MolNFT v1 · #168766 · protein
Xanthomonas citri methionyl-tRNA synthetase (apo)
6WQI · Methionine--tRNA ligase: “Xanthomonas citri methionyl-tRNA synthetase (apo)”. X-ray diffraction, 1 ligand (ZN), 4 pockets (best druggability 0.70). MolNFT v1 #168766 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6WQI
- Type
- protein
- Length
- 1,094 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Methionine--tRNA ligase
- EC
- 6.1.1.10
- UniProt
- Q8PMP0
- Ligands
- ZN
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 1 distinct chain · 50% helix, 17% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Methionine--tRNA ligase (EC 6.1.1.10) | protein | 547 | 50% helix, 17% strand | Q8PMP0 |
Ligands and binding sites
- ZN · Zinc ion · metal · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 703 | 0.70 | 0.77 | 77 | empty |
| 2 | 594 | 0.68 | 0.77 | 64 | empty |
| 3 | 205 | 0.48 | 0.75 | 35 | empty |
| 4 | 193 | 0.48 | 0.76 | 29 | empty |
Interfaces
1 interface between chains.
- A–B · 427 Ų buried · 6 hydrogen bonds · protein-protein
Compared structures
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 Q8PMP0
- Elsewhere: RCSB PDB 6WQI · PDBe 6WQI · UniProt Q8PMP0
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