MolNFT v1 · #176241 · DNA
Novel motif for left-handed G-quadruplex formation
7DFY · 2XMOTIF2: “Novel motif for left-handed G-quadruplex formation”. X-ray diffraction, 2 ligands (K, SR), 1 pocket (best druggability 0.26). MolNFT v1 #176241 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7DFY
- Type
- DNA
- Length
- 52 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 2XMOTIF2
- Ligands
- K, SR
- Pockets
- 1 · best druggability 0.26
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | 2XMOTIF2 | dna | 26 | — | — |
Ligands and binding sites
- K · Potassium ion · metal · 11 copies · chains A, B
- SR · Strontium ion · metal · 9 copies · chains A, B
- MPD · (4S)-2-methyl-2,4-pentanediol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 66 | 0.26 | 0.73 | 15 | SR |
Interfaces
1 interface between chains.
- A–B · 294 Ų buried · 9 hydrogen bonds · nucleic-nucleic
Compared structures
- 7DFY · Novel motif for left-handed G-quadruplex formation · 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 7DFY · PDBe 7DFY
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