Research workbench
Crystal structure of protein BSU07140 from bacillus subtilis
Analyse Crystal structure of protein BSU07140 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
- 3C6F
- Type
- protein
- Length
- 549 residues
- Chains
- 4
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Yetf protein
- UniProt
- O31533
- Pockets
- 7 · best druggability 0.83
Structure
x-ray diffraction · 2 distinct chains · 33% helix, 25% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B, C | Yetf protein | protein | 137 | 31% helix, 26% strand | O31533 |
| D | Yetf protein | protein | 138 | 36% helix, 25% strand | O31533 |
Ligands and binding sites
- GOL · Glycerol · additive · chains A, B, D
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
7 pockets found on a 1 Å grid, 6 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 844 | 0.83 | 0.85 | 103 | empty |
| 2 | 251 | 0.70 | 0.85 | 38 | empty |
| 3 | 221 | 0.58 | 0.79 | 30 | GOL |
| 4 | 183 | 0.56 | 0.80 | 28 | empty |
| 5 | 176 | 0.56 | 0.80 | 20 | empty |
Interfaces
6 interfaces between chains.
- B–D · 1361 Ų buried · 8 hydrogen bonds · protein-protein
- A–C · 1247 Ų buried · 5 hydrogen bonds · protein-protein
- A–D · 1011 Ų buried · 17 hydrogen bonds · protein-protein
- A–B · 1004 Ų buried · 12 hydrogen bonds · protein-protein
- C–D · 997 Ų buried · 15 hydrogen bonds · protein-protein
Compared structures
- 3C6F · Crystal structure of protein Bsu07140 from Bacillus subtilis · the same entry in another collection · chain A against A, TM-score 1.00
- O31533 · AlphaFold monomer V2.0 prediction for UPF0702 transmembrane protein yetf (O31533) · a predicted model of the same protein · chain D against A, TM-score 0.95
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 O31533
- Elsewhere: RCSB PDB 3C6F · PDBe 3C6F · UniProt O31533
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