Research workbench
Crystal structure of CAS6 with its substrate RNA
Analyse Crystal structure of CAS6 with its substrate RNA in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3PKM
- Type
- protein + RNA
- Length
- 480 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CAS6 protein; 5'-R(*AP*UP*UP*AP*CP*AP*AP*UP*AP*A)-3'
- UniProt
- Q8U1S4
- Pockets
- 4 · best druggability 0.70
Structure
x-ray diffraction · 3 distinct chains · 26% helix, 30% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CAS6 protein | protein | 229 | 25% helix, 30% strand | Q8U1S4 |
| X | CAS6 protein | protein | 233 | 27% helix, 30% strand | Q8U1S4 |
| G, R | 5'-R(*AP*UP*UP*AP*CP*AP*AP*UP*AP*A)-3' | rna | 9 | — | — |
Pockets
4 pockets found on a 1 Å grid, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 578 | 0.70 | 0.79 | 47 | empty |
| 2 | 77 | 0.52 | 0.84 | 17 | empty |
| 3 | 62 | 0.45 | 0.83 | 19 | empty |
| 4 | 129 | 0.39 | 0.74 | 21 | empty |
Interfaces
3 interfaces between chains.
- X–R · 1161 Ų buried · 28 hydrogen bonds · protein-nucleic
- A–G · 1131 Ų buried · 16 hydrogen bonds · protein-nucleic
- A–X · 603 Ų buried · 6 hydrogen bonds · protein-protein
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 Q8U1S4
- Elsewhere: RCSB PDB 3PKM · PDBe 3PKM · UniProt Q8U1S4
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.