Research workbench
Pyridine synthase, pbtd, from GE2270 biosynthesis bound to tsp
Analyse Pyridine synthase, pbtd, from GE2270 biosynthesis bound to tsp in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5W99
- Type
- protein
- Length
- 319 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Pbtd
- UniProt
- U5Q3T2
- Ligands
- A1V, SO4
- Pockets
- 2 · best druggability 0.66
Structure
x-ray diffraction · 1 distinct chain · 66% helix, 7% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Pbtd | protein | 319 | 66% helix, 7% strand | U5Q3T2 |
Ligands and binding sites
- A1V · 2,2'-(6-(2'-(aminomethyl)-[2,4'-bithiazol]-4-yl) pyridine-2,5-diyl)bis(thiazole-4-carboxylic acid) · ligand · chains A
- SO4 · Sulfate ion · ion · 2 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 577 | 0.66 | 0.76 | 49 | empty |
| 2 | 166 | 0.53 | 0.79 | 25 | A1V |
Compared structures
- 5W99 · Pyridine synthase, PbtD, from GE2270 biosynthesis bound to TSP · the same entry in another collection · chain A against A, 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 U5Q3T2
- Elsewhere: RCSB PDB 5W99 · PDBe 5W99 · UniProt U5Q3T2
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