MolNFT v1 · #59141 · protein + RNA
Crystal structure of the hutp antitermination complex bound to the hut mRNA
3BOY · 5'-R(*UP*UP*UP*AP*GP*UP*UP*UP*UP*UP*AP*GP*UP*UP*UP*UP*UP*AP…: “Crystal structure of the hutp antitermination complex bound to the hut mRNA”. X-ray diffraction, 2 ligands (HIS, MG), 6 pockets (best druggability 0.70). MolNFT v1…
- PDB
- 3BOY
- Type
- protein + RNA
- Length
- 462 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- 5'-R(*UP*UP*UP*AP*GP*UP*UP*UP*UP*UP*AP*GP*UP*UP*UP*UP*UP*AP *GP*UP*UP*U)-3'; Hut operon…
- UniProt
- P10943
- Ligands
- HIS, MG
- Pockets
- 6 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 37% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| D | 5'-R(*UP*UP*UP*AP*GP*UP*UP*UP*UP*UP*AP*GP*UP*UP*UP*UP*UP*AP *GP*UP*UP*U)-3' | rna | 21 | — | — |
| A, B, C | Hut operon positive regulatory protein | protein | 147 | 37% helix, 30% strand | P10943 |
Ligands and binding sites
- HIS · Histidine · ligand · 3 copies · chains A, C, B
- MG · Magnesium ion · metal · 3 copies · chains A, B, C
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
6 pockets found on a 1 Å grid, 3 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 68 | 0.70 | 0.96 | 21 | HIS |
| 2 | 72 | 0.70 | 0.95 | 19 | HIS |
| 3 | 108 | 0.63 | 0.88 | 30 | HIS |
| 4 | 165 | 0.49 | 0.77 | 30 | empty |
| 5 | 67 | 0.29 | 0.74 | 18 | empty |
Interfaces
6 interfaces between chains.
- D–B · 825 Ų buried · 24 hydrogen bonds · protein-nucleic
- D–A · 822 Ų buried · 23 hydrogen bonds · protein-nucleic
- D–C · 806 Ų buried · 21 hydrogen bonds · protein-nucleic
- A–C · 577 Ų buried · 4 hydrogen bonds · protein-protein
- A–B · 575 Ų buried · 4 hydrogen bonds · protein-protein
Compared structures
- 3BOY · Crystal structure of the HutP antitermination complex bound to the HUT mRNA · the same entry in another collection · chain B against B, TM-score 1.00
- P10943 · AlphaFold monomer V2.0 prediction for hut operon positive regulatory protein (P10943) · a predicted model of the same protein · 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 P10943
- Elsewhere: RCSB PDB 3BOY · PDBe 3BOY · UniProt P10943
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.