MolNFT v1 · #30475 · DNA
Interaction between the left-handed Z-DNA and polyamine-2: the crystal structure of the D(CG)3 and spermidine complex
293D · DNA (5'-D(*CP*GP*CP*GP*CP*G)-3'): “Interaction between the left-handed Z-DNA and polyamine-2: the crystal structure of the D(CG)3 and spermidine…”. X-ray diffraction, 3 ligands (SPD, MG, NA). MolNFT v1 #30475 on GenesisL1: 3D…
- PDB
- 293D
- Type
- DNA
- Length
- 12 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*CP*GP*CP*GP*CP*G)-3')
- Ligands
- SPD, MG, NA
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | DNA (5'-D(*CP*GP*CP*GP*CP*G)-3') | dna | 6 | — | — |
Ligands and binding sites
- SPD · Spermidine · ligand · chains A
- MG · Magnesium ion · metal · 3 copies · chains A, B
- NA · Sodium ion · metal · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
1 interface between chains.
- A–B · 322 Ų buried · 19 hydrogen bonds · nucleic-nucleic
Compared structures
- 293D · Interaction between the left-handed Z-DNA and polyamine-2: the crystal structure of the… · 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 293D · PDBe 293D
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