Research workbench
Sodium ions and water molecules in the structure of poly D(A)(DOT)POLY D(T)
Analyse Sodium ions and water molecules in the structure of poly D(A)(DOT)POLY D(T) in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1PLY
- Type
- DNA
- Length
- 10 nucleotides
- Chains
- 2
- Method
- fiber diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(P*AP*AP*AP*AP*A)-3'); DNA (5'-D(P*TP*TP*TP*TP*T)-3')
- Ligands
- NA
Structure
fiber diffraction · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(P*AP*AP*AP*AP*A)-3') | dna | 5 | — | — |
| B | DNA (5'-D(P*TP*TP*TP*TP*T)-3') | dna | 5 | — | — |
Ligands and binding sites
- NA · Sodium ion · metal · 10 copies · 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 · 226 Ų buried · 10 hydrogen bonds · nucleic-nucleic
Compared structures
- 1PLY · Sodium ions and water molecules in the structure of poly D(A)(DOT)POLY D(T) · 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 1PLY · PDBe 1PLY
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