Research workbench
Phenylalanyl tRNA synthetase complexed with phenylalanine
Analyse Phenylalanyl tRNA synthetase complexed with phenylalanine in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1B70
- Type
- protein
- Length
- 1,040 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Phenylalanyl-tRNA synthetase
- EC
- 6.1.1.20
- UniProt
- P27001, P27002
- Ligands
- PHE, MG
- Pockets
- 17 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 28% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Phenylalanyl-tRNA synthetase (EC 6.1.1.20) | protein | 265 | 31% helix, 28% strand | P27001 |
| B | Phenylalanyl-tRNA synthetase (EC 6.1.1.20) | protein | 775 | 28% helix, 26% strand | P27002 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
17 pockets found on a 1 Å grid, 8 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 79 | 0.74 | 0.98 | 16 | empty |
| 2 | 636 | 0.69 | 0.78 | 57 | PHE |
| 3 | 276 | 0.63 | 0.81 | 30 | empty |
| 4 | 393 | 0.62 | 0.77 | 35 | empty |
| 5 | 337 | 0.59 | 0.77 | 43 | empty |
Interfaces
1 interface between chains.
- A–B · 4314 Ų buried · 77 hydrogen bonds · protein-protein
Compared structures
- 1B70 · Phenylalanyl tRNA synthetase complexed with phenylalanine · the same entry in another collection · chain A against A, TM-score 1.00
- P27001 · AlphaFold monomer V2.0 prediction for phenylalanine--tRNA ligase alpha subunit (P27001) · a predicted model of the same protein · chain A against A, TM-score 0.97
- P27002 · AlphaFold monomer V2.0 prediction for phenylalanine--tRNA ligase beta subunit (P27002) · a predicted model of the same protein · chain B against A, TM-score 0.97
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 P27001
- Every structure of UniProt P27002
- Elsewhere: RCSB PDB 1B70 · PDBe 1B70 · UniProt P27001 · UniProt P27002
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