MolNFT v1 · #160753 · protein
Crystal structure of a dnan sliding clamp (DNA polymerase III subunit beta) from pseudomonas aeruginosa bound to griselimycin
6PTH · Beta sliding clamp: “Crystal structure of a dnan sliding clamp (DNA polymerase III subunit beta) from pseudomonas aeruginosa bound…”. X-ray diffraction, 2 ligands (ACE, SO4), 3 pockets (best druggability 0.41). MolNFT v1 #160753 on…
- PDB
- 6PTH
- Type
- protein
- Length
- 379 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Beta sliding clamp; Griselimycin
- UniProt
- Q9I7C4
- Ligands
- ACE, SO4
- Pockets
- 3 · best druggability 0.41
Structure
x-ray diffraction · 2 distinct chains · 22% helix, 41% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Beta sliding clamp | protein | 369 | 22% helix, 43% strand | Q9I7C4 |
| G | Griselimycin | protein | 10 | 0% helix, 0% strand | — |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 61 | 0.41 | 0.81 | 13 | empty |
| 2 | 127 | 0.41 | 0.75 | 26 | empty |
| 3 | 69 | 0.31 | 0.75 | 15 | empty |
Interfaces
1 interface between chains.
- A–G · 603 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 6 modified, 1 covalent (nonstandard, methylation, covalent ligand).
Compared structures
- 6PTH · Crystal structure of a DnaN sliding clamp (DNA polymerase III subunit beta) from… · the same entry in another collection · chain A against A, TM-score 1.00
- Q9I7C4 · AlphaFold monomer V2.0 prediction for beta sliding clamp (Q9I7C4) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 Q9I7C4
- Elsewhere: RCSB PDB 6PTH · PDBe 6PTH · UniProt Q9I7C4
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