MolNFT v1 · #11569 · protein
Mechanism of processivity clamp opening by the delta subunit wrench of the clamp loader complex of E. COLI DNA polymerase III: structure of beta-delta (1-140)
1JQL · DNA polymerase III, beta chain: “Mechanism of processivity clamp opening by the delta subunit wrench of the clamp loader complex of E. COLI…”. X-ray diffraction, 3 pockets (best druggability 0.52). MolNFT v1 #11569 on GenesisL1: 3D…
- PDB
- 1JQL
- Type
- protein
- Length
- 506 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- DNA polymerase III, beta chain; DNA polymerase III, delta subunit
- EC
- 2.7.7.7
- UniProt
- P0A988, P28630
- Pockets
- 3 · best druggability 0.52
Structure
x-ray diffraction · 2 distinct chains · 27% helix, 36% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | DNA polymerase III, beta chain (EC 2.7.7.7) | protein | 366 | 21% helix, 44% strand | P0A988 |
| B | DNA polymerase III, delta subunit (EC 2.7.7.7) | protein | 140 | 42% helix, 17% strand | P28630 |
Pockets
3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 266 | 0.52 | 0.75 | 38 | empty |
| 2 | 76 | 0.36 | 0.77 | 15 | empty |
| 3 | 66 | 0.31 | 0.75 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 992 Ų buried · 13 hydrogen bonds · protein-protein
Compared structures
- 1JQL · Mechanism of Processivity Clamp Opening by the Delta Subunit Wrench of the Clamp Loader… · the same entry in another collection · chain A against A, TM-score 1.00
- P28630 · AlphaFold monomer V2.0 prediction for DNA polymerase III subunit delta (P28630) · a predicted model of the same protein · chain B against A, TM-score 0.96
- P0A988 · AlphaFold monomer V2.0 prediction for beta sliding clamp (P0A988) · a predicted model of the same protein · chain A against A, TM-score 0.95
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 P0A988
- Every structure of UniProt P28630
- Elsewhere: RCSB PDB 1JQL · PDBe 1JQL · UniProt P0A988 · UniProt P28630
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