[English] 日本語
![](img/lk-miru.gif)
- PDB-1dn6: THE CRYSTAL STRUCTURE OF D(GGATGGGAG). AN ESSENTIAL PART OF THE B... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1dn6 | ||||||
---|---|---|---|---|---|---|---|
Title | THE CRYSTAL STRUCTURE OF D(GGATGGGAG). AN ESSENTIAL PART OF THE BINDING SITE FOR TRANSCRIPTION FACTOR IIIA | ||||||
![]() |
| ||||||
![]() | DNA / A-DNA / DOUBLE HELIX | ||||||
Function / homology | DNA![]() | ||||||
Method | ![]() | ||||||
![]() | McCall, M. / Brown, T. / Hunter, W.N. / Kennard, O. | ||||||
![]() | ![]() Title: The crystal structure of d(GGATGGGAG): an essential part of the binding site for transcription factor IIIA. Authors: McCall, M. / Brown, T. / Hunter, W.N. / Kennard, O. | ||||||
History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 17.7 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 10.4 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 319.2 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 336.8 KB | Display | |
Data in XML | ![]() | 3.8 KB | Display | |
Data in CIF | ![]() | 4.9 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
---|
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 |
| ||||||||
Unit cell |
|
-
Components
#1: DNA chain | Mass: 2860.884 Da / Num. of mol.: 1 / Source method: obtained synthetically |
---|---|
#2: DNA chain | Mass: 2611.726 Da / Num. of mol.: 1 / Source method: obtained synthetically |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 2.32 Å3/Da / Density % sol: 46.92 % | ||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 293 K / Method: vapor diffusion / Details: VAPOR DIFFUSION, temperature 293.00K | ||||||||||||||||||||||||||||||||||||||||
Components of the solutions |
| ||||||||||||||||||||||||||||||||||||||||
Crystal grow | *PLUS pH: 6.5 / Method: vapor diffusion | ||||||||||||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Detector | Detector: DIFFRACTOMETER |
---|---|
Radiation | Scattering type: x-ray |
Radiation wavelength | Relative weight: 1 |
Reflection | Resolution: 2.7→25 Å / Num. all: 1786 / Num. obs: 1459 |
Reflection | *PLUS Highest resolution: 2.7 Å / Lowest resolution: 3 Å / Observed criterion σ(I): 1 / Num. measured all: 1786 |
Reflection shell | *PLUS |
-
Processing
Software | Name: NUCLSQ / Classification: refinement | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Resolution: 3→10 Å / σ(F): 0 /
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine Biso | Class: ALL ATOMS / Details: TF / Treatment: isotropic | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 3→10 Å
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints |
| |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refinement | *PLUS Highest resolution: 3 Å / Lowest resolution: 10 Å / Num. reflection all: 1032 / Rfactor all: 0.33 | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Solvent computation | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Displacement parameters | *PLUS | |||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||||
Refine LS restraints | *PLUS
|