2,183 research outputs found
Reducing the Flexibility of Type II Dehydroquinase for Inhibition: A Fragment‐Based Approach and Molecular Dynamics Study
This is the peer-reviewed version of the following article: Peón, A., Robles, A., Blanco, B., Convertino, M., Thompson, P., & Hawkins, A. et al. (2017). Reducing the Flexibility of Type II Dehydroquinase for Inhibition: A Fragment-Based Approach and Molecular Dynamics Study. Chemmedchem, 12(18), 1512-1524, which has been published in final form at https://doi.org/10.1002/cmdc.201700396. This article may be used for non-commercial purposes in accordance with Wiley-VCH Terms and Conditions for Self-ArchivingA multidisciplinary approach was used to identify and optimize a quinazolinedione‐based ligand that would decrease the flexibility of the substrate‐covering loop (catalytic loop) of the type II dehydroquinase from Helicobacter pylori. This enzyme, which is essential for the survival of this bacterium, is involved in the biosynthesis of aromatic amino acids. A computer‐aided fragment‐based protocol (ALTA) was first used to identify the aromatic fragments able to block the interface pocket that separates two neighboring enzyme subunits and is located at the active site entrance. Chemical modification of its non‐aromatic moiety through an olefin cross‐metathesis and Seebach's self‐reproduction of chirality synthetic principle allowed the development of a quinazolinedione derivative that disables the catalytic loop plasticity, which is essential for the enzyme′s catalytic cycle. Molecular dynamics simulations revealed that the ligand would force the catalytic loop into an inappropriate arrangement for catalysis by strong interactions with the catalytic tyrosine and by expelling the essential arginine out of the active siteSecretaría de Estado de Investigación, Desarrollo e Innovación. Grant Numbers: SAF2013-42899-R, SAF2016-75638-R
Consellería de Cultura, Educación e Ordenación Universitaria, Xunta de Galicia. Grant Number: ED431G/09
European Regional Development Fund
Ministerio de Educación, Cultura y DeporteS
Search for single top quarks in the tau+jets channel using 4.8 fb of collision data
We present the first direct search for single top quark production using tau
leptons. The search is based on 4.8 fb of integrated luminosity
collected in collisions at =1.96 TeV with the D0 detector
at the Fermilab Tevatron Collider. We select events with a final state
including an isolated tau lepton, missing transverse energy, two or three jets,
one or two of them tagged. We use a multivariate technique to discriminate
signal from background. The number of events observed in data in this final
state is consistent with the signal plus background expectation. We set in the
tau+jets channel an upper limit on the single top quark cross section of
\TauLimObs pb at the 95% C.L. This measurement allows a gain of 4% in expected
sensitivity for the observation of single top production when combining it with
electron+jets and muon+jets channels already published by the D0 collaboration
with 2.3 fb of data. We measure a combined cross section of
\SuperCombineXSall pb, which is the most precise measurement to date.Comment: 12 pages, 5 figure
b-Jet Identification in the D0 Experiment
Algorithms distinguishing jets originating from b quarks from other jet
flavors are important tools in the physics program of the D0 experiment at the
Fermilab Tevatron p-pbar collider. This article describes the methods that have
been used to identify b-quark jets, exploiting in particular the long lifetimes
of b-flavored hadrons, and the calibration of the performance of these
algorithms based on collider data.Comment: submitted to Nuclear Instruments and Methods in Physics Research
Search for Large extra spatial dimensions in the dielectron and diphoton channels in collisions at 1.96 TeV
We report on a search for large extra spatial dimensions in the dielectron
and diphoton channels using a data sample of 1.05 \invfb of \ppb collisions at
a center-of-mass energy of 1.96 TeV collected by the D0 detector at the
Fermilab Tevatron Collider. The invariant mass spectrum of the data agrees well
with the prediction of the standard model. We find 95% C.L. lower limits on the
effective Planck scale between 2.1 and 1.3 TeV for 2 to 7 extra dimensions.Comment: 7 pages, 3 figures, 3 tables, submitted to Phys. Rev. Let
Search for resonant diphoton production with the D0 detector
We present a search for a narrow resonance in the inclusive diphoton final
state using 2.7 fb-1 of data collected with the D0 detector at the Fermilab
Tevatron ppbar Collider. We observe good agreement between the data and the
background prediction, and set the first 95% C.L. upper limits on the
production cross section times the branching ratio for decay into a pair of
photons for resonance masses between 100 and 150 GeV. This search is also
interpreted in the context of several models of electroweak symmetry breaking
with a Higgs boson decaying into two photons.Comment: 7 pages, 3 figures
Search for charged massive long-lived particles with the D0 detector
We search for charged massive long-lived particles using 1.1 fb of
data collected by the D0 detector at the Fermilab Tevatron Collider.
