MolNFT v1 · #158862 · protein + RNA
Crystal structure of CSM6 in complex with CA4 by soaking CA4 into CSM6
6O6V: “Crystal structure of CSM6 in complex with CA4 by soaking CA4 into CSM6”. X-ray diffraction, 8 pockets (best druggability 0.86). MolNFT v1 #158862 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 6O6V
- Type
- protein + RNA
- Length
- 873 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- CSM6; Cyclic RNA CA4
- UniProt
- B6YWC3
- Pockets
- 8 · best druggability 0.86
Structure
x-ray diffraction · 3 distinct chains · 46% helix, 20% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | CSM6 | protein | 433 | 47% helix, 20% strand | B6YWC3 |
| B | CSM6 | protein | 432 | 46% helix, 20% strand | B6YWC3 |
| C, D | Cyclic RNA CA4 | rna | 4 | — | — |
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 | 1141 | 0.86 | 0.86 | 84 | empty |
| 2 | 312 | 0.57 | 0.76 | 32 | empty |
| 3 | 129 | 0.42 | 0.76 | 21 | empty |
| 4 | 102 | 0.36 | 0.74 | 18 | empty |
| 5 | 113 | 0.36 | 0.73 | 20 | empty |
Interfaces
5 interfaces between chains.
- A–B · 2255 Ų buried · 23 hydrogen bonds · protein-protein
- B–C · 520 Ų buried · 10 hydrogen bonds · protein-nucleic
- A–C · 485 Ų buried · 9 hydrogen bonds · protein-nucleic
- B–D · 474 Ų buried · 11 hydrogen bonds · protein-nucleic
- A–D · 275 Ų buried · 4 hydrogen bonds · protein-nucleic
Compared structures
- 6O6V · Crystal structure of Csm6 in complex with cA4 by soaking cA4 into Csm6 · the same entry in another collection · chain A against A, TM-score 1.00
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 B6YWC3
- Elsewhere: RCSB PDB 6O6V · PDBe 6O6V · UniProt B6YWC3
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