MolNFT v1 · #187375 · DNA
D(GA(CGA)5) parallel-stranded homo-duplex
7SB8: “D(GA(CGA)5) parallel-stranded homo-duplex”. X-ray diffraction, 3 ligands (NCO, SR, NA). MolNFT v1 #187375 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7SB8
- Type
- DNA
- Length
- 102 nucleotides
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- GA(CGA)5
- Ligands
- NCO, SR, NA
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, D, E, F, C | GA(CGA)5 | dna | 17 | — | — |
Ligands and binding sites
- NCO · Cobalt hexammine(iii) · ligand · 6 copies · chains A, B, D, C, E, F
- SR · Strontium ion · metal · 13 copies · chains A, B, D, E, F, C
- NA · Sodium ion · metal · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Interfaces
11 interfaces between chains.
- E–F · 1427 Ų buried · 101 hydrogen bonds · nucleic-nucleic
- A–B · 1426 Ų buried · 105 hydrogen bonds · nucleic-nucleic
- D–C · 1420 Ų buried · 102 hydrogen bonds · nucleic-nucleic
- D–E · 104 Ų buried · 1 hydrogen bond · nucleic-nucleic
- B–C · 104 Ų buried · 1 hydrogen bond · nucleic-nucleic
Compared structures
- 7SB8 · d(GA(CGA)5) parallel-stranded homo-duplex · 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 7SB8 · PDBe 7SB8
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