Research workbench
The crystal structure of the periplasmic protease PqqL from Escherichia coli
Analyse The crystal structure of the periplasmic protease PqqL from Escherichia coli in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6OFS
- Type
- protein
- Length
- 905 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.6
- Source
- Escherichia coli (strain K12)
- Molecule
- Probable zinc protease PqqL
- EC
- 3.4.24.-
- UniProt
- P31828
- Ligands
- ZN, CL
- Pockets
- 13 · best druggability 0.68
Structure
x-ray diffraction · resolution 2.6 · 1 distinct chain · 46% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Probable zinc protease PqqL (EC 3.4.24.-) | protein | 905 | 46% helix, 20% strand | P31828 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
13 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 608 | 0.68 | 0.77 | 46 | CL |
| 2 | 380 | 0.67 | 0.80 | 42 | empty |
| 3 | 388 | 0.56 | 0.74 | 43 | ZN |
| 4 | 66 | 0.51 | 0.85 | 15 | empty |
| 5 | 236 | 0.50 | 0.75 | 30 | empty |
Compared structures
- 6OFS · The crystal structure of the periplasmic protease pqql from escherichia COLI · the same entry in another collection · chain A against A, TM-score 1.00
- P31828 · AlphaFold monomer V2.0 prediction for probable zinc protease pqql (P31828) · a predicted model of the same protein · chain A against A, TM-score 0.52
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 P31828
- Elsewhere: RCSB PDB 6OFS · PDBe 6OFS · UniProt P31828
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