MolNFT v1 · #177255 · DNA
Crystal structure of D(G4C2)2-K in F222 space group
7ECH · DNA (5'-D(*GP*GP*GP*GP*CP*CP*GP*GP*GP*GP*CP*C)-3'): “Crystal structure of D(G4C2)2-K in F222 space group”. X-ray diffraction, 1 ligand (K), 1 pocket (best druggability 0.46). MolNFT v1 #177255 on GenesisL1: 3D structure, binding…
- PDB
- 7ECH
- Type
- DNA
- Length
- 36 nucleotides
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*GP*GP*GP*GP*CP*CP*GP*GP*GP*GP*CP*C)-3')
- Ligands
- K
- Pockets
- 1 · best druggability 0.46
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | DNA (5'-D(*GP*GP*GP*GP*CP*CP*GP*GP*GP*GP*CP*C)-3') | dna | 12 | — | — |
Ligands and binding sites
- K · Potassium ion · metal · 8 copies · chains A, C, 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 172 | 0.46 | 0.76 | 16 | empty |
Interfaces
3 interfaces between chains.
- B–C · 352 Ų buried · 31 hydrogen bonds · nucleic-nucleic
- A–C · 283 Ų buried · 7 hydrogen bonds · nucleic-nucleic
- A–B · 116 Ų buried · 3 hydrogen bonds · nucleic-nucleic
Compared structures
- 7ECH · Crystal Structure of d(G4C2)2-K in F222 space group · 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 7ECH · PDBe 7ECH
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