Research workbench
13mer-co
Analyse 13mer-co in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1ZJG
- Type
- DNA
- Length
- 26 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 3
- Molecule
- 5'-D(*AP*TP*GP*GP*GP*GP*CP*GP*GP*GP*GP*CP*T)-3'…
- Ligands
- NCO
- Pockets
- 1 · best druggability 0.51
Structure
x-ray diffraction · resolution 3 · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 5'-D(*AP*TP*GP*GP*GP*GP*CP*GP*GP*GP*GP*CP*T)-3' | dna | 13 | — | — |
| B | 5'-D(*TP*AP*GP*CP*CP*CP*CP*GP*CP*CP*CP*CP*A)-3' | dna | 13 | — | — |
Ligands and binding sites
- NCO · Cobalt hexammine(iii) · ligand · chains A, B
- PG4 · Tetraethylene glycol · additive · 3 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 331 | 0.51 | 0.73 | 19 | NCO, PG4 |
Interfaces
1 interface between chains.
- A–B · 593 Ų buried · 76 hydrogen bonds · nucleic-nucleic
Compared structures
- 1ZJG · 13MER-CO · the same entry in another collection · chain A against A, TM-score 1.00
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Elsewhere: RCSB PDB 1ZJG · PDBe 1ZJG
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