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Crystal structure of pyrococcus horikoshii arginyl-tRNA synthetase complexed with TRNA(ARG)
Analyse Crystal structure of pyrococcus horikoshii arginyl-tRNA synthetase complexed… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2ZUF
- Type
- protein + RNA
- Length
- 704 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Arginyl-tRNA synthetase; TRNA-arg
- EC
- 6.1.1.19
- UniProt
- O59147
- Pockets
- 10 · best druggability 0.79
Structure
x-ray diffraction · 2 distinct chains · 53% helix, 12% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Arginyl-tRNA synthetase (EC 6.1.1.19) | protein | 628 | 53% helix, 12% strand | O59147 |
| B | TRNA-arg | rna | 76 | — | — |
Pockets
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1188 | 0.79 | 0.81 | 79 | empty |
| 2 | 498 | 0.75 | 0.83 | 63 | empty |
| 3 | 341 | 0.74 | 0.86 | 50 | empty |
| 4 | 678 | 0.69 | 0.78 | 46 | empty |
| 5 | 194 | 0.58 | 0.81 | 25 | empty |
Interfaces
1 interface between chains.
- A–B · 2557 Ų buried · 49 hydrogen bonds · protein-nucleic
Compared structures
- 2ZUF · Crystal structure of Pyrococcus horikoshii arginyl-tRNA synthetase complexed with… · the same entry in another collection · chain B against B, TM-score 1.00
- O59147 · AlphaFold monomer V2.0 prediction for arginine--tRNA ligase (O59147) · a predicted model of the same protein · chain A against A, TM-score 0.96
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 O59147
- Elsewhere: RCSB PDB 2ZUF · PDBe 2ZUF · UniProt O59147
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