Research workbench
Mycobacterium tuberculosis dihydrofolate reductase in complex with 3- (piperidin-1-YLMETHYL)BENZOIC ACID(FRAGMENT 11)
Analyse Mycobacterium tuberculosis dihydrofolate reductase in complex with 3… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6VS9
- Type
- protein
- Length
- 318 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Dihydrofolate reductase
- EC
- 1.5.1.3
- UniProt
- A5U6B6
- Ligands
- RK4, NAP, CO, PO4, SO4
- Pockets
- 3 · best druggability 0.74
Structure
x-ray diffraction · 1 distinct chain · 21% helix, 35% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Dihydrofolate reductase (EC 1.5.1.3) | protein | 159 | 21% helix, 35% strand | A5U6B6 |
Ligands and binding sites
- RK4 · 3-[(piperidin-1-yl)methyl]benzoic acid · ligand · 2 copies · chains A, B
- NAP · Nadp nicotinamide-adenine-dinucleotide phosphate · ligand · 2 copies · chains A, B
- CO · Cobalt (II) ion · metal · 2 copies · chains A, B
- PO4 · Phosphate ion · ion · 3 copies · chains A, B
- SO4 · Sulfate ion · ion · chains A, B
- GOL · Glycerol · additive · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 529 | 0.74 | 0.82 | 47 | RK4, NAP |
| 2 | 500 | 0.73 | 0.82 | 46 | RK4, NAP, GOL |
| 3 | 246 | 0.73 | 0.88 | 52 | CO |
Interfaces
1 interface between chains.
- A–B · 899 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 6VS9 · Mycobacterium tuberculosis dihydrofolate reductase in complex with… · 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 A5U6B6
- Elsewhere: RCSB PDB 6VS9 · PDBe 6VS9 · UniProt A5U6B6
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.