Research workbench
2-hydroxy-7-nitrofluorene covalently linked into a 13MER DNA duplex - solution structure of the face-up orientation
Analyse 2-hydroxy-7-nitrofluorene covalently linked into a 13MER DNA duplex - solution… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2KH1
- Type
- DNA
- Length
- 26 nucleotides
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-D(*GP*CP*TP*GP*CP*AP*(3DR)P*AP*CP*GP*TP*CP*G)-3'…
- Ligands
- HNF
Structure
solution nmr · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | 5'-D(*GP*CP*TP*GP*CP*AP*(3DR)P*AP*CP*GP*TP*CP*G)-3' | dna | 13 | — | — |
| B | 5'-D(*CP*GP*AP*CP*GP*TP*(3DR)P*TP*GP*CP*AP*GP*C)-3' | dna | 13 | — | — |
Ligands and binding sites
- HNF · 7-nitro-9H-fluoren-2-ol · ligand · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 580 Ų buried · 84 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 2 modified, 1 covalent (nucleotide modification, covalent ligand).
Compared structures
- 2KH1 · 2-Hydroxy-7-nitrofluorene covalently linked into a 13mer DNA duplex - solution structure… · 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 2KH1 · PDBe 2KH1
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