8GIJ

TEM-1 Beta Lactamase Variant 80.b

Summary for 8GIJ

• Entry DOI: 10.2210/pdb8gij/pdb
• Related: 8GII 8OF9
• Descriptor: TEM-1 Beta Lactmase Variant 80.b (2 entities in total)
• Functional Keywords: tem-1, tem1, beta-lactamase, class a beta lactamase, hydrolase
• Biological source: Escherichia coli
• Total number of polymer chains: 2
• Total formula weight: 56786.53

Authors

Fram, B.F.,Gauthier, N.P.,Khan, A.,Sander, C. (deposition date: 2023-03-14, release date: 2024-04-17, Last modification date: 2024-07-17)

Primary citation

Fram, B.,Su, Y.,Truebridge, I.,Riesselman, A.J.,Ingraham, J.B.,Passera, A.,Napier, E.,Thadani, N.N.,Lim, S.,Roberts, K.,Kaur, G.,Stiffler, M.A.,Marks, D.S.,Bahl, C.D.,Khan, A.R.,Sander, C.,Gauthier, N.P.
Simultaneous enhancement of multiple functional properties using evolution-informed protein design.
Nat Commun, 15:5141-5141, 2024

PubMed Abstract: A major challenge in protein design is to augment existing functional proteins with multiple property enhancements. Altering several properties likely necessitates numerous primary sequence changes, and novel methods are needed to accurately predict combinations of mutations that maintain or enhance function. Models of sequence co-variation (e.g., EVcouplings), which leverage extensive information about various protein properties and activities from homologous protein sequences, have proven effective for many applications including structure determination and mutation effect prediction. We apply EVcouplings to computationally design variants of the model protein TEM-1 β-lactamase. Nearly all the 14 experimentally characterized designs were functional, including one with 84 mutations from the nearest natural homolog. The designs also had large increases in thermostability, increased activity on multiple substrates, and nearly identical structure to the wild type enzyme. This study highlights the efficacy of evolutionary models in guiding large sequence alterations to generate functional diversity for protein design applications.

PubMed: 38902262
DOI: 10.1038/s41467-024-49119-x

Experimental method

X-RAY DIFFRACTION (1.59 Å)