Download MendeleyLeft-handed DNA duplex containing consecutive G-G base pairs
Kondo, J.To be published.
7YVX
Left-handed DNA duplex containing consecutive G-G base pairs
- PDB DOI: https://doi.org/10.2210/pdb7YVX/pdb
- NAKB: 7YVX
- Classification: DNA
- Organism(s): synthetic construct
- Mutation(s): No
- Deposited: 2022-08-19 Released: 2022-10-12
- Funding Organization(s): Ministry of Education, Culture, Sports, Science and Technology (Japan)
Experimental Data Snapshot
- Method: X-RAY DIFFRACTION
- Resolution: 2.99 Å
- R-Value Free: 0.255
- R-Value Work: 0.195
- R-Value Observed: 0.201
wwPDB Validation 3D Report Full Report
This is version 1.1 of the entry. See complete history.
Literature
Macromolecules
Find similar nucleic acids by: Sequence | 3D Structure
Entity ID: 1 | |||||
|---|---|---|---|---|---|
| Molecule | Chains | Length | Organism | Image | |
| DNA (5'-D(*CP*GP*(CBR)P*GP*GP*GP*CP*GP*CP*G)-3') | 10 | synthetic construct |  | ||
Sequence AnnotationsExpand | |||||
| |||||
Small Molecules
| Ligands 1 Unique | |||||
|---|---|---|---|---|---|
| ID | Chains | Name / Formula / InChI Key | 2D Diagram | 3D Interactions | |
| CO Query on CO | B [auth A], C [auth A], D [auth A] | COBALT (II) ION Co XLJKHNWPARRRJB-UHFFFAOYSA-N |  | ||
Experimental Data & Validation
Experimental Data
- Method: X-RAY DIFFRACTION
- Resolution: 2.99 Å
- R-Value Free: 0.255
- R-Value Work: 0.195
- R-Value Observed: 0.201
- Space Group: P 64 2 2
Unit Cell:
| Length ( Å ) | Angle ( ˚ ) |
|---|---|
| a = 43.375 | α = 90 |
| b = 43.375 | β = 90 |
| c = 71.998 | γ = 120 |
| Software Name | Purpose |
|---|---|
| XSCALE | data scaling |
| PHENIX | refinement |
| PDB_EXTRACT | data extraction |
| XDS | data reduction |
| PHASER | phasing |
Entry History & Funding Information
Deposition Data
- Released Date: 2022-10-12 Deposition Author(s): Kondo, J.
| Funding Organization | Location | Grant Number |
|---|---|---|
| Ministry of Education, Culture, Sports, Science and Technology (Japan) | Japan | 21H01956 |
Revision History (Full details and data files)
- Version 1.0: 2022-10-12
Type: Initial release - Version 1.1: 2024-05-29
Changes: Data collection
