E.COLI'S putrescine receptor potf complexed with agmatine

Structure

x-ray diffraction · 2 distinct chains · 50% helix, 18% strand (DSSP).

Ligands and binding sites

• JFN · (2R)-1-methoxypropan-2-amine · ligand · 15 copies · chains A, B
• ONT · (2~{S})-1-(2-methoxyethoxy)propan-2-amine · ligand · 4 copies · chains A, B
• AG2 · Agmatine · ligand · 2 copies · chains A, B
• ONW · (2~{R})-1-[(2~{R})-1-(2-methoxyethoxy)propan-2-yl]oxypropan-2-amine · ligand · chains A
• CL · Chloride ion · ion · 5 copies · chains A, B
• SO4 · Sulfate ion · ion · 4 copies · chains A, B

Binding sites are the residues within 4.5 Å of a ligand's heavy atoms.

Pockets

3 pockets found on a 1 Å grid, 1 with a druggability of 0.5 or more.

Interfaces

1 interface between chains.

• A–B · 293 Ų buried · 6 hydrogen bonds · protein-protein

Modifications

Observed in the structure: 2 disulfide (disulfide).

Compared structures

• 6YE6 · E.coli's Putrescine receptor PotF complexed with Agmatine · the same entry in another collection · chain A against A, TM-score 1.00
• P31133 · AlphaFold monomer V2.0 prediction for putrescine-binding periplasmic protein potf (P31133) · a predicted model of the same protein · 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 P31133
• Elsewhere: RCSB PDB 6YE6 · PDBe 6YE6 · UniProt P31133