+
Open data
-
Basic information
Entry | Database: PDB / ID: 4xw0 | ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Title | Crystal structure of (GCCU(G-LNA)CCUGC)2 duplex | ||||||||||||||||||||||||||||
![]() | RNA (5'-R(*![]() RNA / CCUG repeats / RNA duplex / Myotonic Dystrophy type 2 / tautomery / LNA residue / 3' overhanging nucleotides | Function / homology | RNA | ![]() Biological species | ![]() Method | ![]() ![]() ![]() ![]() Kiliszek, A. / Banaszak, K. / Rypniewski, W. | Funding support | | ![]()
![]() ![]() Title: Watson-Crick-like pairs in CCUG repeats: evidence for tautomeric shifts or protonation. Authors: Rypniewski, W. / Banaszak, K. / Kulinski, T. / Kiliszek, A. History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 22.1 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 14.1 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Related structure data | ![]() 4xw1C ![]() 3glpS S: Starting model for refinement C: citing same article ( |
---|---|
Similar structure data |
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: RNA chain | Mass: 3140.910 Da / Num. of mol.: 2 / Source method: obtained synthetically / Details: RNA oligomer / Source: (synth.) ![]() #2: Chemical | #3: Water | ChemComp-HOH / | |
---|
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.32 Å3/Da / Density % sol: 46.98 % |
---|---|
Crystal grow | Temperature: 292 K / Method: vapor diffusion, sitting drop Details: 40 mM magnesium sulphate, HEPES and 1.3 M lithium sulphate PH range: 7 |
-Data collection
Diffraction | Mean temperature: 100 K |
---|---|
Diffraction source | Source: ![]() ![]() ![]() |
Detector | Type: MAR CCD 165 mm / Detector: CCD / Date: Jul 7, 2013 |
Radiation | Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 0.91841 Å / Relative weight: 1 |
Reflection | Resolution: 1.81→27 Å / Num. obs: 5249 / % possible obs: 99.6 % / Redundancy: 6.7 % / Biso Wilson estimate: 40.3 Å2 / Rmerge(I) obs: 0.057 / Net I/σ(I): 17.66 |
Reflection shell | Resolution: 1.81→1.92 Å / Redundancy: 6.6 % / Rmerge(I) obs: 1.355 / Mean I/σ(I) obs: 1.96 / % possible all: 99.1 |
-
Processing
Software |
| |||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: 3GLP Resolution: 1.81→26.91 Å / Cross valid method: FREE R-VALUE / σ(F): 1.37 / Phase error: 36.36 / Stereochemistry target values: TWIN_LSQ_F
| |||||||||||||||||||||||||||||||||||
Solvent computation | Shrinkage radii: 0.9 Å / VDW probe radii: 1.11 Å / Solvent model: FLAT BULK SOLVENT MODEL | |||||||||||||||||||||||||||||||||||
Displacement parameters | Biso mean: 47.3 Å2 | |||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.81→26.91 Å
| |||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||
LS refinement shell |
|