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Human Islet Amyloid Polypeptide Segment 15-FLVHSSNNFGA-25 Determined by MicroED
ELECTRON CRYSTALLOGRAPHY
Crystallization
Crystalization Experiments
ID
Method
pH
Temperature
Details
1
VAPOR DIFFUSION, HANGING DROP
277
2 uL 20 mg/mL FLVHSSNNFGA + 1 uL 35% MPD, 0.35 M sodium thiocyanate against a reservoir of 35% MPD, 0.35 M sodium thiocyanate. Crystals appeared within several hours.
Crystal Data
Unit Cell
Length ( Å )
Angle ( ˚ )
a = 11.68
α = 62.84
b = 18.18
β = 88.9
c = 19.93
γ = 87.6
Symmetry
Space Group
P 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
TVIPS F416 CMOS CAMERA
2014-11-04
M
SINGLE WAVELENGTH
Radiation Source
ID #
Source
Type
Wavelength List
Synchrotron Site
Beamline
1
ELECTRON MICROSCOPE
TECNAI F20 TEM
0.0251
Data Collection
Overall
ID #
Resolution (High)
Resolution (Low)
Percent Possible (Observed)
R Merge I (Observed)
Rrim I (All)
CC (Half)
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
1.4
17.733
75
0.193
0.215
0.985
4.33
2180
-3
7.76
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
1.4
1.44
35.3
0.505
0.648
1.1
Refinement
Statistics
Diffraction ID
Structure Solution Method
Cross Validation method
Resolution (High)
Resolution (Low)
Cut-off Sigma (F)
Number Reflections (Observed)
Number Reflections (R-Free)
Percent Reflections (Observed)
R-Factor (Observed)
R-Work (Depositor)
R-Free (Depositor)
Mean Isotropic B
ELECTRON CRYSTALLOGRAPHY
MOLECULAR REPLACEMENT
NONE
1.4
9.749
2.01
2177
218
75.56
0.2287
0.2247
0.259
9.0302
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]
RMS Deviations
Key
Refinement Restraint Deviation
f_dihedral_angle_d
12.17
f_angle_d
1.216
f_chiral_restr
0.047
f_bond_d
0.008
f_plane_restr
0.004
Non-Hydrogen Atoms Used in Refinement
Non-Hydrogen Atoms
Number
Protein Atoms
170
Nucleic Acid Atoms
Solvent Atoms
6
Heterogen Atoms
3
Software
Software
Software Name
Purpose
XSCALE
data scaling
PHASER
phasing
PHENIX
refinement
PDB_EXTRACT
data extraction
Sample
Amyloid fiber
Specimen Preparation
Sample Aggregation State
3D ARRAY
Vitrification Instrument
Cryogen Name
ETHANE
Sample Vitrification Details
3D Reconstruction
Reconstruction Method
CRYSTALLOGRAPHY
Number of Particles
Reported Resolution (Å)
1.4
Resolution Method
DIFFRACTION PATTERN/LAYERLINES
Other Details
Refinement Type
Symmetry Type
3D CRYSTAL
Space Group Name
Length a
11.68
Length b
18.18
Length c
18.18
Angle Alpha
87.6
Angle Beta
88.9
Angle Gamma
87.6
Map-Model Fitting and Refinement
Id
1
Refinement Space
RECIPROCAL
Refinement Protocol
OTHER
Refinement Target
maximum likelihood
Overall B Value
9.03
Fitting Procedure
Details
Data Acquisition
Detector Type
TVIPS TEMCAM-F416 (4k x 4k)
Electron Dose (electrons/Å**2)
0.01
Imaging Experiment
1
Date of Experiment
Temperature (Kelvin)
Microscope Model
FEI TECNAI 20
Minimum Defocus (nm)
Maximum Defocus (nm)
Minimum Tilt Angle (degrees)
Maximum Tilt Angle (degrees)
Nominal CS
Imaging Mode
DIFFRACTION
Specimen Holder Model
GATAN 626 SINGLE TILT LIQUID NITROGEN CRYO TRANSFER HOLDER