MolNFT v1 · #120094 · protein
The crystal structure of human cytosolic methionyl-tRNA synthetase in complex with methionine
5GOY · Methionine--tRNA ligase, cytoplasmic: “The crystal structure of human cytosolic methionyl-tRNA synthetase in complex with methionine”. X-ray diffraction, 2 ligands (MET, ZN), 8 pockets (best druggability 0.60). MolNFT v1 #120094 on…
- PDB
- 5GOY
- Type
- protein
- Length
- 598 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methionine--tRNA ligase, cytoplasmic
- EC
- 6.1.1.10
- UniProt
- P56192
- Ligands
- MET, ZN
- Pockets
- 8 · best druggability 0.60
Structure
x-ray diffraction · 1 distinct chain · 47% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Methionine--tRNA ligase, cytoplasmic (EC 6.1.1.10) | protein | 598 | 47% helix, 15% strand | P56192 |
Ligands and binding sites
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
8 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 258 | 0.60 | 0.79 | 42 | MET |
| 2 | 204 | 0.48 | 0.76 | 27 | empty |
| 3 | 85 | 0.46 | 0.80 | 18 | empty |
| 4 | 173 | 0.42 | 0.73 | 30 | empty |
| 5 | 52 | 0.34 | 0.79 | 15 | empty |
Compared structures
- 5GOY · The crystal structure of human cytosolic methionyl-tRNA synthetase in complex with… · the same entry in another collection · chain A against A, TM-score 1.00
- P56192 · AlphaFold monomer V2.0 prediction for methionine--tRNA ligase, cytoplasmic (P56192) · 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 P56192
- Elsewhere: RCSB PDB 5GOY · PDBe 5GOY · UniProt P56192
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