Research workbench
Structure of human argonaute-1 bound to endogenous SF9 RNA
Analyse Structure of human argonaute-1 bound to endogenous SF9 RNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 4KRE
- Type
- protein + RNA
- Length
- 810 residues
- Chains
- 2
- 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*A*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*…
- UniProt
- Q9UL18
- Pockets
- 7 · best druggability 0.82
Structure
x-ray diffraction · 2 distinct chains · 32% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Protein argonaute-1 | protein | 799 | 32% helix, 28% strand | Q9UL18 |
| R | RNA (5'- R(P*AP*AP*UP*AP*UP*UP*AP*AP*A*AP*AP*AP*AP*AP*AP*AP*AP*AP*AP*A)-3') | rna | 11 | — | — |
Pockets
7 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 1145 | 0.82 | 0.83 | 100 | empty |
| 2 | 203 | 0.57 | 0.80 | 37 | empty |
| 3 | 120 | 0.45 | 0.78 | 18 | empty |
| 4 | 109 | 0.45 | 0.78 | 25 | empty |
| 5 | 65 | 0.39 | 0.80 | 18 | empty |
Interfaces
1 interface between chains.
- A–R · 1774 Ų buried · 50 hydrogen bonds · protein-nucleic
Compared structures
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
- Elsewhere: RCSB PDB 4KRE · PDBe 4KRE · UniProt Q9UL18
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