Literature DB >> 25269475

The structure, function and evolution of proteins that bind DNA and RNA.

William H Hudson1, Eric A Ortlund1.   

Abstract

Proteins that bind both DNA and RNA typify the ability of a single gene product to perform multiple functions. Such DNA- and RNA-binding proteins (DRBPs) have unique functional characteristics that stem from their specific structural features; these developed early in evolution and are widely conserved. Proteins that bind RNA have typically been considered as functionally distinct from proteins that bind DNA and studied independently. This practice is becoming outdated, in partly owing to the discovery of long non-coding RNAs (lncRNAs) that target DNA-binding proteins. Consequently, DRBPs were found to regulate many cellular processes, including transcription, translation, gene silencing, microRNA biogenesis and telomere maintenance.

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Year:  2014        PMID: 25269475      PMCID: PMC4280011          DOI: 10.1038/nrm3884

Source DB:  PubMed          Journal:  Nat Rev Mol Cell Biol        ISSN: 1471-0072            Impact factor:   94.444


  144 in total

1.  CspD, a novel DNA replication inhibitor induced during the stationary phase in Escherichia coli.

Authors:  K Yamanaka; W Zheng; E Crooke; Y H Wang; M Inouye
Journal:  Mol Microbiol       Date:  2001-03       Impact factor: 3.501

Review 2.  Transcriptional control by the TGF-beta/Smad signaling system.

Authors:  J Massagué; D Wotton
Journal:  EMBO J       Date:  2000-04-17       Impact factor: 11.598

3.  Allosteric inhibition of NAD+-specific isocitrate dehydrogenase by a mitochondrial mRNA.

Authors:  S L Anderson; K I Minard; L McAlister-Henn
Journal:  Biochemistry       Date:  2000-05-16       Impact factor: 3.162

4.  Escherichia coli CspA-family RNA chaperones are transcription antiterminators.

Authors:  W Bae; B Xia; M Inouye; K Severinov
Journal:  Proc Natl Acad Sci U S A       Date:  2000-07-05       Impact factor: 11.205

5.  Role of CspC and CspE in regulation of expression of RpoS and UspA, the stress response proteins in Escherichia coli.

Authors:  S Phadtare; M Inouye
Journal:  J Bacteriol       Date:  2001-02       Impact factor: 3.490

6.  hnRNP A1 may interact simultaneously with telomeric DNA and the human telomerase RNA in vitro.

Authors:  S Fiset; B Chabot
Journal:  Nucleic Acids Res       Date:  2001-06-01       Impact factor: 16.971

7.  Acquirement of cold sensitivity by quadruple deletion of the cspA family and its suppression by PNPase S1 domain in Escherichia coli.

Authors:  B Xia; H Ke; M Inouye
Journal:  Mol Microbiol       Date:  2001-04       Impact factor: 3.501

8.  A subfamily of RNA-binding DEAD-box proteins acts as an estrogen receptor alpha coactivator through the N-terminal activation domain (AF-1) with an RNA coactivator, SRA.

Authors:  M Watanabe; J Yanagisawa; H Kitagawa; K Takeyama ; S Ogawa; Y Arao; M Suzawa; Y Kobayashi; T Yano; H Yoshikawa; Y Masuhiro; S Kato
Journal:  EMBO J       Date:  2001-03-15       Impact factor: 11.598

9.  The role of human MBF1 as a transcriptional coactivator.

Authors:  Y Kabe; M Goto; D Shima; T Imai; T Wada; K i Morohashi; M Shirakawa; S Hirose; H Handa
Journal:  J Biol Chem       Date:  1999-11-26       Impact factor: 5.157

10.  Nuclear factor TDP-43 and SR proteins promote in vitro and in vivo CFTR exon 9 skipping.

Authors:  E Buratti; T Dörk; E Zuccato; F Pagani; M Romano; F E Baralle
Journal:  EMBO J       Date:  2001-04-02       Impact factor: 11.598

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  116 in total

1.  Proteome of rice roots treated with exogenous proline.

Authors:  Chui-Yao Teh; Chai-Ling Ho; Noor Azmi Shaharuddin; Kok-Song Lai; Maziah Mahmood
Journal:  3 Biotech       Date:  2019-02-21       Impact factor: 2.406

2.  The Dutch hypothesis meets genomics.

Authors:  Scott T Weiss
Journal:  Am J Respir Crit Care Med       Date:  2015-04-01       Impact factor: 21.405

Review 3.  DNA-protein interaction: identification, prediction and data analysis.

Authors:  Abbasali Emamjomeh; Darush Choobineh; Behzad Hajieghrari; Nafiseh MahdiNezhad; Amir Khodavirdipour
Journal:  Mol Biol Rep       Date:  2019-03-26       Impact factor: 2.316

4.  RNA is essential for PRC2 chromatin occupancy and function in human pluripotent stem cells.

Authors:  Yicheng Long; Taeyoung Hwang; Anne R Gooding; Karen J Goodrich; John L Rinn; Thomas R Cech
Journal:  Nat Genet       Date:  2020-07-06       Impact factor: 38.330

5.  The folding competence of HIV-1 Tat mediated by interaction with TAR RNA.

Authors:  Jung Min Kim; Hee Sun Choi; Baik Lin Seong
Journal:  RNA Biol       Date:  2017-04-18       Impact factor: 4.652

6.  Chirality-induced spin polarization places symmetry constraints on biomolecular interactions.

Authors:  Anup Kumar; Eyal Capua; Manoj K Kesharwani; Jan M L Martin; Einat Sitbon; David H Waldeck; Ron Naaman
Journal:  Proc Natl Acad Sci U S A       Date:  2017-02-22       Impact factor: 11.205

7.  CARIP-Seq and ChIP-Seq: Methods to Identify Chromatin-Associated RNAs and Protein-DNA Interactions in Embryonic Stem Cells.

Authors:  Benjamin L Kidder
Journal:  J Vis Exp       Date:  2018-05-25       Impact factor: 1.355

8.  Network analysis of pseudogene-gene relationships: from pseudogene evolution to their functional potentials.

Authors:  Travis S Johnson; Sihong Li; Jonathan R Kho; Kun Huang; Yan Zhang
Journal:  Pac Symp Biocomput       Date:  2018

Review 9.  How RNA-Binding Proteins Interact with RNA: Molecules and Mechanisms.

Authors:  Meredith Corley; Margaret C Burns; Gene W Yeo
Journal:  Mol Cell       Date:  2020-04-02       Impact factor: 17.970

Review 10.  Specificity and nonspecificity in RNA-protein interactions.

Authors:  Eckhard Jankowsky; Michael E Harris
Journal:  Nat Rev Mol Cell Biol       Date:  2015-08-19       Impact factor: 94.444

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