MolNFT v1 · #125633 · protein
DNA polymerase
5LEW · DNA polymerase III subunit alpha: “DNA polymerase”. X-ray diffraction, 2 ligands (ZN, SO4), 10 pockets (best druggability 0.71). MolNFT v1 #125633 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5LEW
- Type
- protein
- Length
- 919 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase III subunit alpha
- EC
- 2.7.7.7
- UniProt
- P9WNT7
- Ligands
- ZN, SO4
- Pockets
- 10 · best druggability 0.71
Structure
x-ray diffraction · 1 distinct chain · 52% helix, 11% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase III subunit alpha (EC 2.7.7.7) | protein | 919 | 52% helix, 11% strand | P9WNT7 |
Ligands and binding sites
- ZN · Zinc ion · metal · 3 copies · chains A
- SO4 · Sulfate ion · ion · 9 copies · chains A
- EPE · 4-(2-hydroxyethyl)-1-piperazine ethanesulfonic acid · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 640 | 0.71 | 0.79 | 60 | ZN, SO4 |
| 2 | 137 | 0.48 | 0.78 | 18 | EPE |
| 3 | 136 | 0.48 | 0.78 | 26 | empty |
| 4 | 124 | 0.46 | 0.78 | 25 | empty |
| 5 | 76 | 0.37 | 0.77 | 15 | SO4 |
Compared structures
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 P9WNT7
- Elsewhere: RCSB PDB 5LEW · PDBe 5LEW · UniProt P9WNT7
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