MolNFT v1 · #104910 · protein + RNA
Crystal structure of the histone mRNA stem-loop, stem-loop binding protein (phosphorylated), and 3'HEXO ternary complex
4QOZ: “Crystal structure of the histone mRNA stem-loop, stem-loop binding protein (phosphorylated), and 3'HEXO…”. X-ray diffraction, 14 pockets (best druggability 0.75). MolNFT v1 #104910 on GenesisL1: 3D structure, binding sites and…
- PDB
- 4QOZ
- Type
- protein + RNA
- Length
- 674 residues
- Chains
- 5
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Histone mRNA stem-loop; 3'-5' exoribonuclease 1; Histone RNA hairpin-binding protein
- EC
- 3.1.-.-
- UniProt
- Q8IV48, Q14493
- Pockets
- 14 · best druggability 0.75
Structure
x-ray diffraction · 5 distinct chains · 43% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Histone mRNA stem-loop | rna | 26 | — | — |
| B | 3'-5' exoribonuclease 1 (EC 3.1.-.-) | protein | 277 | 42% helix, 17% strand | Q8IV48 |
| C | Histone RNA hairpin-binding protein | protein | 73 | 58% helix, 0% strand | Q14493 |
| D | Histone mRNA stem-loop | rna | 18 | — | — |
| E | 3'-5' exoribonuclease 1 (EC 3.1.-.-) | protein | 280 | 42% helix, 17% strand | Q8IV48 |
Pockets
14 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 817 | 0.75 | 0.80 | 60 | empty |
| 2 | 497 | 0.69 | 0.79 | 52 | empty |
| 3 | 270 | 0.62 | 0.81 | 30 | empty |
| 4 | 265 | 0.61 | 0.80 | 33 | empty |
| 5 | 227 | 0.53 | 0.77 | 26 | empty |
Interfaces
5 interfaces between chains.
- A–B · 1315 Ų buried · 29 hydrogen bonds · protein-nucleic
- D–E · 1270 Ų buried · 25 hydrogen bonds · protein-nucleic
- B–E · 972 Ų buried · 13 hydrogen bonds · protein-protein
- A–C · 920 Ų buried · 24 hydrogen bonds · protein-nucleic
- B–C · 37 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 modified (phosphorylation).
Compared structures
- 4QOZ · Crystal structure of the histone mRNA stem-loop, stem-loop binding protein… · the same entry in another collection · chain E against E, TM-score 1.00
- Q8IV48 · AlphaFold monomer V2.0 prediction for 3'-5' exoribonuclease 1 (Q8IV48) · a predicted model of the same protein · chain B against A, TM-score 0.99
- Q14493 · AlphaFold monomer V2.0 prediction for histone RNA hairpin-binding protein (Q14493) · a predicted model of the same protein · chain C 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 Q8IV48
- Every structure of UniProt Q14493
- Elsewhere: RCSB PDB 4QOZ · PDBe 4QOZ · UniProt Q8IV48 · UniProt Q14493
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.