MolNFT v1 · #108897 · protein
Stationary phase survival protein yuic from B.SUBTILIS complexed with reaction product
4WLK: “Stationary phase survival protein yuic from B.SUBTILIS complexed with reaction product”. X-ray diffraction, 1 ligand (3QL), 3 pockets (best druggability 0.48). MolNFT v1 #108897 on GenesisL1: 3D structure, binding sites and pockets…
- PDB
- 4WLK
- Type
- protein
- Length
- 289 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Yuic
- UniProt
- O32108
- Ligands
- 3QL
- Pockets
- 3 · best druggability 0.48
Structure
x-ray diffraction · 2 distinct chains · 23% helix, 29% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Yuic | protein | 145 | 22% helix, 29% strand | O32108 |
| B | Yuic | protein | 144 | 24% helix, 29% strand | O32108 |
Ligands and binding sites
- 3QL · N-[(1R,2S,3R,4R,5R)-2-[(2S,3R,4R,5S,6R)-3-acetamido-6-(hydroxymethyl)-4,5-bis(oxidanyl)oxan-2-yl]oxy-3-oxidanyl-6,8-dioxabicyclo[3.2.1]octan-4-yl]ethanamide · ligand · 2 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
3 pockets found on a 1 Å grid, 0 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 153 | 0.48 | 0.77 | 29 | 3QL |
| 2 | 96 | 0.45 | 0.80 | 26 | 3QL |
| 3 | 51 | 0.27 | 0.74 | 15 | empty |
Interfaces
1 interface between chains.
- A–B · 4054 Ų buried · 58 hydrogen bonds · protein-protein
Compared structures
- 4WLK · Stationary Phase Survival Protein YuiC from B.subtilis complexed with reaction product · the same entry in another collection · chain A against A, TM-score 1.00
- O32108 · AlphaFold monomer V2.0 prediction for uncharacterized protein yuic (O32108) · a predicted model of the same protein · chain A against A, TM-score 0.72
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 O32108
- Elsewhere: RCSB PDB 4WLK · PDBe 4WLK · UniProt O32108
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.