MolNFT v1 · #14402 · protein
Crystal structure of tryptophanyl-tRNA synthetase complexed with ATP in a closed, pre-transition state conformation
1M83 · Tryptophan-tRNA ligase: “Crystal structure of tryptophanyl-tRNA synthetase complexed with ATP in a closed, pre-transition state…”. X-ray diffraction, 2 ligands (ATP, MG), 1 pocket (best druggability 0.75). MolNFT v1 #14402 on…
- PDB
- 1M83
- Type
- protein
- Length
- 328 residues
- Chains
- 1
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Tryptophan-tRNA ligase
- EC
- 6.1.1.2
- UniProt
- P00953
- Ligands
- ATP, MG
- Pockets
- 1 · best druggability 0.75
Structure
x-ray diffraction · 1 distinct chain · 55% helix, 9% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Tryptophan-tRNA ligase (EC 6.1.1.2) | protein | 328 | 55% helix, 9% strand | P00953 |
Ligands and binding sites
- ATP · Adenosine-5'-triphosphate · ligand · chains A
- MG · Magnesium ion · metal · chains A
- GOL · Glycerol · additive · 3 copies · chains A
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 398 | 0.75 | 0.85 | 58 | MG, ATP, GOL |
Compared structures
- 1M83 · Crystal Structure of Tryptophanyl-tRNA Synthetase Complexed with ATP in a Closed… · the same entry in another collection · chain A against A, TM-score 1.00
- P00953 · AlphaFold monomer V2.0 prediction for tryptophan--tRNA ligase (P00953) · a predicted model of the same protein · chain A against A, TM-score 0.94
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 P00953
- Elsewhere: RCSB PDB 1M83 · PDBe 1M83 · UniProt P00953
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