Time-of-flight information is used to search for pair produced long-lived tau
sleptons, gaugino-like charginos, and higgsino-like charginos. We find no
evidence of a signal and set 95% C.L. cross section upper limits for staus,
which vary from 0.31pb to 0.04pb for stau masses between 60 GeV and 300 GeV. We
also set lower mass limits of 206 GeV (171 GeV) for pair produced charged
gauginos (higgsinos).Comment: To be submitted to Phys. Rev. Letters, V2: updated the figures and
references, V3: final version submitted to PRL and changes in title and
abstracts from "stable" to "long-lived
Measurement of Z/gamma*+jet+X angular distributions in ppbar collisions at sqrt{s}=1.96 TeV
We present the first measurements at a hadron collider of differential cross
sections for Z+jet+X production in delta phi(Z, jet), |delta y(Z, jet)| and
|y_boost(Z, jet)|. Vector boson production in association with jets is an
excellent probe of QCD and constitutes the main background to many small cross
section processes, such as associated Higgs production. These measurements are
crucial tests of the predictions of perturbative QCD and current event
generators, which have varied success in describing the data. Using these
measurements as inputs in tuning event generators will increase the
experimental sensitivity to rare signals.Comment: Published in Physics Letters B 682 (2010), pp. 370-380. 15 pages, 6
figure
Measurement of the p-pbar -> Wgamma + X cross section at sqrt(s) = 1.96 TeV and WWgamma anomalous coupling limits
The WWgamma triple gauge boson coupling parameters are studied using p-pbar
-> l nu gamma + X (l = e,mu) events at sqrt(s) = 1.96 TeV. The data were
collected with the DO detector from an integrated luminosity of 162 pb^{-1}
delivered by the Fermilab Tevatron Collider. The cross section times branching
fraction for p-pbar -> W(gamma) + X -> l nu gamma + X with E_T^{gamma} > 8 GeV
and Delta R_{l gamma} > 0.7 is 14.8 +/- 1.6 (stat) +/- 1.0 (syst) +/- 1.0 (lum)
pb. The one-dimensional 95% confidence level limits on anomalous couplings are
-0.88 < Delta kappa_{gamma} < 0.96 and -0.20 < lambda_{gamma} < 0.20.Comment: Submitted to Phys. Rev. D Rapid Communication
Measurement of the ttbar Production Cross Section in ppbar Collisions at sqrt{s} = 1.96 TeV using Kinematic Characteristics of Lepton + Jets Events
We present a measurement of the top quark pair ttbar production cross section
in ppbar collisions at a center-of-mass energy of 1.96 TeV using 230 pb**{-1}
of data collected by the DO detector at the Fermilab Tevatron Collider. We
select events with one charged lepton (electron or muon), large missing
transverse energy, and at least four jets, and extract the ttbar content of the
sample based on the kinematic characteristics of the events. For a top quark
mass of 175 GeV, we measure sigma(ttbar) = 6.7 {+1.4-1.3} (stat) {+1.6- 1.1}
(syst) +/-0.4 (lumi) pb, in good agreement with the standard model prediction.Comment: submitted to Phys.Rev.Let
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