The roles of water in the protein matrix: a largely untapped resource for drug discovery

F Spyrakis, MH Ahmed, AS Bayden… - Journal of medicinal …, 2017 - ACS Publications
The value of thoroughly understanding the thermodynamics specific to a drug
discovery/design study is well known. Over the past decade, the crucial roles of water …

Lipophilicity in drug design: An overview of lipophilicity descriptors in 3D-QSAR studies

T Ginex, J Vazquez, E Gilbert, E Herrero… - Future medicinal …, 2019 - Taylor & Francis
The pharmacophore concept is a fundamental cornerstone in drug discovery, playing a
critical role in determining the success of in silico techniques, such as virtual screening and …

GntR family of bacterial transcription factors and their DNA binding motifs: structure, positioning and co-evolution

IA Suvorova, YD Korostelev, MS Gelfand - PloS one, 2015 - journals.plos.org
The GntR family of transcription factors (TFs) is a large group of proteins present in diverse
bacteria and regulating various biological processes. Here we use the comparative …

Biological characterization of 3-(2-amino-ethyl)-5-[3-(4-butoxyl-phenyl)-propylidene]-thiazolidine-2, 4-dione (K145) as a selective sphingosine kinase-2 inhibitor and …

K Liu, TL Guo, NC Hait, J Allegood, HI Parikh, W Xu… - PloS one, 2013 - journals.plos.org
In our effort to develop selective sphingosine kinase-2 (SphK2) inhibitors as
pharmacological tools, a thiazolidine-2, 4-dione analogue, 3-(2-amino-ethyl)-5-[3-(4-butoxyl …

Design of O-Acetylserine Sulfhydrylase Inhibitors by Mimicking Nature

E Salsi, AS Bayden, F Spyrakis… - Journal of medicinal …, 2010 - ACS Publications
The inhibition of cysteine biosynthesis in prokaryotes and protozoa has been proposed to be
relevant for the development of antibiotics. Haemophilus influenzae O-acetylserine …

Hybrid in silico/in vitro approach for the identification of angiotensin I converting enzyme inhibitory peptides from Parma dry-cured ham

L Dellafiora, S Paolella, C Dall'Asta… - Journal of Agricultural …, 2015 - ACS Publications
The bioactivity assessment of foodborne peptides is currently a research area of great
relevance, and, in particular, several studies are devoted to the antihypertensive effects …

[HTML][HTML] Degradation of Aflatoxins by Means of Laccases from Trametes versicolor: An In Silico Insight

L Dellafiora, G Galaverna, M Reverberi, C Dall'Asta - Toxins, 2017 - mdpi.com
Mycotoxins are secondary metabolites of fungi that contaminate food and feed, and are
involved in a series of foodborne illnesses and disorders in humans and animals. The …

Bound water at protein-protein interfaces: partners, roles and hydrophobic bubbles as a conserved motif

MH Ahmed, F Spyrakis, P Cozzini, PK Tripathi… - PloS one, 2011 - journals.plos.org
Background There is a great interest in understanding and exploiting protein-protein
associations as new routes for treating human disease. However, these associations are …

Fine tuning of the active site modulates specificity in the interaction of O-acetylserine sulfhydrylase isozymes with serine acetyltransferase

F Spyrakis, P Felici, AS Bayden, E Salsi… - … et Biophysica Acta (BBA …, 2013 - Elsevier
O-acetylserine sulfhydrylase (OASS) catalyzes the synthesis of l-cysteine in the last step of
the reductive sulfate assimilation pathway in microorganisms. Its activity is inhibited by the …

Structural insight into operator dre-sites recognition and effector binding in the GntR/HutC transcription regulator NagR

SB Fillenberg, FC Grau, G Seidel… - Nucleic acids …, 2015 - academic.oup.com
The uptake and metabolism of N-acetylglucosamine (GlcNAc) in Bacillus subtilis is
controlled by NagR (formerly named YvoA), a member of the widely-occurring GntR/HutC …