MolNFT v1 · #93132 · protein
T. maritima fdts (E144R mutant) plus FAD
4GTC · Thymidylate synthase thyx: “T. maritima fdts (E144R mutant) plus FAD”. X-ray diffraction, 1 ligand (FAD), 6 pockets (best druggability 0.86). MolNFT v1 #93132 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4GTC
- Type
- protein
- Length
- 865 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Thymidylate synthase thyx
- EC
- 2.1.1.148
- UniProt
- Q9WYT0
- Ligands
- FAD
- Pockets
- 6 · best druggability 0.86
Structure
x-ray diffraction · 4 distinct chains · 51% helix, 18% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Thymidylate synthase thyx (EC 2.1.1.148) | protein | 218 | 51% helix, 18% strand | Q9WYT0 |
| B | Thymidylate synthase thyx (EC 2.1.1.148) | protein | 212 | 52% helix, 18% strand | Q9WYT0 |
| C | Thymidylate synthase thyx (EC 2.1.1.148) | protein | 219 | 50% helix, 17% strand | Q9WYT0 |
| D | Thymidylate synthase thyx (EC 2.1.1.148) | protein | 216 | 50% helix, 18% strand | Q9WYT0 |
Ligands and binding sites
- FAD · Flavin-adenine dinucleotide · ligand · 4 copies · chains A, C, D, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 717 | 0.86 | 0.90 | 85 | FAD |
| 2 | 218 | 0.73 | 0.89 | 39 | FAD |
| 3 | 177 | 0.72 | 0.90 | 32 | empty |
| 4 | 124 | 0.70 | 0.91 | 24 | empty |
| 5 | 132 | 0.67 | 0.88 | 24 | empty |
Interfaces
6 interfaces between chains.
- A–D · 2166 Ų buried · 27 hydrogen bonds · protein-protein
- B–C · 2142 Ų buried · 27 hydrogen bonds · protein-protein
- C–D · 1602 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1433 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 249 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 4GTC · T. Maritima FDTS (E144R mutant) plus FAD · 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 Q9WYT0
- Elsewhere: RCSB PDB 4GTC · PDBe 4GTC · UniProt Q9WYT0
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