Research workbench
Structural studies of pterin-based inhibitors of dihydropteroate synthase
Analyse Structural studies of pterin-based inhibitors of dihydropteroate synthase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3H21
- Type
- protein
- Length
- 519 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dihydropteroate synthase
- EC
- 2.5.1.15
- UniProt
- B1UXN2
- Ligands
- B52, SO4
- Pockets
- 3 · best druggability 0.39
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 16% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Dihydropteroate synthase (EC 2.5.1.15) | protein | 263 | 48% helix, 16% strand | B1UXN2 |
| B | Dihydropteroate synthase (EC 2.5.1.15) | protein | 256 | 50% helix, 16% strand | B1UXN2 |
Ligands and binding sites
- B52 · (2R)-2-(7-amino-1-methyl-4,5-dioxo-1,4,5,6-tetrahydropyrimido[4,5-c]pyridazin-3-yl)propanoic acid · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 6 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, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 74 | 0.39 | 0.79 | 19 | B52 |
| 2 | 52 | 0.39 | 0.81 | 17 | B52 |
| 3 | 84 | 0.32 | 0.73 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 332 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 3H21 · Structural Studies of Pterin-Based Inhibitors of Dihydropteroate Synthase · 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 B1UXN2
- Elsewhere: RCSB PDB 3H21 · PDBe 3H21 · UniProt B1UXN2
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