Research workbench
Crystallizing strained DNA: self-assembly of 3D crystals containing a torsionally-stressed component
Analyse Crystallizing strained DNA: self-assembly of 3D crystals containing a… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5EOS
- Type
- DNA
- Length
- 42 nucleotides
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(P*GP*AP*GP*CP*AP*GP*CP*TP*GP*TP*G)-3'); DNA…
- Pockets
- 1 · best druggability 0.37
Structure
x-ray diffraction · 4 distinct chains.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA (5'-D(P*GP*AP*GP*CP*AP*GP*CP*TP*GP*TP*G)-3') | dna | 11 | — | — |
| D | DNA (5'-D(P*CP*AP*CP*AP*CP*CP*GP*T)-3') | dna | 8 | — | — |
| B | DNA (5'-D(*TP*CP*TP*GP*AP*TP*GP*TP*GP*CP*TP*GP*C)-3') | dna | 13 | — | — |
| C | DNA (5'-D(P*AP*CP*GP*GP*AP*CP*AP*TP*CP*A)-3') | dna | 10 | — | — |
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 | 142 | 0.37 | 0.73 | 16 | empty |
Interfaces
6 interfaces between chains.
- B–C · 287 Ų buried · 10 hydrogen bonds · nucleic-nucleic
- D–B · 267 Ų buried · 7 hydrogen bonds · nucleic-nucleic
- A–B · 254 Ų buried · 15 hydrogen bonds · nucleic-nucleic
- D–C · 192 Ų buried · 9 hydrogen bonds · nucleic-nucleic
- A–D · 184 Ų buried · 4 hydrogen bonds · nucleic-nucleic
Compared structures
- 5EOS · Crystallizing Strained DNA: Self-Assembly of 3D Crystals Containing a… · 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 5EOS · PDBe 5EOS
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