MolNFT v1 · #103284 · protein
Elongation factor TU:TS complex with a bound GDP
4PC2: “Elongation factor TU:TS complex with a bound GDP”. X-ray diffraction, 2 ligands (GDP, CL), 18 pockets (best druggability 0.80). MolNFT v1 #103284 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 4PC2
- Type
- protein
- Length
- 1,299 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Elongation factor tu; Elongation factor ts
- UniProt
- B1X6I9, C3TPM7
- Ligands
- GDP, CL
- Pockets
- 18 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 32% helix, 33% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Elongation factor tu | protein | 363 | 25% helix, 39% strand | B1X6I9 |
| C, D | Elongation factor ts | protein | 280 | 53% helix, 21% strand | C3TPM7 |
| B | Elongation factor tu | protein | 376 | 25% helix, 37% strand | B1X6I9 |
Ligands and binding sites
- GDP · Guanosine-5'-diphosphate · ligand · 2 copies · chains A, B
- CL · Chloride ion · ion · 5 copies · chains A, C, D, B
- GOL · Glycerol · additive · 2 copies · chains C, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
18 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 959 | 0.80 | 0.81 | 112 | CL, GOL |
| 2 | 651 | 0.70 | 0.78 | 75 | empty |
| 3 | 172 | 0.63 | 0.84 | 34 | CL |
| 4 | 202 | 0.59 | 0.81 | 31 | empty |
| 5 | 252 | 0.52 | 0.75 | 29 | empty |
Interfaces
6 interfaces between chains.
- A–C · 1852 Ų buried · 21 hydrogen bonds · protein-protein
- B–D · 1846 Ų buried · 17 hydrogen bonds · protein-protein
- C–D · 1205 Ų buried · 15 hydrogen bonds · protein-protein
- A–B · 493 Ų buried · 2 hydrogen bonds · protein-protein
- A–D · 136 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 4PC2 · Elongation factor Tu:Ts complex with a bound GDP · 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 B1X6I9
- Every structure of UniProt C3TPM7
- Elsewhere: RCSB PDB 4PC2 · PDBe 4PC2 · UniProt B1X6I9 · UniProt C3TPM7
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