Research workbench
The transcriptional regulator prfa from listeria monocytogenes in complex with a ring-fused 2-pyridone (C10)
Analyse The transcriptional regulator prfa from listeria monocytogenes in complex with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5F1R
- Type
- protein
- Length
- 458 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Listeriolysin regulatory protein
- UniProt
- P22262
- Ligands
- 42O
- Pockets
- 3 · best druggability 0.87
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Listeriolysin regulatory protein | protein | 229 | 47% helix, 28% strand | P22262 |
Ligands and binding sites
- 42O · (3~{R})-8-cyclopropyl-7-(naphthalen-1-ylmethyl)-5-oxidanylidene-2,3-dihydro-[1,3]thiazolo[3,2-a]pyridine-3-carboxylic acid · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
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 | 1054 | 0.87 | 0.87 | 95 | 42O |
| 2 | 101 | 0.36 | 0.74 | 20 | empty |
| 3 | 60 | 0.32 | 0.76 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 2185 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 5F1R · The Transcriptional Regulator PrfA from Listeria Monocytogenes in complex with a… · the same entry in another collection · chain A against A, TM-score 1.00
- P22262 · AlphaFold monomer V2.0 prediction for listeriolysin regulatory protein (P22262) · a predicted model of the same protein · chain A against A, TM-score 0.90
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 P22262
- Elsewhere: RCSB PDB 5F1R · PDBe 5F1R · UniProt P22262
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.