[English] 日本語
![](img/lk-miru.gif)
- PDB-1m77: Near Atomic Resolution Crystal Structure of an A-DNA Decamer d(CC... -
+
Open data
-
Basic information
Entry | Database: PDB / ID: 1m77 | ||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Title | Near Atomic Resolution Crystal Structure of an A-DNA Decamer d(CCCGATCGGG): Cobalt Hexammine Interactions with A-DNA | ||||||||||||||||||
![]() | 5'-D(*![]() DNA / A-DNA / Cobalt hexammine | Function / homology | COBALT HEXAMMINE(III) / DNA | ![]() Method | ![]() ![]() ![]() Ramakrishnan, B. / Sekharudu, C. / Pan, B.C. / Sundaralingam, M. | ![]() ![]() Title: Near-atomic resolution crystal structure of an A-DNA decamer d(CCCGATCGGG): cobalt hexammine interaction with A-DNA. Authors: Ramakrishnan, B. / Sekharudu, C. / Pan, B. / Sundaralingam, M. History |
|
-
Structure visualization
Structure viewer | Molecule: ![]() ![]() |
---|
-
Downloads & links
-
Download
PDBx/mmCIF format | ![]() | 15.5 KB | Display | ![]() |
---|---|---|---|---|
PDB format | ![]() | 8.9 KB | Display | ![]() |
PDBx/mmJSON format | ![]() | Tree view | ![]() | |
Others | ![]() |
-Validation report
Summary document | ![]() | 385.5 KB | Display | ![]() |
---|---|---|---|---|
Full document | ![]() | 385.8 KB | Display | |
Data in XML | ![]() | 3 KB | Display | |
Data in CIF | ![]() | 3.6 KB | Display | |
Arichive directory | ![]() ![]() | HTTPS FTP |
-Related structure data
Similar structure data |
---|
-
Links
-
Assembly
Deposited unit | ![]()
| ||||||||
---|---|---|---|---|---|---|---|---|---|
1 | ![]()
| ||||||||
Unit cell |
|
-
Components
#1: DNA chain | Mass: 3045.992 Da / Num. of mol.: 1 / Source method: obtained synthetically |
---|---|
#2: Chemical | ChemComp-NCO / |
#3: Water | ChemComp-HOH / |
-Experimental details
-Experiment
Experiment | Method: ![]() |
---|
-
Sample preparation
Crystal | Density Matthews: 1.91 Å3/Da / Density % sol: 35.5 % | ||||||||||||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Crystal grow | Temperature: 298 K / Method: vapor diffusion, hanging drop / pH: 6 Details: cobalt hexammine, cacodylate, pH 6.0, VAPOR DIFFUSION, HANGING DROP, temperature 298K | ||||||||||||||||||||||||||||||
Components of the solutions |
| ||||||||||||||||||||||||||||||
Crystal grow | *PLUS | ||||||||||||||||||||||||||||||
Components of the solutions | *PLUS
|
-Data collection
Diffraction | Mean temperature: 298 K |
---|---|
Diffraction source | Source: ![]() |
Detector | Type: NICOLET / Detector: AREA DETECTOR / Date: Sep 22, 1993 / Details: mirrors |
Radiation | Monochromator: graphite / Protocol: SINGLE WAVELENGTH / Monochromatic (M) / Laue (L): M / Scattering type: x-ray |
Radiation wavelength | Wavelength: 1.5418 Å / Relative weight: 1 |
Reflection | Resolution: 1.25→28 Å / Num. all: 7785 / Num. obs: 6929 / % possible obs: 90 % / Observed criterion σ(F): 1 / Observed criterion σ(I): 1 / Redundancy: 7.4 % / Rsym value: 0.055 |
Reflection shell | Resolution: 1.25→1.31 Å / Num. unique all: 433 |
Reflection | *PLUS % possible obs: 90 % / Num. measured all: 51067 / Rmerge(I) obs: 0.055 |
-
Processing
Software |
| ||||||||||||||||||||
---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|---|
Refinement | Method to determine structure: ![]() Starting model: fiber A-DNA Resolution: 1.25→8 Å / Isotropic thermal model: isotropic / σ(F): 2
| ||||||||||||||||||||
Refinement step | Cycle: LAST / Resolution: 1.25→8 Å
| ||||||||||||||||||||
LS refinement shell | Resolution: 1.25→1.31 Å /
| ||||||||||||||||||||
Refine LS restraints | *PLUS
|