8CK7

Avidin complexed to theophylline

Summary for 8CK7

• Entry DOI: 10.2210/pdb8ck7/pdb
• Descriptor: Avidin, GLYCEROL, 2-acetamido-2-deoxy-beta-D-glucopyranose, ... (6 entities in total)
• Functional Keywords: avidin, theophylline, xanthine, protein binding
• Biological source: Gallus gallus (chicken)
• Total number of polymer chains: 2
• Total formula weight: 28810.11

Authors

De March, M. (deposition date: 2023-02-14, release date: 2023-12-27, Last modification date: 2024-11-06)

Primary citation

Spinello, A.,Lapenta, F.,De March, M.
The avidin-theophylline complex: A structural and computational study.
Proteins, 91:1437-1443, 2023

PubMed Abstract: The interaction between avidin and its counterpart biotin is one of central importance in biology and has been reproposed and studied at length. However, the binding pocket of avidin is prone to promiscuous binding, able to accommodate even non-biotinylated ligands. Comprehending the factors that distinguish the extremely strong interaction with biotin to other ligands is an important step to fully picture the thermodynamics of these low-affinity complexes. Here, we present the complex between chicken white egg avidin and theophylline (TEP), the xanthine derivative used in the therapy of asthma. In the crystal structure, TEP lies in the biotin-binding pocket with the same orientation and planarity of the aromatic ring of 8-oxodeoxyguanosine. Indeed, its affinity for avidin measured by isothermal titration calorimetry is in the same μM range as those obtained for the previously characterized nucleoside derivatives. By the use of molecular dynamic simulations, we have investigated the most important intermolecular interactions occurring in the avidin-TEP binding pocket and compared them with those obtained for the avidin 8-oxodeoxyguanosine and avidin-biotin complexes. These results testify the capability of avidin to complex purely aromatic molecules.

PubMed: 37318226
DOI: 10.1002/prot.26538

Experimental method

X-RAY DIFFRACTION (2.2 Å)