MolNFT v1 · #137488 · protein
Crystal structure of the lectin domain from the F17-like adhesin, ucld
5VQ5: “Crystal structure of the lectin domain from the F17-like adhesin, ucld”. X-ray diffraction, 1 ligand (IOD), 2 pockets (best druggability 0.52). MolNFT v1 #137488 on GenesisL1: 3D structure, binding sites and pockets in GL1X.
- PDB
- 5VQ5
- Type
- protein
- Length
- 378 residues
- Chains
- 2
- Method
- x-ray diffraction
- Collection
- MolNFT v1 / PDB
- Contract
- 0xDE3723766Bc32dcACD03C17BaA400A7B36837Eba
- Owner
- 0x3396CDB397284571d12822B4ae1189a8E22AAAAA
- Molecule
- Adhesin
- UniProt
- Q8GA71
- Ligands
- IOD
- Pockets
- 2 · best druggability 0.52
Structure
x-ray diffraction · 1 distinct chain · 6% helix, 54% strand (DSSP).
| Chain | Molecule | Type | Residues | Secondary structure | UniProt |
|---|---|---|---|---|---|
| A, B | Adhesin | protein | 189 | 6% helix, 54% strand | Q8GA71 |
Ligands and binding sites
- IOD · Iodide ion · ion · 6 copies · chains A, 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 | 305 | 0.52 | 0.74 | 45 | empty |
| 2 | 182 | 0.46 | 0.75 | 28 | IOD |
Interfaces
1 interface between chains.
- A–B · 161 Ų buried · 0 hydrogen bonds · protein-protein
Modifications
Observed in the structure: 6 modified (engineered).
Compared structures
- 5VQ5 · Crystal Structure of the Lectin Domain From the F17-like Adhesin, UclD · 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 Q8GA71
- Elsewhere: RCSB PDB 5VQ5 · PDBe 5VQ5 · UniProt Q8GA71
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