Research workbench
Structure of centromeric satellite III non-canonical duplex
Analyse Structure of centromeric satellite III non-canonical duplex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7JLH
- Type
- DNA
- Length
- 30 nucleotides
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA aatgg
- Ligands
- MG
- Pockets
- 1 · best druggability 0.53
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D, E, F | DNA aatgg | dna | 5 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 316 | 0.53 | 0.75 | 25 | MG |
Interfaces
6 interfaces between chains.
- A–B · 318 Ų buried · 19 hydrogen bonds · nucleic-nucleic
- C–D · 308 Ų buried · 23 hydrogen bonds · nucleic-nucleic
- E–F · 282 Ų buried · 18 hydrogen bonds · nucleic-nucleic
- B–D · 80 Ų buried · 4 hydrogen bonds · nucleic-nucleic
- B–C · 28 Ų buried · 0 hydrogen bonds · nucleic-nucleic
Compared structures
- 7JLH · Structure of Centromeric Satellite III Non-canonical 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 7JLH · PDBe 7JLH
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