Research workbench
Structure of the effector protein LPIR1 (LPG0634) from legionella pneumophila
Analyse Structure of the effector protein LPIR1 (LPG0634) from legionella pneumophila in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5JG4
- Type
- protein
- Length
- 790 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Effector protein LPIR1
- UniProt
- A0A0C9P234
- Ligands
- PO4
- Pockets
- 10 · best druggability 0.65
Structure
x-ray diffraction · 1 distinct chain · 65% helix, 2% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Effector protein LPIR1 | protein | 395 | 65% helix, 2% strand | A0A0C9P234 |
Ligands and binding sites
- PO4 · Phosphate ion · ion · 3 copies · chains A, B
- FLC · Citrate anion · additive · 2 copies · chains A, B
- GOL · Glycerol · additive · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
10 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 609 | 0.65 | 0.75 | 58 | FLC |
| 2 | 428 | 0.59 | 0.75 | 46 | empty |
| 3 | 154 | 0.43 | 0.74 | 21 | empty |
| 4 | 63 | 0.41 | 0.80 | 14 | empty |
| 5 | 106 | 0.39 | 0.75 | 19 | empty |
Interfaces
1 interface between chains.
- A–B · 266 Ų buried · 1 hydrogen bond · protein-protein
Compared structures
- 5JG4 · Structure of the effector protein LpiR1 (Lpg0634) from Legionella pneumophila · the same entry in another collection · chain B against B, TM-score 1.00
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 A0A0C9P234
- Elsewhere: RCSB PDB 5JG4 · PDBe 5JG4 · UniProt A0A0C9P234
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.