The structure, function and evolution of proteins that bind DNA and RNA (Q27003938)

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25269475%20AND%20SRC:MED&resulttype=core&format=json

20 February 2020

review article

1 reference

title

The structure, function and evolution of proteins that bind DNA and RNA (English)

1 reference

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20 February 2020

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20 February 2020

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https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25269475%20AND%20SRC:MED&resulttype=core&format=json

20 February 2020

William H. Hudson

1 reference

Eric A. Ortlund

1 reference

language of work or name

1 reference

1 October 2014

1 reference

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25269475%20AND%20SRC:MED&resulttype=core&format=json

Nature Reviews Molecular Cell Biology

20 February 2020

published in

2 references

PubMed

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20 February 2020

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20 February 2020

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20 February 2020

page(s)

749-760

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20 February 2020

2 references

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Glucocorticoid receptor signaling in health and disease

20 March 2017

2 references

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NSun2-mediated cytosine-5 methylation of vault noncoding RNA determines its processing into regulatory small RNAs

20 March 2017

2 references

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The RNA degradation pathway regulates the function of GAS5 a non-coding RNA in mammalian cells

20 March 2017

2 references

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Insights into RNA biology from an atlas of mammalian mRNA-binding proteins

20 March 2017

2 references

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NF-κB, the first quarter-century: remarkable progress and outstanding questions

20 March 2017

2 references

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20 March 2017

2 references

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20 March 2017

2 references

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20 March 2017

2 references

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20 March 2017

2 references

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20 March 2017

2 references

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20 March 2017

2 references

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20 March 2017

2 references

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20 March 2017

2 references

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Methylation of tRNAAsp by the DNA methyltransferase homolog Dnmt2

20 March 2017

2 references

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6S RNA is a widespread regulator of eubacterial RNA polymerase that resembles an open promoter

20 March 2017

2 references

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20 March 2017

2 references

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Lactate dehydrogenase is an AU-rich element-binding protein that directly interacts with AUF1

20 March 2017

2 references

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

20 March 2017

2 references

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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

20 March 2017

2 references

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The role of human MBF1 as a transcriptional coactivator

20 March 2017

2 references

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A steroid receptor coactivator, SRA, functions as an RNA and is present in an SRC-1 complex

20 March 2017

2 references

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DNA binding and transcriptional repression by DAX-1 blocks steroidogenesis

20 March 2017

2 references

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Physical association and functional antagonism between the p65 subunit of transcription factor NF-kappa B and the glucocorticoid receptor

20 March 2017

2 references

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Cloning and expression of cyclosporin A- and FK506-sensitive nuclear factor of activated T-cells: NF45 and NF90

20 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Characterization of the cDNA encoding a protein binding to the major histocompatibility complex class II Y box

20 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Major cold shock protein of Escherichia coli

20 March 2017

2 references

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Cloning and characterization of a human c-myc promoter-binding protein

20 March 2017

2 references

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Structural basis of the non-coding RNA RsmZ acting as a protein sponge

20 March 2017

2 references

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Molecular basis of UG-rich RNA recognition by the human splicing factor TDP-43

20 March 2017

2 references

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DNA mimicry by a high-affinity anti-NF- B RNA aptamer

20 March 2017

2 references

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Crystal structure of NF- B (p50)2 complexed to a high-affinity RNA aptamer

20 March 2017

2 references

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Recognition of polyadenylate RNA by the poly(A)-binding protein

20 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Crystal structure of the Zalpha domain of the human editing enzyme ADAR1 bound to left-handed Z-DNA

20 March 2017

2 references

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Structure of the NF-kappa B p50 homodimer bound to DNA

20 March 2017

2 references

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Biogenesis of small RNAs in animals

20 March 2017

2 references

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Systematic and integrative analysis of large gene lists using DAVID bioinformatics resources

20 March 2017

2 references

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Mechanisms of post-transcriptional regulation by microRNAs: are the answers in sight?

