MolNFT v1 · #184522 · protein
Human prolyl-tRNA synthetase in complex with L-proline
7OSY · Bifunctional GLUTAMATE/PROLINE--tRNA ligase: “Human prolyl-tRNA synthetase in complex with L-proline”. X-ray diffraction, 3 ligands (PRO, SR, ZN), 10 pockets (best druggability 0.74). MolNFT v1 #184522 on GenesisL1: 3D structure…
- PDB
- 7OSY
- Type
- protein
- Length
- 967 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Bifunctional GLUTAMATE/PROLINE--tRNA ligase
- EC
- 6.1.1.17, 6.1.1.15
- UniProt
- P07814
- Ligands
- PRO, SR, ZN
- Pockets
- 10 · best druggability 0.74
Structure
x-ray diffraction · 2 distinct chains · 36% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Bifunctional GLUTAMATE/PROLINE--tRNA ligase (EC 6.1.1.17, 6.1.1.15) | protein | 483 | 36% helix, 29% strand | P07814 |
| B | Bifunctional GLUTAMATE/PROLINE--tRNA ligase (EC 6.1.1.17, 6.1.1.15) | protein | 484 | 36% helix, 29% strand | P07814 |
Ligands and binding sites
- PRO · Proline · ligand · 2 copies · chains A, B
- SR · Strontium ion · metal · 6 copies · chains A, B
- 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
10 pockets found on a 1 Å grid, 5 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 550 | 0.74 | 0.82 | 46 | PRO |
| 2 | 507 | 0.74 | 0.82 | 50 | PRO |
| 3 | 233 | 0.67 | 0.84 | 40 | empty |
| 4 | 405 | 0.64 | 0.78 | 36 | SR |
| 5 | 294 | 0.59 | 0.78 | 26 | SR |
Interfaces
1 interface between chains.
- A–B · 2269 Ų buried · 30 hydrogen bonds · protein-protein
Compared structures
- 7OSY · Human Prolyl-tRNA Synthetase in Complex with L-proline · the same entry in another collection · chain A against A, TM-score 1.00
- P07814 · AlphaFold monomer V2.0 prediction for bifunctional GLUTAMATE/PROLINE --tRNA ligase… · 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 P07814
- Elsewhere: RCSB PDB 7OSY · PDBe 7OSY · UniProt P07814
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