Stoddard Lab

Stoddard Lab

Stoddard lab members

Our Research

The overall goal of our laboratory is to characterize the structure/function relationships of a variety of enzymatic catalysts at the atomic level. Much of this work is being extended into efforts to engineer novel structures and properties onto existing protein and enzyme scaffolds. A unifying theme between many of the individual projects is the selection and engineering of these enzymes for targeted therapeutic and/or biotech/industrical applications.

The tools employed by our lab are X-ray crystallography, computer modeling, and genetic manipulation of the molecules of interest, combined with biochemical analyses of function.
 

Recent Publications

Nature Structure & Molecular Biology 2025

Glasscock CJ, Pecoraro RJ, McHugh R, Doyle LA, Chen W, Boivin O, Lonnquist B, Na E, Politanska Y, Haddox HK, Cox D, Norn C, Coventry B, Goreshnik I, Vafeados D, Lee GR, Gordân R, Stoddard BL, DiMaio F, Baker D. Computational design of sequence-specific DNA-binding proteins. Nat Struct Mol Biol. 2025 Sep 12. doi: 10.1038/s41594-025-01669-4. Epub ahead of print. PMID: 40940539.

Nucleic Acids Research 2025

Readshaw JJ, Doyle LA, Puiu M, Kelly A, Nelson A, Kaiser AJ, McGuire SF, Peralta Acosta J, Smith DL, Stoddard BL, Kaiser BK, Blower TR. PglZ from Type I BREX phage defence systems is a metal-dependent nuclease that forms a sub-complex with BrxB. Nucleic Acids Res. 2025 Jun 20;53(12):gkaf540. doi: 10.1093/nar/gkaf540. PMID: 40548935; PMCID: PMC12205998.

Nucleic Acids Research 2025

Shen BW, Heiter D, Yang W, Xu SY, Stoddard BL. Cryo-EM structures of DNA-free and DNA-bound BsaXI: architecture of a Type IIB restriction-modification enzyme. Nucleic Acids Res. 2025 Apr 10;53(7):gkaf291. doi: 10.1093/nar/gkaf291. PMID: 40239994; PMCID: PMC11997821.