A comprehensive screening system for damaged nucleotide-binding proteins.

  title={A comprehensive screening system for damaged nucleotide-binding proteins.},
  author={Daisuke Tsuchimoto and Teruaki Iyama and Mari Nonaka and Nona Abolhassani and Eiko Ohta and Kunihiko Sakumi and Yusaku Nakabeppu},
  journal={Mutation research},
  volume={703 1},
Measuring deaminated nucleotide surveillance enzyme ITPA activity with an ATP-releasing nucleotide chimera
The design and synthesis of an ITPA-specific chimeric dinucleotide (DIAL) that replaces the pyrophosphate leaving group of the native substrate with adenosine triphosphate is described, enabling sensitive detection via luciferase luminescence signaling and the probe is shown to function sensitively and selectively to quantify enzyme activity in vitro.
An efficient proteome-wide strategy for discovery and characterization of cellular nucleotide-protein interactions
A stringent implementation of proteome-wide CETSA based strategy will be applicable for a wide range of metabolites and will therefore greatly facilitate the discovery and studies of interactions and specificities of the many metabolites in human cells that remain uncharacterized.
Comprehensive Characterization of SGTP-Binding Proteins by Orthogonal Quantitative SGTP-Affinity Profiling and SGTP/GTP Competition Assays
This work represents the first comprehensive characterization of SGTP-binding property for the entire human proteome and demonstrates that SGTP binds to several cyclin-dependent kinases (CDKs), which may perturb the CDK-mediated phosphorylation and cell cycle progression.
Global discovery of protein kinases and other nucleotide-binding proteins by mass spectrometry.
The recent developments in the use of mass spectrometry, together with general and widely used affinity enrichment approaches, for the proteome-wide capture, identification and quantification of nucleotide-binding proteins, including protein kinases, ATPases, GTPases, and other nucleotide -binding proteins are reviewed.
Increased levels of inosine in a mouse model of inflammation.
An isotope-dilution, liquid chromatography-coupled, tandem quadrupole mass spectrometric method is developed to quantify representative species across the spectrum of RNA damage products predicted to arise at sites of inflammation, including nucleobase deamination (xanthosine and inosine), oxidation, and alkylation.
Spontaneous Production of Immunoglobulin M in Human Epithelial Cancer Cells
It is found that stimulation of the toll-like receptor 9 (TLR9), which mimics bacterial infection, substantially increased the secretion of IgM in human epithelial cancer cells, indicating that human epitheric cancer cells as well as non-cancer epithelial cells can spontaneously produce IgM with natural antibody activity.


Analysis of nucleoside-binding proteins by ligand-specific elution from dye resin: application to Mycobacterium tuberculosis aldehyde dehydrogenases
It is found that the strongly interacting ligands (NAD and NADH) aided formation of high-quality crystals, permitting solution of the first Mtb ALDH (Rv0223c) structure, which appears to belong to the ALDH-2 class.
NUDT16 is a (deoxy)inosine diphosphatase, and its deficiency induces accumulation of single-strand breaks in nuclear DNA and growth arrest
It is concluded that NUDT16 is a (deoxy)inosine diphosphatase that may function mainly in the nucleus to protect cells from deleterious effects of (d)ITP.
Analysis of the soluble ATP-binding proteome of plant mitochondria identifies new proteins and nucleotide triphosphate interactions within the matrix.
A range of highly enriched proteins were identified from the mitochondrial proteome, including 14-3-3 proteins and RNA binding proteins, as well as proteins known to contain nucleotide binding domains and/or to be inhibited or stimulated by ATP.
Metal Determines Efficiency and Substrate Specificity of the Nuclear NUDIX Decapping Proteins X29 and H29K (Nudt16)*
It is indicated that the metal that binds the X29/H29K proteins in vivo may determine whether these decapping proteins function solely as a negative regulator of ribosome biogenesis or can decap a wider variety of nuclear-limited RNAs.
Discovery of novel targets of quinoline drugs in the human purine binding proteome.
It is shown that aldehyde dehydrogenase 1 and QR2 are selective targets of the quinolines and may provide new insights into the mechanism of action of these drugs.
House cleaning, a part of good housekeeping
Cellular metabolism constantly generates by‐products that are wasteful or even harmful. Such compounds are excreted from the cell or are removed through hydrolysis to normal cellular metabolites by
Mammalian enzymes for preventing transcriptional errors caused by oxidative damage
The results indicate that the elimination of 8-oxoGua-containing ribonucleotides from the precursor pool is important to ensure accurate protein synthesis and that both NUDT5 and MTH1 are involved in this process in human cells.