MolNFT v1 · #114364 · DNA
The primary mode of binding of cisplatin to a B-DNA dodecamer: C-G-C-G-a-a-T-T-C-G-C-G
5BNA · DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)- 3'): “The primary mode of binding of cisplatin to a B-DNA dodecamer: C-G-C-G-a-a-T-T-C-G-C-G”. X-ray diffraction, 1 ligand (PTN), 1 pocket (best druggability 0.28). MolNFT v1 #114364…
- PDB
- 5BNA
- Type
- DNA
- Length
- 24 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)- 3')
- Ligands
- PTN
- Pockets
- 1 · best druggability 0.28
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | DNA (5'-D(*CP*GP*CP*GP*AP*AP*TP*TP*CP*GP*CP*G)- 3') | dna | 12 | — | — |
Ligands and binding sites
- PTN · Platinum triamine ion · ligand · 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 68 | 0.28 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 571 Ų buried · 61 hydrogen bonds · nucleic-nucleic
Compared structures
- 5BNA · The primary mode of binding of cisplatin to a B-DNA dodecamer: C-G-C-G-a-a-T-T-C-G-C-G · 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 5BNA · PDBe 5BNA
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.