Research workbench
Structural insight into the giant calcium-binding adhesin siie: implications for the adhesion of salmonella enterica to polarized epithelial cells
Analyse Structural insight into the giant calcium-binding adhesin siie: implications… in the GL1X research workbench: secondary structure, accessibility, pockets, interfaces, conservation, variants, modifications, peptides, crosslinks and neighbours on the 3D structure.
- PDB
- 2YN5
- Type
- protein
- Length
- 567 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Putative inner membrane protein
- UniProt
- Q8ZKG6
- Ligands
- CA
- Pockets
- 4 · best druggability 0.75
Structure
x-ray diffraction · 2 distinct chains · 2% helix, 50% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A | Putative inner membrane protein | protein | 283 | 2% helix, 51% strand | Q8ZKG6 |
| B | Putative inner membrane protein | protein | 284 | 2% helix, 50% strand | Q8ZKG6 |
Ligands and binding sites
- CA · Calcium ion · metal · 9 copies · chains A, B
Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.
Pockets
4 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.
| Volume (ų) | Druggability | Buriedness | Lining residues | Inside | |
|---|---|---|---|---|---|
| 1 | 953 | 0.75 | 0.78 | 86 | empty |
| 2 | 94 | 0.41 | 0.78 | 20 | empty |
| 3 | 56 | 0.32 | 0.77 | 18 | empty |
| 4 | 68 | 0.28 | 0.73 | 16 | empty |
Interfaces
1 interface between chains.
- A–B · 1066 Ų buried · 7 hydrogen bonds · protein-protein
Compared structures
- 2YN5 · Structural insight into the giant calcium-binding adhesin SiiE: implications for the… · 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
- Every structure of UniProt Q8ZKG6
- Elsewhere: RCSB PDB 2YN5 · PDBe 2YN5 · UniProt Q8ZKG6
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