MolNFT v1 · #7267 · DNA
Nicked decamer DNA with PEG6 tether, NMR, 30 structures
1G1N · 5'-D(P*GP*CP*GP*TP*T)-3': “Nicked decamer DNA with PEG6 tether, NMR, 30 structures”. Solution nmr, 1 ligand (PE6). MolNFT v1 #7267 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 1G1N
- Type
- DNA
- Length
- 20 nucleotides
- Chains
- 3
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(P*GP*CP*GP*TP*T)-3'; 5'-D(*GP*TP*CP*GP*C)-3'; 5'-D(P*GP*CP*GP*AP*CP*AP*AP*CP*GP*C)-3'
- Ligands
- PE6
Structure
solution nmr · 3 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 5'-D(P*GP*CP*GP*TP*T)-3' | dna | 5 | — | — |
| B | 5'-D(*GP*TP*CP*GP*C)-3' | dna | 5 | — | — |
| C | 5'-D(P*GP*CP*GP*AP*CP*AP*AP*CP*GP*C)-3' | dna | 10 | — | — |
Ligands and binding sites
- PE6 · Phosphoryl-hexaethylene glycol · ligand · 2 copies · chains A, C, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
3 interfaces between chains.
- B–C · 315 Ų buried · 30 hydrogen bonds · nucleic-nucleic
- A–C · 238 Ų buried · 27 hydrogen bonds · nucleic-nucleic
- A–B · 43 Ų buried · 1 hydrogen bond · nucleic-nucleic
Modifications
Observed in the structure: 4 covalent (covalent ligand).
Compared structures
- 1G1N · Nicked decamer DNA with PEG6 tether, NMR, 30 structures · 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 1G1N · PDBe 1G1N
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