[English] 日本語
![](img/lk-miru.gif)
- PDB-7msv: Solution Structure of Berberine Bound to a dGMP Fill-in G-Quadrup... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 7msv | ||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Title | Solution Structure of Berberine Bound to a dGMP Fill-in G-Quadruplex in the PDGFR-b Promoter | ||||||||||||||||||||||||||||
![]() | DNA (5'-D(*![]() DNA / G-quadruplex / promoter / Guanine metabolite | Function / homology | BERBERINE / 2'-DEOXYGUANOSINE-5'-MONOPHOSPHATE / DNA / DNA (> 10) | ![]() Biological species | ![]() Method | SOLUTION NMR / molecular dynamics | ![]() Wang, K.B. / Dickerhoff, J. / Yang, D. | Funding support | | ![]()
![]() ![]() Title: Solution Structure of Ternary Complex of Berberine Bound to a dGMP-Fill-In Vacancy G-Quadruplex Formed in the PDGFR-beta Promoter. Authors: Wang, K.B. / Dickerhoff, J. / Yang, D. History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 147.6 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 121.2 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Arichive directory | ![]() ![]() | HTTPS FTP |
---|
-Related structure data
Similar structure data | |
---|---|
Other databases |
|
-
Links
-
Assembly
Deposited unit | ![]()
| |||||||||
---|---|---|---|---|---|---|---|---|---|---|
1 |
| |||||||||
NMR ensembles |
|
-
Components
#1: DNA chain | Mass: 6009.886 Da / Num. of mol.: 1 / Source method: obtained synthetically / Source: (synth.) ![]() | ||
---|---|---|---|
#2: Chemical | ChemComp-DGP / | ||
#3: Chemical | Has ligand of interest | Y | |
-Experimental details
-Experiment
Experiment | Method: SOLUTION NMR | ||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
NMR experiment |
|
-
Sample preparation
Details |
| ||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Sample |
| ||||||||||||||||||||||||
Sample conditions |
|
-NMR measurement
NMR spectrometer |
|
---|
-
Processing
NMR software |
| |||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method: molecular dynamics / Software ordinal: 4 | |||||||||||||||
NMR representative | Selection criteria: lowest energy | |||||||||||||||
NMR ensemble | Conformer selection criteria: structures with the lowest energy Conformers calculated total number: 100 / Conformers submitted total number: 10 |