Elastic network models of nucleic acids flexibility
P Setny, M Zacharias - Journal of chemical theory and …, 2013 - ACS Publications
Elastic network models (ENMs) are a useful tool for describing large scale motions in protein
systems. While they are well validated in the context of proteins, relatively little is known …
systems. While they are well validated in the context of proteins, relatively little is known …
Structural basis for sequence specific DNA binding and protein dimerization of HOXA13
Y Zhang, CA Larsen, HS Stadler, JB Ames - PloS one, 2011 - journals.plos.org
The homeobox gene (HOXA13) codes for a transcription factor protein that binds to AT-rich
DNA sequences and controls expression of genes during embryonic morphogenesis. Here …
DNA sequences and controls expression of genes during embryonic morphogenesis. Here …
Ceftriaxone induces glial EAAT‐2 promotor region via NF‐kB conformational changes: An interaction analysis using HADDOCK
Excitotoxicity, depletion of energy metabolites, and ionic imbalance are the major factors
involved in neurodegeneration mediated through excitatory amino acid transporter‐2 (EAAT …
involved in neurodegeneration mediated through excitatory amino acid transporter‐2 (EAAT …
Crystal structure of the Escherichia coli 23S rRNA: m5C methyltransferase RlmI (YccW) reveals evolutionary links between RNA modification enzymes
S Sunita, KL Tkaczuk, E Purta, JM Kasprzak… - Journal of molecular …, 2008 - Elsevier
Methylation is the most common RNA modification in the three domains of life. Transfer of
the methyl group from S-adenosyl-l-methionine (AdoMet) to specific atoms of RNA …
the methyl group from S-adenosyl-l-methionine (AdoMet) to specific atoms of RNA …
How a low-fidelity DNA polymerase chooses non-Watson–Crick from Watson–Crick incorporation
WJ Wu, MI Su, JL Wu, S Kumar, L Lim… - Journal of the …, 2014 - ACS Publications
A dogma for DNA polymerase catalysis is that the enzyme binds DNA first, followed by
MgdNTP. This mechanism contributes to the selection of correct dNTP by Watson–Crick …
MgdNTP. This mechanism contributes to the selection of correct dNTP by Watson–Crick …
Exploiting a reduced set of weighted average features to improve prediction of DNA-binding residues from 3D structures
Predicting DNA-binding residues from a protein three-dimensional structure is a key task of
computational structural proteomics. In the present study, based on machine learning …
computational structural proteomics. In the present study, based on machine learning …
Revealing the molecular interactions of aptamers that specifically bind to the extracellular domain of HER2 cancer biomarker protein: An in silico assessment
Single-stranded (ss) oligonucleotide aptamers are emerging as the promising substitutes for
monoclonal antibodies because of their low production cost and good batch-to-batch …
monoclonal antibodies because of their low production cost and good batch-to-batch …
An SVM-based method for assessment of transcription factor-DNA complex models
Background Atomic details of protein-DNA complexes can provide insightful information for
better understanding of the function and binding specificity of DNA binding proteins. In …
better understanding of the function and binding specificity of DNA binding proteins. In …
High-resolution structure determination of the CylR2 homodimer using paramagnetic relaxation enhancement and structure-based prediction of molecular alignment
S Rumpel, S Becker, M Zweckstetter - Journal of biomolecular NMR, 2008 - Springer
Abstract Structure determination of homooligomeric proteins by NMR spectroscopy is difficult
due to the lack of chemical shift perturbation data, which is very effective in restricting the …
due to the lack of chemical shift perturbation data, which is very effective in restricting the …
Poly (ADP-ribose) polymerase 1 mediated arginase II activation is responsible for oxidized LDL-induced endothelial dysfunction
Q Wang, T Zhao, W Zhang, W Yu, B Liu… - Frontiers in …, 2018 - frontiersin.org
It is well known that arginase II leads to decreased synthesis of nitric oxide (NO) by
competing with endothelial nitric oxide synthase (eNOS) for their same substrate l-arginine …
competing with endothelial nitric oxide synthase (eNOS) for their same substrate l-arginine …