w/v DMSO and shaken overnight in an orbital mixing plate
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 17.93 α = 90 b = 4.71 β = 94.33 c = 33.03 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 electron 100 CMOS 2015-04-20 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 ELECTRON MICROSCOPE OTHER 0.0251
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) 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 1.41 16.5 86.9 0.236 0.264 4.62 3.7 1120 -3 22.483
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) R Merge I (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.41 1.48 58.5 0.78 0.895 1.08
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 Selection Details Mean Isotropic B ELECTRON CRYSTALLOGRAPHY MOLECULAR REPLACEMENT THROUGHOUT Ideal model 1.41 16.47 1006 112 86.73 0.2396 0.2347 0.2817 RANDOM 18.371
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] 1.08 0.01 -1.13 0.05
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 75.764 r_dihedral_angle_3_deg 6.335 r_dihedral_angle_1_deg 5.506 r_mcangle_it 5.296 r_mcbond_it 3.934 r_angle_other_deg 3.442 r_angle_refined_deg 1.977 r_mcbond_other 1.925 r_bond_other_d 0.154 r_chiral_restr 0.065
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 75.764 r_dihedral_angle_3_deg 6.335 r_dihedral_angle_1_deg 5.506 r_mcangle_it 5.296 r_mcbond_it 3.934 r_angle_other_deg 3.442 r_angle_refined_deg 1.977 r_mcbond_other 1.925 r_bond_other_d 0.154 r_chiral_restr 0.065 r_bond_refined_d 0.02 r_gen_planes_refined 0.006 r_gen_planes_other 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 66 Nucleic Acid Atoms Solvent Atoms 4 Heterogen Atoms
Software Software Software Name Purpose XSCALE data scaling PHASER phasing REFMAC refinement PDB_EXTRACT data extraction XDS data reduction Coot model building
Sample Human alpha-synuclein
Specimen Preparation Sample Aggregation State 3D ARRAY
3D Reconstruction Reconstruction Method CRYSTALLOGRAPHY
Imaging Experiment 1 Date of Experiment Temperature (Kelvin) Microscope Model FEI TECNAI F20 Minimum Defocus (nm) Maximum Defocus (nm) Minimum Tilt Angle (degrees) Maximum Tilt Angle (degrees) Nominal CS Imaging Mode DIFFRACTION Specimen Holder Model Nominal Magnification Calibrated Magnification Source FIELD EMISSION GUN Acceleration Voltage (kV) 200 Imaging Details