Conformational analysis of nucleic acids revisited: Curves+ [PDF]
Nucleic Acids Research, 2009 We describe Curves+, a new nucleic acid conformational analysis program which is applicable to a wide range of nucleic acid structures, including those with up to four strands and with either canonical or modified bases and backbones. The program is algorithmically simpler and computationally much faster than the earlier Curves approach, although it ...
Lavery, R. +4 more
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High intrinsic hydrolytic activity of cyanobacterial RNA polymerase compensates for the absence of transcription proofreading factors [PDF]
, 2020 The vast majority of organisms possess transcription elongation factors, the functionally similar bacterial Gre and eukaryotic/archaeal TFIIS/TFS. Their main cellular functions are to proofread errors of transcription and to restart elongation via ...
James, Katherine +2 more
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Nucleotides: Structure and Properties [PDF]
, 2005 Nucleotides consist of a nitrogen-containing base, a five-carbon sugar, and one or more phosphate groups. Cells contain many types of nucleotides, which play a central role in a wide variety of cellular processes, including metabolic regulation and the ...
Bowater, RP
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Solvent interactions stabilising nucleic acid conformers [PDF]
Nucleic Acids Research, 1989 The transition of oligonucleotides from the B to the A conformation has been studied by the use of simple geometric calculations aimed at finding possible hydration sites which could stabilize these conformations. The method involves the classification of equally spaced grid points, surrounding the oligonucleotide, into groups depending on whether a ...
Robert J. Elliott, Julia M. Goodfellow
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DNA Renaturation at the Water-Phenol Interface [PDF]
, 2003 We study DNA adsorption and renaturation in a water-phenol two-phase system, with or without shaking. In very dilute solutions, single-stranded DNA is adsorbed at the interface in a salt-dependent manner.
121 +161 more
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Sensing of endogenous nucleic acids by ZBP1 induces keratinocyte necroptosis and skin inflammation [PDF]
, 2020 Aberrant detection of endogenous nucleic acids by the immune system can cause inflammatory disease. The scaffold function of the signaling kinase RIPK1 limits spontaneous activation of the nucleic acid sensor ZBP1.
De Munck, Jolien +12 more
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Replication enhancer elements within the open reading frame of tick-borne encephalitis virus and their evolution within the Flavivirus genus [PDF]
, 2011 We provide experimental evidence of a replication enhancer element (REE) within the capsid gene of tick-borne encephalitis virus (TBEV, genus Flavivirus).
Buckley, A. +5 more
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Advances in the Determination of Nucleic Acid Conformational Ensembles [PDF]
Annual Review of Physical Chemistry, 2014 Conformational changes in nucleic acids play a key role in the way genetic information is stored, transferred, and processed in living cells. Here, we describe new approaches that employ a broad range of experimental data, including NMR-derived chemical shifts and residual dipolar couplings, small-angle X-ray scattering, and computational approaches ...
Loïc Salmon +2 more
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Structural visualization of key steps in human transcription initiation. [PDF]
, 2013 Eukaryotic transcription initiation requires the assembly of general transcription factors into a pre-initiation complex that ensures the accurate loading of RNA polymerase II (Pol II) at the transcription start site. The molecular mechanism and function
Fang, Jie +3 more
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TFE and Spt4/5 open and close the RNA polymerase clamp during the transcription cycle [PDF]
, 2016 Transcription is an intrinsically dynamic process and requires the coordinated interplay of RNA polymerases (RNAPs) with nucleic acids and transcription factors.
Gietl, Andreas +5 more
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