Research workbench
Crystal structure of the cryptosporidium muris cytosolic leucyl-tRNA synthetase editing domain (apo structure)
Analyse Crystal structure of the cryptosporidium muris cytosolic leucyl-tRNA synthetase… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5FON
- Type
- protein
- Length
- 1,083 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Leucyl-tRNA synthetase
- EC
- 6.1.1.4
- UniProt
- B6AA20
- Pockets
- 12 · best druggability 0.74
Structure
x-ray diffraction · 4 distinct chains · 34% helix, 26% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Leucyl-tRNA synthetase (EC 6.1.1.4) | protein | 281 | 33% helix, 27% strand | B6AA20 |
| B | Leucyl-tRNA synthetase (EC 6.1.1.4) | protein | 267 | 34% helix, 25% strand | B6AA20 |
| C | Leucyl-tRNA synthetase (EC 6.1.1.4) | protein | 264 | 36% helix, 27% strand | B6AA20 |
| D | Leucyl-tRNA synthetase (EC 6.1.1.4) | protein | 271 | 34% helix, 24% strand | B6AA20 |
Pockets
12 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 355 | 0.74 | 0.85 | 34 | empty |
| 2 | 366 | 0.71 | 0.83 | 32 | empty |
| 3 | 366 | 0.70 | 0.82 | 35 | empty |
| 4 | 409 | 0.67 | 0.80 | 35 | empty |
| 5 | 348 | 0.59 | 0.76 | 46 | empty |
Interfaces
3 interfaces between chains.
- A–D · 497 Ų buried · 4 hydrogen bonds · protein-protein
- B–C · 485 Ų buried · 3 hydrogen bonds · protein-protein
- B–D · 284 Ų buried · 3 hydrogen bonds · protein-protein
Compared structures
- 5FON · Crystal structure of the Cryptosporidium muris cytosolic leucyl-tRNA synthetase editing… · the same entry in another collection · chain A against A, TM-score 1.00
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 B6AA20
- Elsewhere: RCSB PDB 5FON · PDBe 5FON · UniProt B6AA20
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