20 March 2017

2 references

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TRF2 Protects Human Telomeres from End-to-End Fusions

20 March 2017

2 references

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Bioinformatics enrichment tools: paths toward the comprehensive functional analysis of large gene lists

20 March 2017

2 references

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Ligand-independent coactivation of ERalpha AF-1 by steroid receptor RNA activator (SRA) via MAPK activation

20 March 2017

2 references

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The NF90-NF45 complex functions as a negative regulator in the microRNA processing pathway

20 March 2017

2 references

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Multiple functions of the origin recognition complex

20 March 2017

2 references

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Regulation of nuclear receptor activity by a pseudouridine synthase through posttranscriptional modification of steroid receptor RNA activator

20 March 2017

2 references

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An RNA-binding domain in the thyroid hormone receptor enhances transcriptional activation

20 March 2017

2 references

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Reduced expression of the let-7 microRNAs in human lung cancers in association with shortened postoperative survival

20 March 2017

2 references

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Transcription factor Y-box binding protein 1 binds preferentially to cisplatin-modified DNA and interacts with proliferating cell nuclear antigen

20 March 2017

2 references

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Nuclear translocation of the Y-box binding protein by ultraviolet irradiation

20 March 2017

2 references

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Components of the DNA methylation system of chromatin control are RNA-binding proteins

20 March 2017

2 references

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A mammalian pseudogene lncRNA at the interface of inflammation and anti-inflammatory therapeutics

20 March 2017

1 reference

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LNCipedia: a database for annotated human lncRNA transcript sequences and structures

20 March 2017

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Retinoic acid-gated sequence-specific translational control by RARalpha

20 March 2017

1 reference

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Enolase isoenzymes. III. Chromatographic and immunological characteristics of rat brain enolase

20 March 2017

1 reference

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SMAD proteins control DROSHA-mediated microRNA maturation

20 March 2017

1 reference

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The RNA recognition motif, a plastic RNA-binding platform to regulate post-transcriptional gene expression

20 March 2017

1 reference

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Transcriptional control by the TGF-beta/Smad signaling system

7 April 2017

1 reference

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The evolution of lncRNA repertoires and expression patterns in tetrapods

7 April 2017

1 reference

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DNMT1-interacting RNAs block gene-specific DNA methylation

28 September 2017

1 reference

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The long noncoding RNA RMST interacts with SOX2 to regulate neurogenesis

28 September 2017

1 reference

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A compendium of RNA-binding motifs for decoding gene regulation.

28 September 2017

1 reference

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DNA-binding specificity changes in the evolution of forkhead transcription factors

28 September 2017

1 reference

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The Runt domain of AML1 (RUNX1) binds a sequence-conserved RNA motif that mimics a DNA element

28 September 2017

1 reference

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Cold shock protein 1 chaperones mRNAs during translation in Arabidopsis thaliana

28 September 2017

1 reference

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The sox family of transcription factors: versatile regulators of stem and progenitor cell fate

28 September 2017

1 reference

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DNA methylation inhibitors in cancer: recent and future approaches

28 September 2017

1 reference

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Y-box-binding protein 1 (YB-1) and its functions

28 September 2017

1 reference

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TDP-43 promotes microRNA biogenesis as a component of the Drosha and Dicer complexes

28 September 2017

1 reference

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Maps and legends: the quest for dissociated ligands of the glucocorticoid receptor.

28 September 2017

1 reference

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Human long non-coding RNAs promote pluripotency and neuronal differentiation by association with chromatin modifiers and transcription factors.

28 September 2017

1 reference

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On the evolutionary origin of eukaryotic DNA methyltransferases and Dnmt2.

28 September 2017

1 reference

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Regulation and function of miRNA-21 in health and disease.

28 September 2017

1 reference

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Extensive and coordinated transcription of noncoding RNAs within cell-cycle promoters

28 September 2017

1 reference

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28 September 2017

α-Enolase binds to RNA.

