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References from Computational evolution of an RNA-binding protein towards enhanced oxidized-RNA binding. Local targets link to admitted publications; unresolved targets remain external evidence.
MODOMICS: a database of RNA modification pathways
10.1093/nar/gkx1030 · 2018 · External reference
10.1016/j.cell.2017.05.045
10.1016/j.cell.2017.05.045 · External reference
10.1021/acs.biochem.6b01134
10.1021/acs.biochem.6b01134 · External reference
10.1038/nature21671
10.1038/nature21671 · External reference
10.1093/nar/gkx1308
10.1093/nar/gkx1308 · External reference
10.1093/nar/gkv377
10.1093/nar/gkv377 · External reference
10.1073/pnas.1619809114
10.1073/pnas.1619809114 · External reference
10.1021/acs.chemrestox.8b00332
10.1021/acs.chemrestox.8b00332 · External reference
Error-prone replication of oxidatively damaged DNA by a high-fidelity DNA polymerase
10.1038/nature02908 · 2004 · External reference
10.1016/j.celrep.2014.10.042
10.1016/j.celrep.2014.10.042 · External reference
Oxidized messenger RNA induces translation errors
10.1073/pnas.0609737104 · 2007 · External reference
10.1016/j.molcel.2015.05.003
10.1016/j.molcel.2015.05.003 · External reference
10.1042/bst20160433
10.1042/bst20160433 · External reference
Hydrogen peroxide causes greater oxidation in cellular RNA than in DNA
10.1515/bc.2005.040 · 2005 · External reference
10.1007/s00018-016-2261-7
10.1007/s00018-016-2261-7 · External reference
10.1371/journal.pgen.1007654
10.1371/journal.pgen.1007654 · External reference
Polynucleotide phosphorylase protects Escherichia coli against oxidative stress
10.1021/bi801752p · 2009 · External reference
10.1016/j.bbrc.2008.05.058
10.1016/j.bbrc.2008.05.058 · External reference
Human polynucleotide phosphorylase protein in response to oxidative stress
10.1021/bi052585l · 2006 · External reference
10.1016/j.bbrc.2010.11.011
10.1016/j.bbrc.2010.11.011 · External reference
Specific binding of 8-oxoguanine-containing RNA to polynucleotide phosphorylase protein
10.1021/bi010595q · 2001 · External reference
10.1038/nsb0902-646
10.1038/nsb0902-646 · External reference
Advances in RNA molecular dynamics: a simulator's guide to RNA force fields
10.1002/wrna.1396 · 2017 · External reference
10.1021/ct600329w
10.1021/ct600329w · External reference
Additive CHARMM force field for naturally occurring modified ribonucleotides
10.1002/jcc.24307 · 2016 · External reference
10.1038/nsmb.3270
10.1038/nsmb.3270 · External reference
10.1021/acs.jpcb.7b10878
10.1021/acs.jpcb.7b10878 · External reference
A high-throughput and rapid computational method for screening of RNA post-transcriptional modifications that can be recognized by target proteins
10.1016/j.ymeth.2018.01.015 · 2018 · External reference
Pseudouridine Modification Inhibits Muscleblind-like 1 (MBNL1) Binding to CCUG Repeats and Minimally Structured RNA through Reduced RNA Flexibility
10.1074/jbc.m116.770768 · 2017 · External reference
10.1021/jacs.8b05012
10.1021/jacs.8b05012 · External reference
10.1016/j.cell.2019.05.049
10.1016/j.cell.2019.05.049 · External reference
10.1016/j.jmb.2009.03.051
10.1016/j.jmb.2009.03.051 · External reference
Crystal structure of Caulobacter crescentus polynucleotide phosphorylase reveals a mechanism of RNA substrate channelling and RNA degradosome assembly
10.1098/rsob.120028 · 2012 · External reference
10.1002/jcc.21287
10.1002/jcc.21287 · External reference
10.1002/jcc.21367
10.1002/jcc.21367 · External reference
10.1002/jcc.23354
10.1002/jcc.23354 · External reference
New faster CHARMM molecular dynamics engine
10.1002/jcc.23501 · 2014 · External reference
10.1016/0021-9991(77)90098-5
10.1016/0021-9991(77)90098-5 · External reference
10.1002/jcc.10379
10.1002/jcc.10379 · External reference
Unresolved reference
2012 · External reference
Exploring protein-protein and protein-ligand interactions in the immune system using molecular dynamics and continuum electrostatics
10.2174/1877946811202040324 · 2012 · External reference
10.1016/j.bpj.2013.07.049
10.1016/j.bpj.2013.07.049 · External reference
