MolNFT v1 · #176075 · protein + RNA
Mouse toll-like receptor 3 ectodomain in complex with lncrna rmrp in lapped form
7DAS: “Mouse toll-like receptor 3 ectodomain in complex with lncrna rmrp in lapped form”. Electron microscopy, 5 pockets (best druggability 0.56). MolNFT v1 #176075 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 7DAS
- Type
- protein + RNA
- Length
- 1,411 residues
- Chains
- 3
- Method
- electron microscopy
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Toll-like receptor 3; RNA component of mitochondrial rnaase P (rmrp), RNase mrp RNA
- UniProt
- Q99MB1
- Pockets
- 5 · best druggability 0.56
Structure
electron microscopy · 3 distinct chains · 9% helix, 15% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Toll-like receptor 3 | protein | 674 | 9% helix, 15% strand | Q99MB1 |
| B | Toll-like receptor 3 | protein | 671 | 9% helix, 15% strand | Q99MB1 |
| C | RNA component of mitochondrial rnaase P (rmrp), RNase mrp RNA | rna | 66 | — | — |
Pockets
5 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 388 | 0.56 | 0.74 | 53 | empty |
| 2 | 117 | 0.35 | 0.73 | 22 | empty |
| 3 | 63 | 0.30 | 0.75 | 17 | empty |
| 4 | 59 | 0.27 | 0.73 | 13 | empty |
| 5 | 53 | 0.27 | 0.74 | 15 | empty |
Interfaces
3 interfaces between chains.
- B–C · 1073 Ų buried · 28 hydrogen bonds · protein-nucleic
- A–C · 978 Ų buried · 22 hydrogen bonds · protein-nucleic
- A–B · 383 Ų buried · 1 hydrogen bond · protein-protein
Modifications
Observed in the structure: 8 disulfide (disulfide).
Compared structures
- 7DAS · Mouse Toll-like receptor 3 ectodomain in complex with lncRNA Rmrp in lapped form · the same entry in another collection · chain A against A, TM-score 1.00
- Q99MB1 · AlphaFold monomer V2.0 prediction for toll-like receptor 3 (Q99MB1) · a predicted model of the same protein · chain B 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 Q99MB1
- Elsewhere: RCSB PDB 7DAS · PDBe 7DAS · UniProt Q99MB1
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