1 reference

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Widespread negative response elements mediate direct repression by agonist-liganded glucocorticoid receptor

28 September 2017

1 reference

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The human glucocorticoid receptor as an RNA-binding protein: global analysis of glucocorticoid receptor-associated transcripts and identification of a target RNA motif

28 September 2017

1 reference

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Interaction of noncoding RNA with the rDNA promoter mediates recruitment of DNMT3b and silencing of rRNA genes

28 September 2017

1 reference

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Smad proteins bind a conserved RNA sequence to promote microRNA maturation by Drosha

28 September 2017

1 reference

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The REM phase of gene regulation

28 September 2017

1 reference

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Eukaryotic cold shock domain proteins: highly versatile regulators of gene expression

28 September 2017

1 reference

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Profiling the human protein-DNA interactome reveals ERK2 as a transcriptional repressor of interferon signaling

28 September 2017

1 reference

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NF90 selectively represses the translation of target mRNAs bearing an AU-rich signature motif

28 September 2017

1 reference

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Direct binding of glyceraldehyde 3-phosphate dehydrogenase to telomeric DNA protects telomeres against chemotherapy-induced rapid degradation

28 September 2017

1 reference

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QuickGO: a web-based tool for Gene Ontology searching

28 September 2017

1 reference

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TERRA RNA binding to TRF2 facilitates heterochromatin formation and ORC recruitment at telomeres

28 September 2017

1 reference

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Novel DNA mismatch-repair activity involving YB-1 in human mitochondria

28 September 2017

1 reference

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Dax-1 and steroid receptor RNA activator (SRA) function as transcriptional coactivators for steroidogenic factor 1 in steroidogenesis

28 September 2017

1 reference

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The effects of IL-6 on CD4 T cell responses

28 September 2017

1 reference

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Selection and characterization of anti-NF-kappaB p65 RNA aptamers

28 September 2017

1 reference

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Dissecting protein-RNA recognition sites

28 September 2017

1 reference

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A proteome chip approach reveals new DNA damage recognition activities in Escherichia coli

28 September 2017

1 reference

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NF90 regulates inducible IL-2 gene expression in T cells

28 September 2017

1 reference

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Aurora-B regulates RNA methyltransferase NSUN2

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Cold shock domain proteins and glycine-rich RNA-binding proteins from Arabidopsis thaliana can promote the cold adaptation process in Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Functional conservation of cold shock domains in bacteria and higher plants

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

A transient heterochromatic state in Xist preempts X inactivation choice without RNA stabilization

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Small interfering RNA-induced transcriptional gene silencing in human cells

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

The role of structural disorder in the function of RNA and protein chaperones

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

The human Dnmt2 has residual DNA-(cytosine-C5) methyltransferase activity.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

A cold-regulated nucleic acid-binding protein of winter wheat shares a domain with bacterial cold shock proteins

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

The major mRNA-associated protein YB-1 is a potent 5' cap-dependent mRNA stabilizer

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Structure-based analysis of protein-RNA interactions using the program ENTANGLE.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

The RNA binding protein YB-1 binds A/C-rich exon enhancers and stimulates splicing of the CD44 alternative exon v4.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Hyperthermia-induced nuclear translocation of transcription factor YB-1 leads to enhanced expression of multidrug resistance-related ABC transporters

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Stimulation of human endonuclease III by Y box-binding protein 1 (DNA-binding protein B). Interaction between a base excision repair enzyme and a transcription factor.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

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

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Escherichia coli CspA-family RNA chaperones are transcription antiterminators

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

RNA binding specificity of Unr, a protein with five cold shock domains

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Selection and characterization of an RNA decoy for transcription factor NF-kappa B.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

CspI, the ninth member of the CspA family of Escherichia coli, is induced upon cold shock

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

The CspA family in Escherichia coli: multiple gene duplication for stress adaptation

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Growth-phase-dependent expression of cspD, encoding a member of the CspA family in Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Overproduction of three genes leads to camphor resistance and chromosome condensation in Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

A novel member of the cspA family of genes that is induced by cold shock in Escherichia coli

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

RNA-directed de novo methylation of genomic sequences in plants.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Antitumor promotion and antiinflammation: down-modulation of AP-1 (Fos/Jun) activity by glucocorticoid hormone

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

RNA modulation of the human DNA methyltransferase 3A.

