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The rare crystallographic structure of d(CGCGCG)2: The natural spermidine molecule bound to the minor groove of left-handed Z-DNA d(CGCGCG)2 at 10 degree celsius
Analyse The rare crystallographic structure of d(CGCGCG)2: The natural spermidine… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ELG
- Type
- DNA
- Length
- 12 nucleotides
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1
- Molecule
- DNA (5'-D(*DCP*DGP*DCP*DGP*DCP*DG)-3')
- Ligands
- SPD, MG, NA
Structure
x-ray diffraction · resolution 1 · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | DNA (5'-D(*DCP*DGP*DCP*DGP*DCP*DG)-3') | dna | 6 | — | — |
Ligands and binding sites
- SPD · Spermidine · ligand
- 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 · 323 Ų buried · 24 hydrogen bonds · nucleic-nucleic
Compared structures
- 2ELG · The rare crystallographic structure of D(CGCGCG)2: the natural spermidine molecule bound… · 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 2ELG · PDBe 2ELG
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