2HIL
Structure of the Neisseria gonorrhoeae Type IV pilus filament from x-ray crystallography and electron cryomicroscopy
ELECTRON MICROSCOPY
NMR Refinement | ||
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Method | Details | Software |
The GC pilus filament structure was built by computationally fitting a single GC pilin subunit (2HI2.pdb) into a cryoEM density map of the pilus filament (EMDB code xxx) using the program CoAn (Volkmann and Hanein, J. Struct. Biol., 125, 176-184, 1999), and then applying the symmetry operators defined by the cryoEM reconstruction (10.5 Angstrom rise and a 100.8 degree azimuthal rotation, Craig et al., Mol. Cell xxx, yyy, 2006) to the subunit. | CoAn |
Computation: NMR Software | ||||
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# | Classification | Version | Software Name | Author |
1 | refinement | CoAn |
Sample |
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N. gonorrhoeae Type IV pili |
Specimen Preparation | |
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Sample Aggregation State | FILAMENT |
Vitrification Instrument | FEI VITROBOT MARK I |
Cryogen Name | ETHANE |
Sample Vitrification Details | 5 ul of sample were applied to grids for 1 minute, blotted for 2.5 seconds then plunge-frozen in liquid ethane using an FEI Vitrobot |
3D Reconstruction | |
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Reconstruction Method | HELICAL |
Number of Particles | 25000 |
Reported Resolution (Å) | 12.5 |
Resolution Method | |
Other Details | |
Refinement Type | |
Symmetry Type | HELICAL |
Map-Model Fitting and Refinement | |||||
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Id | 1 (2HI2) | ||||
Refinement Space | REAL | ||||
Refinement Protocol | RIGID BODY FIT | ||||
Refinement Target | real-space density correlation coefficient | ||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | METHOD--CoAn REFINEMENT PROTOCOL--rigid body |
Data Acquisition | |||||||||
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Detector Type | KODAK SO-163 FILM | ||||||||
Electron Dose (electrons/Å**2) | 10 |
Imaging Experiment | 1 |
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Date of Experiment | 2004-06-23 |
Temperature (Kelvin) | 95 |
Microscope Model | FEI/PHILIPS CM200FEG |
Minimum Defocus (nm) | 1100 |
Maximum Defocus (nm) | 2500 |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | |
Nominal Magnification | 50000 |
Calibrated Magnification | |
Source | FIELD EMISSION GUN |
Acceleration Voltage (kV) | 120 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
MODEL FITTING | CoAn | |
RECONSTRUCTION | IHRSR |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
Wiener filter |