MolNFT v1 · #102105 · protein
Crystal structure of E.COLI arginyl-tRNA synthetase and ligand binding studies revealed key residues in arginine recognition
4OBY · Arginine--tRNA ligase: “Crystal structure of E.COLI arginyl-tRNA synthetase and ligand binding studies revealed key residues in…”. X-ray diffraction, 1 ligand (ARG), 6 pockets (best druggability 0.60). MolNFT v1 #102105 on…
- PDB
- 4OBY
- Type
- protein
- Length
- 564 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Arginine--tRNA ligase
- EC
- 6.1.1.19
- UniProt
- P11875
- Ligands
- ARG
- Pockets
- 6 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 55% helix, 10% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Arginine--tRNA ligase (EC 6.1.1.19) | protein | 564 | 55% helix, 10% strand | P11875 |
Ligands and binding sites
- ARG · Arginine · ligand · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 273 | 0.60 | 0.79 | 47 | ARG |
| 2 | 99 | 0.41 | 0.77 | 20 | empty |
| 3 | 75 | 0.40 | 0.78 | 15 | empty |
| 4 | 53 | 0.35 | 0.79 | 13 | empty |
| 5 | 97 | 0.35 | 0.74 | 17 | empty |
Compared structures
- 4OBY · Crystal Structure of E.coli Arginyl-tRNA Synthetase and Ligand Binding Studies Revealed… · the same entry in another collection · chain A against A, TM-score 1.00
- P11875 · AlphaFold monomer V2.0 prediction for arginine--tRNA ligase (P11875) · a predicted model of the same protein · chain A against A, TM-score 0.98
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 P11875
- Elsewhere: RCSB PDB 4OBY · PDBe 4OBY · UniProt P11875
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