10.1371/journal.pone.0095767
10.1371/journal.pone.0095767 · External reference
10.1021/ci500069y
10.1021/ci500069y · External reference
Elucidating a Key Anti-HIV-1 and Cancer-Associated Axis: The Structure of CCL5 (Rantes) in Complex with CCR5
10.1038/srep05447 · 2014 · External reference
Insights into the mechanism of C5aR inhibition by PMX53 via implicit solvent molecular dynamics simulations and docking
10.1186/2046-1682-7-5 · 2014 · External reference
Molecular Dynamics in Drug Design: New Generations of Compstatin Analogs
10.1111/j.1747-0285.2012.01324.x · 2012 · External reference
Species specificity of the complement inhibitor compstatin investigated by all-atom molecular dynamics simulations
10.1002/prot.22780 · 2010 · External reference
Design of a modified mouse protein with ligand binding properties of its human analog by molecular dynamics simulations: The case of C3 inhibition by compstatin
10.1002/prot.23149 · 2011 · External reference
Elucidating the multi-targeted anti-amyloid activity and enhanced islet amyloid polypeptide binding of beta-wrapins
10.1016/j.compchemeng.2018.02.013 · 2018 · External reference
Uncovering the Binding and Specificity of beta-Wrapins for Amyloid-beta and alpha-Synuclein
10.1021/acs.jpcb.6b08485 · 2016 · External reference
Balancing an accurate representation of the molecular surface in generalized born formalisms with integrator stability in molecular dynamics simulations
10.1002/jcc.20387 · 2006 · External reference
10.1371/journal.pone.0049925
10.1371/journal.pone.0049925 · External reference
10.1038/msb4100050
10.1038/msb4100050 · External reference
10.1073/pnas.120163297
10.1073/pnas.120163297 · External reference
10.1016/0378-1119(95)00193-a
10.1016/0378-1119(95)00193-a · External reference
10.1038/nprot.2007.249
10.1038/nprot.2007.249 · External reference
Nucleic acid and protein factors involved in Escherichia coli polynucleotide phosphorylase function on RNA
10.1016/j.biochi.2010.01.004 · 2010 · External reference
10.1007/978-1-60327-475-3_7
10.1007/978-1-60327-475-3_7 · External reference
10.1007/978-1-62703-646-7_6
10.1007/978-1-62703-646-7_6 · External reference
10.1101/gr.849004
10.1101/gr.849004 · External reference
Function of the conserved S1 and KH domains in polynucleotide phosphorylase
10.1128/jb.187.21.7214-7221.2005 · 2005 · External reference
10.1016/j.biochi.2013.09.018
10.1016/j.biochi.2013.09.018 · External reference
Mutational analysis of polynucleotide phosphorylase from Escherichia coli
10.1016/s0022-2836(02)00645-9 · 2002 · External reference
Conserved domains in polynucleotide phosphorylase among eubacteria
10.1016/j.biochi.2005.03.005 · 2005 · External reference
10.1093/nar/29.4.943
10.1093/nar/29.4.943 · External reference
Getting into the major groove. Protein-RNA interactions
10.1016/s0960-9822(02)00534-1 · 1996 · External reference
10.1002/prot.21211
10.1002/prot.21211 · External reference
Solution structure of the YTH domain in complex with N6-methyladenosine RNA: a reader of methylated RNA
10.1093/nar/gku1116 · 2014 · External reference
10.1038/nchembio.1654
10.1038/nchembio.1654 · External reference
Post-Transcriptional Modifications of RNA: Impact on RNA Function and Human Health
10.1007/978-3-319-34175-0_5 · 2016 · External reference
10.1080/07391102.2013.825757
10.1080/07391102.2013.825757 · External reference
Protein WISDOM: a workbench for in silico de novo design of biomolecules
2013 · External reference
Molecular recognition mechanism of peptide chain bound to the tRNA(Lys3) anticodon loop in silico
10.1080/07391102.2013.869660 · 2015 · External reference
10.1021/bi401174h
10.1021/bi401174h · External reference
Chemical and Conformational Diversity of Modified Nucleosides Affects tRNA Structure and Function
2017 · External reference
10.1002/prot.25021
10.1002/prot.25021 · External reference
Understanding RNA modifications: the promises and technological bottlenecks of the 'epitranscriptome'
10.1098/rsob.170077 · 2017 · External reference
10.1021/acs.biochem.7b01101
10.1021/acs.biochem.7b01101 · External reference