28 September 2017

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Genomic determination of the glucocorticoid response reveals unexpected mechanisms of gene regulation

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

3DNA: a versatile, integrated software system for the analysis, rebuilding and visualization of three-dimensional nucleic-acid structures

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Dynamic binding of Ku80, Ku70 and NF90 to the IL-2 promoter in vivo in activated T-cells

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

YB-1 autoregulates translation of its own mRNA at or prior to the step of 40S ribosomal subunit joining

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Immunosuppression by glucocorticoids: inhibition of NF-kappa B activity through induction of I kappa B synthesis

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Glyceraldehyde-3-phosphate dehydrogenase selectively binds AU-rich RNA in the NAD(+)-binding region (Rossmann fold).

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Nuclear localization of a lactic dehydrogenase with single-stranded DNA-binding properties.

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Transcriptional interference between c-Jun and the glucocorticoid receptor: mutual inhibition of DNA binding due to direct protein-protein interaction.

31 May 2018

1 reference

https://eutils.ncbi.nlm.nih.gov/entrez/eutils/elink.fcgi?dbfrom=pmc&linkname=pmc_refs_pubmed&retmode=json&id=4280011

Nuclear export of NF90 is required for interleukin-2 mRNA stabilization

31 May 2018

1 reference

The origin recognition complex localizes to telomere repeats and prevents telomere-circle formation

21 January 2018

1 reference

CspA, the major cold-shock protein of Escherichia coli, is an RNA chaperone.

21 January 2018

1 reference

RNA cytosine methylation by Dnmt2 and NSun2 promotes tRNA stability and protein synthesis.

21 January 2018

1 reference

Phylogenetic analysis of the eukaryotic RNA (cytosine-5)-methyltransferases

21 January 2018

1 reference

Synthesis and content of a DNA-binding protein with lactic dehydrogenase activity are reduced by nerve growth factor in the neoplastic cell line PC12

21 January 2018

1 reference

Sequence-specific binding of transfer RNA by glyceraldehyde-3-phosphate dehydrogenase

31 March 2020

1 reference

Immunoassay of human muscle enolase subunit in serum: a novel marker antigen for muscle diseases

31 March 2020

1 reference

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

31 March 2020

1 reference

A novel role for the glucocorticoid receptor in the regulation of monocyte chemoattractant protein-1 mRNA stability

31 March 2020

1 reference

Differential thermoregulation of two highly homologous cold-shock genes, cspA and cspB, of Escherichia coli

31 March 2020

1 reference

Nascent RNA in transcription complexes interacts with CspE, a small protein in E. coli implicated in chromatin condensation

31 March 2020

1 reference

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

31 March 2020

1 reference

Conservation of the cold shock domain protein family in plants

31 March 2020

1 reference

The glucocorticoid receptor protein binds to transfer RNA

31 March 2020

1 reference

RNA-containing nuclear binding sites for glucocorticoid-receptor complexes

31 March 2020

1 reference

Sequence-selective interactions with RNA by CspB, CspC and CspE, members of the CspA family of Escherichia coli

31 March 2020

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25269475

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

RNA inhibits estrogen receptor binding to DNA

1 reference

PubMed

https://pubmed.ncbi.nlm.nih.gov/25269475

inferred from PubMed ID database lookup

12 December 2020

based on heuristic

Identifiers

DOI

10.1038/NRM3884

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25269475%20AND%20SRC:MED&resulttype=core&format=json

Dimensions Publication ID

20 February 2020

1038327941

0 references

1 reference

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25269475%20AND%20SRC:MED&resulttype=core&format=json

20 February 2020

PubMed publication ID

25269475

2 references

https://www.ebi.ac.uk/europepmc/webservices/rest/search?query=EXT_ID:25269475%20AND%20SRC:MED&resulttype=core&format=json