Research workbench
Periplasmic portion of the helicobacter pylori chemoreceptor tlpb with acetamide bound
Analyse Periplasmic portion of the helicobacter pylori chemoreceptor tlpb with… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 3UB7
- Type
- protein
- Length
- 321 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Chemoreceptor tlpb
- Ligands
- ACM, SO4
- Pockets
- 2 · best druggability 0.70
Structure
x-ray diffraction · 2 distinct chains · 49% helix, 23% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Chemoreceptor tlpb | protein | 160 | 49% helix, 23% strand | — |
| B | Chemoreceptor tlpb | protein | 161 | 48% helix, 23% strand | — |
Ligands and binding sites
- ACM · Acetamide · ligand · 2 copies · chains A, B
- SO4 · Sulfate ion · ion · 2 copies · chains A, B
- GOL · Glycerol · additive · 2 copies · chains B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
2 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 58 | 0.70 | 0.97 | 21 | SO4 |
| 2 | 54 | 0.39 | 0.81 | 21 | ACM |
Interfaces
1 interface between chains.
- A–B · 1491 Ų buried · 18 hydrogen bonds · protein-protein
Compared structures
- 3UB7 · Periplasmic portion of the Helicobacter pylori chemoreceptor TlpB with acetamide bound · 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
- Elsewhere: RCSB PDB 3UB7 · PDBe 3UB7
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