4C6Y

Ancestral PNCA (last common ancestors of Gram-positive and Gram- negative bacteria) beta-lactamase class A

Summary for 4C6Y

• Entry DOI: 10.2210/pdb4c6y/pdb
• Related: 4C75
• Descriptor: BETA-LACTAMASE, TETRAETHYLENE GLYCOL, DI(HYDROXYETHYL)ETHER, ... (8 entities in total)
• Functional Keywords: hydrolase, antibiotic resistance
• Biological source: SYNTHETIC CONSTRUCT
• Total number of polymer chains: 2
• Total formula weight: 59086.04

Authors

Gavira, J.A.,Risso, V.A.,Sanchez-Ruiz, J.M. (deposition date: 2013-09-19, release date: 2014-04-16, Last modification date: 2023-12-20)

Primary citation

Risso, V.A.,Gavira, J.A.,Gaucher, E.A.,Sanchez-Ruiz, J.M.
Phenotypic Comparisons of Consensus Variants Versus Laboratory Resurrections of Precambrian Proteins.
Proteins, 82:887-, 2014

PubMed Abstract: Consensus-sequence engineering has generated protein variants with enhanced stability, and sometimes, with modulated biological function. Consensus mutations are often interpreted as the introduction of ancestral amino acid residues. However, the precise relationship between consensus engineering and ancestral protein resurrection is not fully understood. Here, we report the properties of proteins encoded by consensus sequences derived from a multiple sequence alignment of extant, class A β-lactamases, as compared with the properties of ancient Precambrian β-lactamases resurrected in the laboratory. These comparisons considered primary sequence, secondary, and tertiary structure, as well as stability and catalysis against different antibiotics. Out of the three consensus variants generated, one could not be expressed and purified (likely due to misfolding and/or low stability) and only one displayed substantial stability having substrate promiscuity, although to a lower extent than ancient β-lactamases. These results: (i) highlight the phenotypic differences between consensus variants and laboratory resurrections of ancestral proteins; (ii) question interpretations of consensus proteins as phenotypic proxies of ancestral proteins; and (iii) support the notion that ancient proteins provide a robust approach toward the preparation of protein variants having large numbers of mutational changes while possessing unique biomolecular properties.

PubMed: 24710963
DOI: 10.1002/PROT.24575

Experimental method

X-RAY DIFFRACTION (1.799 Å)