DNA polymerase beta-like nucleotidyltransferase superfamily: identification of three new families, classification and evolutionary history [PDF]
Nucleic Acids Research, 1999 A detailed analysis of the polbeta superfamily of nucleotidyltransferases was performed using computer methods for iterative database search, multiple alignment, motif analysis and structural modeling. Three previously uncharacterized families of predicted nucleotidyltransferases are described. One of these new families includes small proteins found in
L, Aravind, E V, Koonin
semanticscholar +5 more sources
The arms race between bacteria CBASS and bacteriophages
Frontiers in Immunology, 2023 The Bacterial Cyclic oligonucleotide-Based Anti-phage Signaling System (CBASS) is an innate immune system that induces cell suicide to defend against phage infections.
Lan Wang +5 more
doaj +2 more sources
Functional Dissection of the DNA Interface of the Nucleotidyltransferase Domain of Chlorella Virus DNA Ligase [PDF]
Journal of Biological Chemistry, 2011 Chlorella virus DNA ligase (ChVLig) has pluripotent biological activity and an intrinsic nick-sensing function. ChVLig consists of three structural modules that envelop nicked DNA as a C-shaped protein clamp: a nucleotidyltransferase (NTase) domain and an OB domain (these two are common to all DNA ligases) as well as a distinctive β-hairpin latch ...
Poulami, Samai, Stewart, Shuman
openaire +4 more sources
Structure-guided Mutational Analysis of the Nucleotidyltransferase Domain of Escherichia coli DNA Ligase (LigA) [PDF]
Journal of Biological Chemistry, 2009 NAD(+)-dependent DNA ligases (LigA) are ubiquitous in bacteria, where they are essential for growth and present attractive targets for antimicrobial drug discovery. LigA has a distinctive modular structure in which a nucleotidyltransferase catalytic domain is flanked by an upstream NMN-binding module and by downstream OB-fold, zinc finger, helix ...
Li Kai, Wang, Hui, Zhu, Stewart, Shuman
openaire +4 more sources
Kinetic Analysis of DNA Strand Joining by Chlorella Virus DNA Ligase and the Role of Nucleotidyltransferase Motif VI in Ligase Adenylylation [PDF]
Journal of Biological Chemistry, 2012 Chlorella virus DNA ligase (ChVLig) is an instructive model for mechanistic studies of the ATP-dependent DNA ligase family. ChVLig seals 3'-OH and 5'-PO(4) termini via three chemical steps: 1) ligase attacks the ATP α phosphorus to release PP(i) and form a covalent ligase-adenylate intermediate; 2) AMP is transferred to the nick 5'-phosphate to form ...
Poulami, Samai, Stewart, Shuman
openaire +4 more sources
Structure-guided Mutational Analysis of the Nucleotidyltransferase Domain of Escherichia coli NAD+-dependent DNA Ligase (LigA) [PDF]
Journal of Biological Chemistry, 2005 NAD+-dependent DNA ligase (LigA) is essential for bacterial growth and a potential target for antimicrobial drug discovery. Here we queried the role of 14 conserved amino acids of Escherichia coli LigA by alanine scanning and thereby identified five new residues within the nucleotidyltransferase domain as being essential for LigA function in vitro and ...
Hui, Zhu, Stewart, Shuman
openaire +4 more sources
Role of nucleotidyltransferase motifs I, III and IV in the catalysis of phosphodiester bond formation by Chlorella virus DNA ligase [PDF]
Nucleic Acids Research, 2002 ATP-dependent DNA ligases catalyze the sealing of 5'-phosphate and 3'-hydroxyl termini at DNA nicks by means of a series of three nucleotidyl transfer steps. Here we have analyzed by site-directed mutagenesis the roles of conserved amino acids of Chlorella virus DNA ligase during the third step of the ligation pathway, which entails reaction of the 3 ...
Verl, Sriskanda, Stewart, Shuman
openaire +3 more sources
Primase-polymerases are a functionally diverse superfamily of replication and repair enzymes [PDF]
Nucleic Acids Research, 2015 Until relatively recently, DNA primases were viewed simply as a class of proteins that synthesize short RNA primers requisite for the initiation of DNA replication.
Aidan J. Doherty +17 more
core +2 more sources
Frontiers in Microbiology, 2016 Here we report the complete genome sequence of the chemoorganotrophic, extremely thermophilic bacterium, Dictyoglomus turgidum, which is a Gram negative, strictly anaerobic bacterium. D. turgidum and D.
Phillip Brumm +6 more
doaj +2 more sources
Inducible auto-phosphorylation regulates a widespread family of nucleotidyltransferase toxins
Nature CommunicationsNucleotidyltransferases (NTases) control diverse physiological processes, including RNA modification, DNA replication and repair, and antibiotic resistance.
Tom J. Arrowsmith +8 more
doaj +2 more sources