Docking and scoring for nucleic acid–ligand interactions: Principles and current status
Nucleic acid (NA)–ligand interactions have crucial roles in many cellular processes and,
thus, are increasingly attracting therapeutic interest in drug discovery. Molecular docking is a …
thus, are increasingly attracting therapeutic interest in drug discovery. Molecular docking is a …
How Good Are Current Docking Programs at Nucleic Acid–Ligand Docking? A Comprehensive Evaluation
Nucleic acid (NA)–ligand interactions are of paramount importance in a variety of biological
processes, including cellular reproduction and protein biosynthesis, and therefore, NAs …
processes, including cellular reproduction and protein biosynthesis, and therefore, NAs …
NLDock: A fast nucleic acid–ligand docking algorithm for modeling RNA/DNA–ligand complexes
Nucleic acid–ligand interactions play an important role in numerous cellular processes such
as gene function expression and regulation. Therefore, nucleic acids such as RNAs have …
as gene function expression and regulation. Therefore, nucleic acids such as RNAs have …
SPA-LN: a scoring function of ligand–nucleic acid interactions via optimizing both specificity and affinity
Nucleic acids have been widely recognized as potential targets in drug discovery and
aptamer selection. Quantifying the interactions between small molecules and nucleic acids …
aptamer selection. Quantifying the interactions between small molecules and nucleic acids …
ITScore-NL: an iterative knowledge-based scoring function for nucleic acid–ligand interactions
Nucleic acid–ligand complexes underlie numerous cellular processes, such as gene
function expression and regulation, in which their three-dimensional structures are important …
function expression and regulation, in which their three-dimensional structures are important …
RNA–ligand molecular docking: Advances and challenges
With rapid advances in computer algorithms and hardware, fast and accurate virtual
screening has led to a drastic acceleration in selecting potent small molecules as drug …
screening has led to a drastic acceleration in selecting potent small molecules as drug …
NPDock: a web server for protein–nucleic acid docking
Protein–RNA and protein–DNA interactions play fundamental roles in many biological
processes. A detailed understanding of these interactions requires knowledge about protein …
processes. A detailed understanding of these interactions requires knowledge about protein …
A nonredundant structure dataset for benchmarking protein‐RNA computational docking
SY Huang, X Zou - Journal of computational chemistry, 2013 - Wiley Online Library
Protein–RNA interactions play an important role in many biological processes. The ability to
predict the molecular structures of protein–RNA complexes from docking would be valuable …
predict the molecular structures of protein–RNA complexes from docking would be valuable …
Computational approaches for predicting the binding sites and understanding the recognition mechanism of protein–DNA complexes
MM Gromiha, R Nagarajan - Advances in protein chemistry and structural …, 2013 - Elsevier
Protein–DNA recognition plays an important role in the regulation of gene expression.
Understanding the influence of specific residues for protein–DNA interactions and the …
Understanding the influence of specific residues for protein–DNA interactions and the …
[HTML][HTML] Molecular modeling applied to nucleic acid-based molecule development
A Krüger, FM Zimbres, T Kronenberger, C Wrenger - Biomolecules, 2018 - mdpi.com
Molecular modeling by means of docking and molecular dynamics (MD) has become an
integral part of early drug discovery projects, enabling the screening and enrichment of large …
integral part of early drug discovery projects, enabling the screening and enrichment of large …