A combinatorial scoring function for protein–RNA docking
Z Zhang, L Lu, Y Zhang, C Hua Li… - Proteins: Structure …, 2017 - Wiley Online Library
Protein–RNA docking is still an open question. One of the main challenges is to develop an
effective scoring function that can discriminate near‐native structures from the incorrect …
effective scoring function that can discriminate near‐native structures from the incorrect …
Structural and energy determinants in protein-RNA docking
L Pérez-Cano, M Romero-Durana, J Fernández-Recio - Methods, 2017 - Elsevier
Deciphering the structural and energetic determinants of protein-RNA interactions harbors
the potential to understand key cell processes at molecular level, such as gene expression …
the potential to understand key cell processes at molecular level, such as gene expression …
Sequence-specific cleavage of the RNA strand in DNA–RNA hybrids by the fusion of ribonuclease H with a zinc finger
AA Sulej, I Tuszynska, KJ Skowronek… - Nucleic acids …, 2012 - academic.oup.com
Ribonucleases (RNases) are valuable tools applied in the analysis of RNA sequence,
structure and function. Their substrate specificity is limited to recognition of single bases or …
structure and function. Their substrate specificity is limited to recognition of single bases or …
Discovering RNA-protein interactome by using chemical context profiling of the RNA-protein interface
RNA-protein (RNP) interactions generally are required for RNA function. At least 5% of
human genes code for RNA-binding proteins. Whereas many approaches can identify the …
human genes code for RNA-binding proteins. Whereas many approaches can identify the …
Prion protein transcription is auto-regulated through dynamic interactions with G-quadruplex motifs in its own promoter
Cellular prion protein (PrP) misfolds into an aberrant and infectious scrapie form (PrP Sc)
that lead to fatal transmissible spongiform encephalopathies (TSEs). Association of prions …
that lead to fatal transmissible spongiform encephalopathies (TSEs). Association of prions …
A structure-based model for the prediction of protein–RNA binding affinity
Protein–RNA recognition is highly affinity-driven and regulates a wide array of cellular
functions. In this study, we have curated a binding affinity data set of 40 protein–RNA …
functions. In this study, we have curated a binding affinity data set of 40 protein–RNA …
A pair-conformation-dependent scoring function for evaluating 3D RNA-protein complex structures
H Li, Y Huang, Y Xiao - PLoS One, 2017 - journals.plos.org
Computational prediction of RNA-protein complex 3D structures includes two basic steps:
one is sampling possible structures and another is scoring the sampled structures to pick out …
one is sampling possible structures and another is scoring the sampled structures to pick out …
Methods for molecular modelling of protein complexes
Biological processes are often mediated by complexes formed between proteins and
various biomolecules. The 3D structures of such protein–biomolecule complexes provide …
various biomolecules. The 3D structures of such protein–biomolecule complexes provide …
Computational analysis of amino acids and their sidechain analogs in crowded solutions of RNA nucleobases with implications for the mRNA–protein …
M Hajnic, JI Osorio, B Zagrovic - Nucleic acids research, 2014 - academic.oup.com
Many critical processes in the cell involve direct binding between RNAs and proteins,
making it imperative to fully understand the physicochemical principles behind such …
making it imperative to fully understand the physicochemical principles behind such …
The FOXP2 forkhead domain binds to a variety of DNA sequences with different rates and affinities
H Webb, O Steeb, A Blane, L Rotherham… - The journal of …, 2017 - academic.oup.com
FOXP2 is a member of the P subfamily of FOX transcription factors, the DNA-binding domain
of which is the winged helix forkhead domain (FHD). In this work we show that the FOXP2 …
of which is the winged helix forkhead domain (FHD). In this work we show that the FOXP2 …