Research workbench
DNA topoisomerase
Analyse DNA topoisomerase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6Z03
- Type
- protein
- Length
- 1,043 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA topoisomerase I
- EC
- 5.99.1.2
- UniProt
- E6NAV3
- Pockets
- 12 · best druggability 0.81
Structure
x-ray diffraction · 2 distinct chains · 51% helix, 13% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA topoisomerase I (EC 5.99.1.2) | protein | 522 | 52% helix, 12% strand | E6NAV3 |
| B | DNA topoisomerase I (EC 5.99.1.2) | protein | 521 | 50% helix, 13% strand | E6NAV3 |
Pockets
12 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1005 | 0.81 | 0.82 | 99 | empty |
| 2 | 684 | 0.77 | 0.82 | 63 | empty |
| 3 | 508 | 0.73 | 0.81 | 63 | empty |
| 4 | 674 | 0.72 | 0.79 | 47 | empty |
| 5 | 480 | 0.69 | 0.80 | 42 | empty |
Interfaces
1 interface between chains.
- A–B · 1598 Ų buried · 19 hydrogen bonds · protein-protein
Compared structures
- 6Z03 · DNA Topoisomerase · 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 E6NAV3
- Elsewhere: RCSB PDB 6Z03 · PDBe 6Z03 · UniProt E6NAV3
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