6N4C
EM structure of the DNA wrapping in bacterial open transcription initiation complex
ELECTRON MICROSCOPY
Sample |
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E. coli RNAP-DNA wrapped open complex |
Specimen Preparation | |
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Sample Aggregation State | PARTICLE |
Staining Type | NEGATIVE |
Staining Material | Uranyl Acetate |
Staining Details | Negatively stained EM specimens were prepared using a 2% uranyl acetate solution. |
3D Reconstruction | |
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Reconstruction Method | SINGLE PARTICLE |
Number of Particles | 16015 |
Reported Resolution (Å) | 17 |
Resolution Method | FSC 1/2 BIT CUT-OFF |
Other Details | |
Refinement Type | |
Symmetry Type | POINT |
Point Symmetry | C1 |
Map-Model Fitting and Refinement | |||||
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Id | 1 (4YLN) | ||||
Refinement Space | |||||
Refinement Protocol | OTHER | ||||
Refinement Target | |||||
Overall B Value | |||||
Fitting Procedure | |||||
Details | Initial fiting was done using manual fitting in Chimera. Yasara software was used for energy minimizaton of the DNA and RNAP coordinates model. |
Data Acquisition | |||||||||
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Detector Type | TVIPS TEMCAM-F416 (4k x 4k) | ||||||||
Electron Dose (electrons/Å**2) | 20 |
Imaging Experiment | 1 |
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Date of Experiment | |
Temperature (Kelvin) | |
Microscope Model | JEOL 2100 |
Minimum Defocus (nm) | |
Maximum Defocus (nm) | |
Minimum Tilt Angle (degrees) | |
Maximum Tilt Angle (degrees) | |
Nominal CS | |
Imaging Mode | BRIGHT FIELD |
Specimen Holder Model | |
Nominal Magnification | |
Calibrated Magnification | |
Source | LAB6 |
Acceleration Voltage (kV) | 200 |
Imaging Details |
EM Software | ||
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Task | Software Package | Version |
CTF CORRECTION | IMAGIC | |
MODEL FITTING | UCSF Chimera | |
INITIAL EULER ASSIGNMENT | IMAGIC | |
FINAL EULER ASSIGNMENT | IMAGIC | |
CLASSIFICATION | IMAGIC | |
RECONSTRUCTION | IMAGIC | |
Image Processing | ||||
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CTF Correction Type | CTF Correction Details | Number of Particles Selected | Particle Selection Details | |
PHASE FLIPPING ONLY | 60393 |