Research workbench
Tryptophanyl-tRNA synthetase from Giardia lamblia
Analyse Tryptophanyl-tRNA synthetase from Giardia lamblia in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3FOC
- Type
- protein
- Length
- 803 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v2 / PDB Bank
- Contract
- 0xd58B01f6C18086e5202cdC5D7Ad3E41790360102
- Owner
- 0xF4e1AA6f26B7DA48EeAD9B24a97927303eeA07b8
- Resolution
- 2.09
- Source
- Giardia lamblia ATCC 50803
- Molecule
- Tryptophanyl-tRNA synthetase
- EC
- 6.1.1.2
- UniProt
- A8B8N3
- Ligands
- SO4
- Pockets
- 11 · best druggability 0.73
Structure
x-ray diffraction · resolution 2.09 · 2 distinct chains · 53% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tryptophanyl-tRNA synthetase (EC 6.1.1.2) | protein | 404 | 54% helix, 10% strand | A8B8N3 |
| B | Tryptophanyl-tRNA synthetase (EC 6.1.1.2) | protein | 399 | 52% helix, 10% strand | A8B8N3 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
11 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 593 | 0.73 | 0.81 | 45 | empty |
| 2 | 551 | 0.71 | 0.80 | 52 | empty |
| 3 | 171 | 0.56 | 0.80 | 36 | empty |
| 4 | 187 | 0.55 | 0.79 | 24 | empty |
| 5 | 175 | 0.54 | 0.79 | 22 | empty |
Interfaces
1 interface between chains.
- A–B · 1646 Ų buried · 5 hydrogen bonds · protein-protein
Compared structures
- 3FOC · Tryptophanyl-tRNA synthetase from giardia lamblia · 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 A8B8N3
- Elsewhere: RCSB PDB 3FOC · PDBe 3FOC · UniProt A8B8N3
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