Adenylate-forming enzymes

S Schmelz, JH Naismith - Current opinion in structural biology, 2009 - Elsevier
Thioesters, amides, and esters are common chemical building blocks in a wide array of
natural products. The formation of these bonds can be catalyzed in a variety of ways. For …

Aminoacyl-tRNA synthetases in the bacterial world

R Giegé, M Springer - EcoSal Plus, 2016 - Am Soc Microbiol
Aminoacyl-tRNA synthetases (aaRSs) are modular enzymes globally conserved in the three
kingdoms of life. All catalyze the same two-step reaction, ie, the attachment of a …

Structural dynamics of the aminoacylation and proofreading functional cycle of bacterial leucyl-tRNA synthetase

A Palencia, T Crepin, MT Vu, TL Lincecum Jr… - Nature structural & …, 2012 - nature.com
Leucyl-tRNA synthetase (LeuRS) produces error-free leucyl-tRNALeu by coordinating
translocation of the 3′ end of (mis-) charged tRNAs from its synthetic site to a separate …

Activation mechanism of Yarrowia lipolytica lipase immobilized on carbon nanotubes

W Feng, X Sun, P Ji - Soft Matter, 2012 - pubs.rsc.org
Lipases have been widely used as biocatalysts for numerous biotechnological applications.
In an earlier paper, we presented experimental results showing significantly enhanced …

Full implementation of the genetic code by tryptophanyl-tRNA synthetase requires intermodular coupling

L Li, CW Carter - Journal of Biological Chemistry, 2013 - ASBMB
Tryptophanyl-tRNA Synthetase (TrpRS) Urzyme (fragments A and C), a 130-residue
construct containing only secondary structures positioning the HIGH and KMSKS active site …

Incorporating modeling and simulations in undergraduate biophysical chemistry course to promote understanding of structure‐dynamics‐function relationships in …

S Hati, S Bhattacharyya - Biochemistry and Molecular Biology …, 2016 - Wiley Online Library
A project‐based biophysical chemistry laboratory course, which is offered to the
biochemistry and molecular biology majors in their senior year, is described. In this course …

Interplay of flavin's redox states and protein dynamics: an insight from QM/MM simulations of dihydronicotinamide riboside quinone oxidoreductase 2

RM Mueller, MA North, C Yang, S Hati… - The Journal of …, 2011 - ACS Publications
Dihydronicotinamide riboside quinone oxidoreductase 2 is known to catalyze a two-electron
reduction of quinone to hydroquinone using its cofactor, flavin adenine dinucleotide. Using …

Effects of non‐catalytic, distal amino acid residues on activity of E. coli DinB (DNA polymerase IV)

JM Walsh, R Parasuram, PR Rajput… - Environmental and …, 2012 - Wiley Online Library
DinB is one of two Y family polymerases in E. coli and is involved in copying damaged DNA.
DinB is specialized to bypass deoxyguanosine adducts that occur at the N2 position, with its …

Role of coupled dynamics in the catalytic activity of prokaryotic-like prolyl-tRNA synthetases

B Sanford, B Cao, JM Johnson, K Zimmerman… - Biochemistry, 2012 - ACS Publications
Prolyl-tRNA synthetases (ProRSs) have been shown to activate both cognate and some
noncognate amino acids and attach them to specific tRNAPro substrates. For example …

Multiple Pathways Promote Dynamical Coupling between Catalytic Domains in Escherichia coli Prolyl-tRNA Synthetase

JM Johnson, BL Sanford, AM Strom, SN Tadayon… - Biochemistry, 2013 - ACS Publications
Aminoacyl-tRNA synthetases are multidomain enzymes that catalyze covalent attachment of
amino acids to their cognate tRNA. Cross-talk between functional domains is a prerequisite …