Research workbench
A duplex DNA with an abasic site in a da tract, beta form, NMR, minimized average structure
Analyse A duplex DNA with an abasic site in a da tract, beta form, NMR, minimized… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1SJL
- Type
- DNA
- Length
- 24 nucleotides
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*CP*GP*CP*AP*AP*AP*AP*AP*TP*GP*CP*G)-3'); DNA…
- Pockets
- 1 · best druggability 0.34
Structure
solution nmr · 2 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(*CP*GP*CP*AP*AP*AP*AP*AP*TP*GP*CP*G)-3') | dna | 12 | — | — |
| B | DNA (5'-D(*CP*GP*CP*AP*TP*TP*(AAB)P*TP*TP*GP*CP*G)-3') | dna | 12 | — | — |
Pockets
1 pocket found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 96 | 0.34 | 0.74 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 654 Ų buried · 75 hydrogen bonds · nucleic-nucleic
Modifications
Observed in the structure: 1 modified (nucleotide modification).
Compared structures
- 1SJL · A duplex DNA with an abasic site in a da tract, beta form, NMR, minimized average… · 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 1SJL · PDBe 1SJL
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