MolNFT v1 · #57165 · DNA
A novel end-to-end binding of two netropsins to the DNA decamer D(CCCCCIIIII)2
375D · DNA (5'-D(*CP*CP*CP*CP*CP*IP*IP*IP*IP*I)-3'): “A novel end-to-end binding of two netropsins to the DNA decamer D(CCCCCIIIII)2”. X-ray diffraction, 1 ligand (NT). MolNFT v1 #57165 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 375D
- Type
- DNA
- Length
- 40 nucleotides
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*CP*CP*CP*CP*CP*IP*IP*IP*IP*I)-3')
- Ligands
- NT
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | DNA (5'-D(*CP*CP*CP*CP*CP*IP*IP*IP*IP*I)-3') | dna | 10 | — | — |
Ligands and binding sites
- NT · Netropsin · ligand · 4 copies · chains A, B, C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
3 interfaces between chains.
- C–D · 421 Ų buried · 45 hydrogen bonds · nucleic-nucleic
- A–B · 417 Ų buried · 39 hydrogen bonds · nucleic-nucleic
- A–C · 70 Ų buried · 2 hydrogen bonds · nucleic-nucleic
Compared structures
- 375D · A novel end-to-end binding of two netropsins to the DNA decamer D(CCCCCIIIII)2 · 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 375D · PDBe 375D
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