Research workbench
Probing ef-tu with a very small brominated fragment library identifies the cca pocket
Analyse Probing ef-tu with a very small brominated fragment library identifies the cca… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4H9G
- Type
- protein
- Length
- 404 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Elongation factor tu-a
- EC
- 3.6.5.3
- UniProt
- P60338
- Ligands
- GNP, 14J, MG, SO4, NH4
- Pockets
- 4 · best druggability 0.64
Structure
x-ray diffraction · 1 distinct chain · 24% helix, 34% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Elongation factor tu-a (EC 3.6.5.3) | protein | 404 | 24% helix, 34% strand | P60338 |
Ligands and binding sites
- GNP · Phosphoaminophosphonic acid-guanylate ester · ligand · chains A
- 14J · 5-bromofuran-2-carboxylic acid · ligand · chains A
- MG · Magnesium ion · metal · chains A
- SO4 · Sulfate ion · ion · 8 copies · chains A
- NH4 · Ammonium ion · ion · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 397 | 0.64 | 0.79 | 47 | SO4, 14J |
| 2 | 147 | 0.46 | 0.77 | 27 | empty |
| 3 | 77 | 0.45 | 0.81 | 22 | GNP, MG |
| 4 | 83 | 0.37 | 0.76 | 16 | empty |
Compared structures
- 4H9G · Probing EF-Tu with a very small brominated fragment library identifies the CCA pocket · the same entry in another collection · chain A against A, TM-score 1.00
- P60338 · AlphaFold monomer V2.0 prediction for elongation factor tu-a (P60338) · a predicted model of the same protein · 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 P60338
- Elsewhere: RCSB PDB 4H9G · PDBe 4H9G · UniProt P60338
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