1JQT
Fitting of L11 protein in the low resolution cryo-EM map of E.coli 70S ribosome
ELECTRON MICROSCOPY
| NMR Refinement | ||
|---|---|---|
| Method | Details | Software |
| Molecular Modeling based on crystal structures | Conformational changes occur in protein L11 when it is bound to 70S ribosome. This changed conformation was modeled based on the fitting of the crystal coordinates to the low resolution ribosome map and energy minimizing the fitted structures. | IRIS Explorer |
| Additional NMR Experimental Information | |
|---|---|
| Details | This structure was generated by fitting the X-ray crystal structure of L11 into the 70S E. coli ribosome map. L11 (linker region between N and C terminal) was modeled to accommodate the observed densities. |
| Computation: NMR Software | ||||
|---|---|---|---|---|
| # | Classification | Version | Software Name | Author |
| 1 | data analysis | IRIS Explorer | 3.5 | Numerical Algorithms Group, Inc |
| 2 | data analysis | O | 5.10 | Jones, Zou, Cowan, Kjeldgaard |
| 3 | processing | SPIDER | 4.48 | Frank |
| 4 | data analysis | Insight II | 1998 | Biosym/MSI Inc. |
| Sample |
|---|
| 70S ribosome |
| Specimen Preparation | |
|---|---|
| Sample Aggregation State | PARTICLE |
| 3D Reconstruction | |
|---|---|
| Reconstruction Method | SINGLE PARTICLE |
| Number of Particles | 36113 |
| Reported Resolution (Å) | 18 |
| Resolution Method | FSC 0.5 CUT-OFF |
| Other Details | |
| Refinement Type | |
| Symmetry Type | POINT |
| Point Symmetry | C1 |
| Map-Model Fitting and Refinement | |||||
|---|---|---|---|---|---|
| Id | 1 | ||||
| Refinement Space | REAL | ||||
| Refinement Protocol | OTHER | ||||
| Refinement Target | VISUAL AGREEMENT | ||||
| Overall B Value | |||||
| Fitting Procedure | |||||
| Details | REFINEMENT PROTOCOL--MANUAL DETAILS--This structure was generated by fitting the X-ray crystal structure of L11 into the 70S E. coli ribosome map. L1 ... | ||||
| Data Acquisition | |||||||||
|---|---|---|---|---|---|---|---|---|---|
| Detector Type | GENERIC FILM | ||||||||
| Electron Dose (electrons/Å**2) | 10 | ||||||||
| Imaging Experiment | 1 |
|---|---|
| Date of Experiment | |
| Temperature (Kelvin) | |
| Microscope Model | FEI/PHILIPS EM420 |
| Minimum Defocus (nm) | |
| Maximum Defocus (nm) | |
| Minimum Tilt Angle (degrees) | |
| Maximum Tilt Angle (degrees) | |
| Nominal CS | |
| Imaging Mode | BRIGHT FIELD |
| Specimen Holder Model | GATAN LIQUID NITROGEN |
| Nominal Magnification | 52000 |
| Calibrated Magnification | |
| Source | OTHER |
| Acceleration Voltage (kV) | |
| Imaging Details |
