Research workbench
The structure of human argonaute-1 in complex with the hook motif of human GW182
Analyse The structure of human argonaute-1 in complex with the hook motif of human GW182 in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 5W6V
- Type
- protein + RNA
- Length
- 823 residues
- Chains
- 3
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Protein argonaute-1; RNA (5'-R(P*AP*AP*UP*AP*UP*UP*AP*AP*AP*A)-3'); Trinucleotide…
- UniProt
- Q9UL18, Q8NDV7
- Pockets
- 8 · best druggability 0.82
Structure
x-ray diffraction · 3 distinct chains · 30% helix, 27% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein argonaute-1 | protein | 796 | 31% helix, 28% strand | Q9UL18 |
| R | RNA (5'-R(P*AP*AP*UP*AP*UP*UP*AP*AP*AP*A)-3') | rna | 10 | — | — |
| B | Trinucleotide repeat-containing gene 6A protein | protein | 17 | 0% helix, 0% strand | Q8NDV7 |
Pockets
8 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 869 | 0.82 | 0.84 | 84 | empty |
| 2 | 132 | 0.55 | 0.82 | 31 | empty |
| 3 | 147 | 0.48 | 0.78 | 26 | empty |
| 4 | 112 | 0.45 | 0.78 | 19 | empty |
| 5 | 70 | 0.43 | 0.81 | 16 | empty |
Interfaces
2 interfaces between chains.
- A–R · 1728 Ų buried · 44 hydrogen bonds · protein-nucleic
- A–B · 800 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 5W6V · The Structure of human Argonaute-1 in complex with the hook motif of human GW182 · the same entry in another collection · chain A against A, TM-score 1.00
- Q9UL18 · AlphaFold monomer V2.0 prediction for protein argonaute-1 (Q9UL18) · a predicted model of the same protein · chain A against A, TM-score 0.99
- Q8NDV7 · AlphaFold monomer V2.0 prediction for trinucleotide repeat-containing gene 6A protein… · a predicted model of the same protein · chain B against A, TM-score 0.17
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 Q9UL18
- Every structure of UniProt Q8NDV7
- Elsewhere: RCSB PDB 5W6V · PDBe 5W6V · UniProt Q9UL18 · UniProt Q8NDV7
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