Research workbench
The solution structure of the lpta-thanatin complex
Analyse The solution structure of the lpta-thanatin complex in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 6GD5
- Type
- protein
- Length
- 138 residues
- Chains
- 2
- Method
- solution nmr
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Lipopolysaccharide export system protein lpta; Thanatin
- UniProt
- P0ADV1, P55788
- Pockets
- 1 · best druggability 0.63
Structure
solution nmr · 2 distinct chains · 0% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Lipopolysaccharide export system protein lpta | protein | 117 | 0% helix, 52% strand | P0ADV1 |
| B | Thanatin | protein | 21 | 0% helix, 38% strand | P55788 |
Pockets
1 pocket found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 161 | 0.63 | 0.85 | 28 | empty |
Interfaces
1 interface between chains.
- A–B · 869 Ų buried · 15 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 1 disulfide (disulfide).
Compared structures
- 6GD5 · The solution structure of the LptA-Thanatin complex · the same entry in another collection · chain A against A, TM-score 1.00
- P0ADV1 · AlphaFold monomer V2.0 prediction for lipopolysaccharide export system protein lpta… · a predicted model of the same protein · chain A against A, TM-score 0.77
- P55788 · AlphaFold monomer V2.0 prediction for thanatin (P55788) · a predicted model of the same protein · chain B against A, TM-score 0.43
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 P0ADV1
- Every structure of UniProt P55788
- Elsewhere: RCSB PDB 6GD5 · PDBe 6GD5 · UniProt P0ADV1 · UniProt P55788
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