Research workbench
Structure of the lipoprotein transporter LolA from Porphyromonas gingivalis
Analyse Structure of the lipoprotein transporter LolA from Porphyromonas gingivalis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 8CGM
- Type
- protein
- Length
- 380 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 1.7
- Source
- Porphyromonas gingivalis ATCC 33277
- Molecule
- Outer membrane lipoprotein carrier protein LolA
- UniProt
- Q7MUA1
- Pockets
- 6 · best druggability 0.62
Structure
x-ray diffraction · resolution 1.7 · 1 distinct chain · 17% helix, 48% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Outer membrane lipoprotein carrier protein LolA | protein | 190 | 17% helix, 48% strand | Q7MUA1 |
Ligands and binding sites
- MES · 2-(N-morpholino)-ethanesulfonic acid · additive · 2 copies · chains A, B
- FMT · Formic acid · additive · 2 copies · chains B
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 4 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 447 | 0.62 | 0.76 | 52 | empty |
| 2 | 257 | 0.59 | 0.78 | 35 | MES |
| 3 | 241 | 0.57 | 0.78 | 39 | MES |
| 4 | 253 | 0.50 | 0.75 | 38 | empty |
| 5 | 59 | 0.38 | 0.79 | 13 | empty |
Interfaces
1 interface between chains.
- A–B · 740 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 12 modified (engineered).
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 Q7MUA1
- Elsewhere: RCSB PDB 8CGM · PDBe 8CGM · UniProt Q7MUA1
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