Research workbench
Crystal structure of cbs domain-containing protein ykul from bacillus subtilis
Analyse Crystal structure of cbs domain-containing protein ykul from bacillus subtilis in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 1YAV
- Type
- protein
- Length
- 269 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Hypothetical protein BSU14130
- UniProt
- O31698
- Ligands
- SO4
- Pockets
- 3 · best druggability 0.63
Structure
x-ray diffraction · 2 distinct chains · 40% helix, 28% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Hypothetical protein BSU14130 | protein | 134 | 38% helix, 28% strand | O31698 |
| B | Hypothetical protein BSU14130 | protein | 135 | 42% helix, 28% strand | O31698 |
Ligands and binding sites
- SO4 · Sulfate ion · ion · 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, 2 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 206 | 0.63 | 0.82 | 28 | empty |
| 2 | 551 | 0.62 | 0.74 | 51 | SO4 |
| 3 | 66 | 0.35 | 0.77 | 14 | empty |
Interfaces
1 interface between chains.
- A–B · 1410 Ų buried · 12 hydrogen bonds · protein-protein
Compared structures
- 1YAV · Crystal structure of CBS domain-containing protein ykuL from Bacillus subtilis · the same entry in another collection · chain A against A, TM-score 1.00
- O31698 · AlphaFold monomer V2.0 prediction for cbs domain-containing protein ykul (O31698) · a predicted model of the same protein · chain B against A, TM-score 0.99
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 O31698
- Elsewhere: RCSB PDB 1YAV · PDBe 1YAV · UniProt O31698
GL1X is a live explorer of the GenesisL1 blockchain. Turn on JavaScript for search, charts and interactive views.