Research workbench
Designed pentameric channel qlll
Analyse Designed pentameric channel qlll in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 7UDY
- Type
- protein
- Length
- 378 residues
- Chains
- 15
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Designed channel qlll
- Pockets
- 9 · best druggability 0.80
Structure
x-ray diffraction · 3 distinct chains · 91% helix, 0% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Designed channel qlll | protein | 24 | 92% helix, 0% strand | — |
| B, D, L, N | Designed channel qlll | protein | 26 | 88% helix, 0% strand | — |
| C, E, F, G, H, I, J, K, M, O | Designed channel qlll | protein | 25 | 92% helix, 0% strand | — |
Ligands and binding sites
- C8E · (hydroxyethyloxy)tri(ethyloxy)octane · additive · 3 copies · chains B, C, D, A, G, N, O
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
9 pockets found on a 1 Å grid, 7 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 213 | 0.80 | 0.92 | 36 | empty |
| 2 | 355 | 0.79 | 0.88 | 40 | C8E |
| 3 | 193 | 0.79 | 0.92 | 35 | empty |
| 4 | 110 | 0.74 | 0.93 | 25 | empty |
| 5 | 291 | 0.73 | 0.85 | 30 | empty |
Interfaces
27 interfaces between chains.
- N–O · 618 Ų buried · 2 hydrogen bonds · protein-protein
- F–G · 612 Ų buried · 1 hydrogen bond · protein-protein
- K–O · 609 Ų buried · 0 hydrogen bonds · protein-protein
- F–J · 599 Ų buried · 0 hydrogen bonds · protein-protein
- K–L · 596 Ų buried · 0 hydrogen bonds · protein-protein
Compared structures
- 7UDY · Designed pentameric channel QLLL · the same entry in another collection · chain C against C, 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
- Elsewhere: RCSB PDB 7UDY · PDBe 7UDY
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.