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Crystal structure of four-way junction with sticky end
Analyse Crystal structure of four-way junction with sticky end in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3Q5C
- Type
- DNA
- Length
- 40 nucleotides
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA (5'-D(*CP*GP*GP*CP*GP*GP*CP*CP*GP*C)-3')
- Pockets
- 2 · best druggability 0.38
Structure
x-ray diffraction · 1 distinct chain.
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C, D | DNA (5'-D(*CP*GP*GP*CP*GP*GP*CP*CP*GP*C)-3') | dna | 10 | — | — |
Pockets
2 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 151 | 0.38 | 0.73 | 18 | empty |
| 2 | 143 | 0.37 | 0.73 | 17 | empty |
Interfaces
6 interfaces between chains.
- A–D · 232 Ų buried · 23 hydrogen bonds · nucleic-nucleic
- A–C · 229 Ų buried · 1 hydrogen bond · nucleic-nucleic
- A–B · 228 Ų buried · 27 hydrogen bonds · nucleic-nucleic
- B–C · 220 Ų buried · 20 hydrogen bonds · nucleic-nucleic
- C–D · 216 Ų buried · 22 hydrogen bonds · nucleic-nucleic
Compared structures
- 3Q5C · Crystal structure of four-way junction with sticky end · the same entry in another collection · chain D against D, 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 3Q5C · PDBe 3Q5C
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