MolNFT v1 · #158873 · protein
Human cytosolic histidyl-tRNA synthetase (hisrs) with whep domain
6O76 · Histidine--tRNA ligase, cytoplasmic: “Human cytosolic histidyl-tRNA synthetase (hisrs) with whep domain”. X-ray diffraction, 1 ligand (CL), 15 pockets (best druggability 0.82). MolNFT v1 #158873 on GenesisL1: 3D structure, binding…
- PDB
- 6O76
- Type
- protein
- Length
- 889 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histidine--tRNA ligase, cytoplasmic
- EC
- 6.1.1.21
- UniProt
- P12081
- Ligands
- CL
- Pockets
- 15 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 46% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histidine--tRNA ligase, cytoplasmic (EC 6.1.1.21) | protein | 438 | 44% helix, 21% strand | P12081 |
| B | Histidine--tRNA ligase, cytoplasmic (EC 6.1.1.21) | protein | 451 | 49% helix, 19% strand | P12081 |
Ligands and binding sites
- CL · Chloride ion · ion · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
15 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 685 | 0.82 | 0.86 | 43 | empty |
| 2 | 711 | 0.70 | 0.77 | 66 | empty |
| 3 | 627 | 0.67 | 0.76 | 74 | empty |
| 4 | 687 | 0.67 | 0.76 | 63 | empty |
| 5 | 58 | 0.64 | 0.94 | 18 | empty |
Interfaces
1 interface between chains.
- A–B · 4130 Ų buried · 48 hydrogen bonds · protein-protein
Compared structures
- 6O76 · Human cytosolic Histidyl-tRNA synthetase (HisRS) with WHEP domain · the same entry in another collection · chain A against A, TM-score 1.00
- P12081 · AlphaFold monomer V2.0 prediction for histidine--tRNA ligase, cytoplasmic (P12081) · 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 P12081
- Elsewhere: RCSB PDB 6O76 · PDBe 6O76 · UniProt P12081
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.