MolNFT v1 · #186092 · protein
Crystal structure of the vibrio cholerae replicative helicase (dnab)
7QXM · Replicative DNA helicase: “Crystal structure of the vibrio cholerae replicative helicase (dnab)”. X-ray diffraction, 20 pockets (best druggability 0.75). MolNFT v1 #186092 on GenesisL1: 3D structure, binding sites and pockets in…
- PDB
- 7QXM
- Type
- protein
- Length
- 2,651 residues
- Chains
- 6
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Replicative DNA helicase
- EC
- 3.6.4.12
- UniProt
- A0A085R2T8
- Pockets
- 20 · best druggability 0.75
Structure
x-ray diffraction · 5 distinct chains · 51% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Replicative DNA helicase (EC 3.6.4.12) | protein | 440 | 53% helix, 12% strand | A0A085R2T8 |
| B, F | Replicative DNA helicase (EC 3.6.4.12) | protein | 440 | 51% helix, 12% strand | A0A085R2T8 |
| C | Replicative DNA helicase (EC 3.6.4.12) | protein | 448 | 52% helix, 11% strand | A0A085R2T8 |
| D | Replicative DNA helicase (EC 3.6.4.12) | protein | 439 | 51% helix, 12% strand | A0A085R2T8 |
| E | Replicative DNA helicase (EC 3.6.4.12) | protein | 444 | 51% helix, 11% strand | A0A085R2T8 |
Pockets
20 pockets found on a 1 Å grid, 19 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 823 | 0.75 | 0.79 | 92 | empty |
| 2 | 1033 | 0.73 | 0.76 | 101 | empty |
| 3 | 578 | 0.71 | 0.80 | 49 | empty |
| 4 | 572 | 0.71 | 0.80 | 39 | empty |
| 5 | 549 | 0.69 | 0.79 | 42 | empty |
Interfaces
9 interfaces between chains.
- A–B · 3767 Ų buried · 25 hydrogen bonds · protein-protein
- C–D · 3716 Ų buried · 24 hydrogen bonds · protein-protein
- E–F · 3668 Ų buried · 20 hydrogen bonds · protein-protein
- B–C · 2285 Ų buried · 22 hydrogen bonds · protein-protein
- D–E · 2233 Ų buried · 21 hydrogen bonds · protein-protein
Compared structures
- 7QXM · Crystal structure of the Vibrio cholerae replicative helicase (DnaB) · 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
- Every structure of UniProt A0A085R2T8
- Elsewhere: RCSB PDB 7QXM · PDBe 7QXM · UniProt A0A085R2T8
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