Research workbench
Crystal structure of a truncated human cytosolic methionyl-tRNA synthetase
Analyse Crystal structure of a truncated human cytosolic methionyl-tRNA synthetase in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5GL7
- Type
- protein
- Length
- 597 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
- ZN
- Pockets
- 6 · best druggability 0.61
Structure
x-ray diffraction · 1 distinct chain · 48% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Methionine--tRNA ligase, cytoplasmic (EC 6.1.1.10) | protein | 597 | 48% helix, 15% strand | P56192 |
Ligands and binding sites
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 | 366 | 0.61 | 0.77 | 54 | empty |
| 2 | 199 | 0.48 | 0.76 | 24 | GOL |
| 3 | 207 | 0.46 | 0.74 | 29 | empty |
| 4 | 61 | 0.34 | 0.78 | 17 | empty |
| 5 | 56 | 0.27 | 0.73 | 15 | empty |
Compared structures
- 5GL7 · Crystal structure of a truncated human cytosolic methionyl-tRNA synthetase · 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 0.99
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 5GL7 · PDBe 5GL7 · UniProt P56192
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.