Research workbench
Crystal structure of drosophila DHX36 helicase in complex with ssdna CPG_A
Analyse Crystal structure of drosophila DHX36 helicase in complex with ssdna CPG_A in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5N9F
- Type
- protein + DNA
- Length
- 1,732 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CG9323, isoform a; DNA (5'-D(*GP*GP*GP*GP*AP*CP*GP*AP*TP*C)-3')
- EC
- 3.6.1.3
- UniProt
- Q8SWT2
- Ligands
- NA, CL
- Pockets
- 20 · best druggability 0.89
Structure
x-ray diffraction · 3 distinct chains · 46% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CG9323, isoform a (EC 3.6.1.3) | protein | 859 | 47% helix, 15% strand | Q8SWT2 |
| B | CG9323, isoform a (EC 3.6.1.3) | protein | 855 | 46% helix, 15% strand | Q8SWT2 |
| C, D | DNA (5'-D(*GP*GP*GP*GP*AP*CP*GP*AP*TP*C)-3') | dna | 9 | — | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
20 pockets found on a 1 Å grid, 18 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1058 | 0.89 | 0.91 | 97 | empty |
| 2 | 383 | 0.81 | 0.90 | 37 | empty |
| 3 | 278 | 0.79 | 0.91 | 40 | empty |
| 4 | 196 | 0.74 | 0.90 | 33 | empty |
| 5 | 146 | 0.73 | 0.91 | 32 | empty |
Interfaces
3 interfaces between chains.
- A–C · 1619 Ų buried · 34 hydrogen bonds · protein-nucleic
- B–D · 1571 Ų buried · 33 hydrogen bonds · protein-nucleic
- A–B · 445 Ų buried · 3 hydrogen bonds · protein-protein
Analyse
- Open in the research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides and crosslinks on the 3D structure
- Every structure of UniProt Q8SWT2
- Elsewhere: RCSB PDB 5N9F · PDBe 5N9F · UniProt Q8SWT2
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