Intermolecular base stacking mediates RNA-RNA interaction in a crystal structure of the RNA chaperone Hfq.

scientific article published on 29 August 2017

Intermolecular base stacking mediates RNA-RNA interaction in a crystal structure of the RNA chaperone Hfq. is …
instance of (P31):
scholarly articleQ13442814

External links are
P6179Dimensions Publication ID1091331756
P356DOI10.1038/S41598-017-10085-8
P932PMC publication ID5575007
P698PubMed publication ID28852099

P50authorOrsolya BarabasQ57637920
Vivian PogenbergQ57905645
Franka VoigtQ86847636
Cecilia ZulianiQ88087332
P2093author name stringVladimir Rybin
Toby J Gibson
Norbert Mücke
Markus Seiler
Matthias Wilmanns
Eike C Schulz
P2860cites workfhlA repression by OxyS RNA: kissing complex formation at two sites results in a stable antisense-target RNA complexQ74027600
ViennaRNA Package 2.0Q24053233
Global RNA recognition patterns of post-transcriptional regulators Hfq and CsrA revealed by UV crosslinking in vivoQ24490554
Mfold web server for nucleic acid folding and hybridization predictionQ24498105
KEGG: kyoto encyclopedia of genes and genomesQ24515297
Kinefold web server for RNA/DNA folding path and structure prediction including pseudoknots and knotsQ24530528
The Escherichia coli OxyS regulatory RNA represses fhlA translation by blocking ribosome bindingQ24533360
Structures of the pleiotropic translational regulator Hfq and an Hfq-RNA complex: a bacterial Sm-like proteinQ24536928
Predicted structure and phyletic distribution of the RNA-binding protein Hfq.Q24537811
Data, information, knowledge and principle: back to metabolism in KEGGQ24568332
Genomic SELEX for Hfq-binding RNAs identifies genomic aptamers predominantly in antisense transcriptsQ24633132
Caught at its own game: regulatory small RNA inactivated by an inducible transcript mimicking its targetQ24647466
MolProbity: all-atom structure validation for macromolecular crystallographyQ24649111
PHENIX: a comprehensive Python-based system for macromolecular structure solutionQ24654617
Jalview Version 2--a multiple sequence alignment editor and analysis workbenchQ24655519
SigmaE-dependent small RNAs of Salmonella respond to membrane stress by accelerating global omp mRNA decayQ24669800
Coupled degradation of a small regulatory RNA and its mRNA targets in Escherichia coliQ24684800
Basic local alignment search toolQ25938991
Regulation by small RNAs in bacteria: expanding frontiersQ27009044
Sm-like proteins in Eubacteria: the crystal structure of the Hfq protein from Escherichia coliQ27641658
Crystal Structure of a Self-Spliced Group II IntronQ27650229
Structure of Escherichia coli Hfq bound to polyriboadenylate RNAQ27658064
Structural basis for RNA 3'-end recognition by HfqQ27670724
Cooperation of Escherichia coli Hfq hexamers in DsrA bindingQ27674771
Hfq-bridged ternary complex is important for translation activation of rpoS by DsrAQ27677477
Mapping Hfq-RNA interaction surfaces using tryptophan fluorescence quenchingQ27680705
XDSQ27860472
Clustal W and Clustal X version 2.0Q27860517
Size-Distribution Analysis of Macromolecules by Sedimentation Velocity Ultracentrifugation and Lamm Equation ModelingQ27860847
Phasercrystallographic softwareQ27860930
Improved R-factors for diffraction data analysis in macromolecular crystallographyQ27860992
Features and development of CootQ27861079
Global analysis of small RNA and mRNA targets of HfqQ28184898
The Sm-like Hfq protein increases OxyS RNA interaction with target mRNAsQ28216159
The small RNA chaperone Hfq and multiple small RNAs control quorum sensing in Vibrio harveyi and Vibrio choleraeQ28270975
The rpoS mRNA leader recruits Hfq to facilitate annealing with DsrA sRNAQ28288672
Small RNA-mediated activation of sugar phosphatase mRNA regulates glucose homeostasisQ28288849
Involvement of a novel transcriptional activator and small RNA in post-transcriptional regulation of the glucose phosphoenolpyruvate phosphotransferase systemQ28291273
Hfq binding changes the structure of Escherichia coli small noncoding RNAs OxyS and RprA, which are involved in the riboregulation of rpoSQ28293533
Effect of Hfq on RprA-rpoS mRNA pairing: Hfq-RNA binding and the influence of the 5' rpoS mRNA leader regionQ28295584
Evidence for an autonomous 5' target recognition domain in an Hfq-associated small RNAQ28297881
Small RNA binding to the lateral surface of Hfq hexamers and structural rearrangements upon mRNA target recognitionQ28727846
Hfq and its constellation of RNAQ29615791
The small RNA regulators of Escherichia coli: roles and mechanisms*Q29618536
Hfq: a bacterial Sm-like protein that mediates RNA-RNA interactionQ29619904
Calculation of hydrodynamic properties of globular proteins from their atomic-level structureQ29620591
RNA biochemistry. Determination of in vivo target search kinetics of regulatory noncoding RNA.Q30643654
Global systems-level analysis of Hfq and SmpB deletion mutants in Salmonella: implications for virulence and global protein translationQ33416805
An upstream Hfq binding site in the fhlA mRNA leader region facilitates the OxyS-fhlA interactionQ33712153
The stoichiometry of the Escherichia coli Hfq protein bound to RNA.Q33785527
The OxyS regulatory RNA represses rpoS translation and binds the Hfq (HF-I) proteinQ33889724
The RNA chaperone Hfq is important for growth and stress tolerance in Francisella novicidaQ33900631
Identification of bacteriophage-encoded anti-sRNAs in pathogenic Escherichia coliQ33922213
A free energy analysis of nucleic acid base stacking in aqueous solutionQ34047381
Revisiting the coding potential of the E. coli genome through Hfq co-immunoprecipitationQ34122762
Structural domains of transfer RNA moleculesQ34321933
Mutations in interaction surfaces differentially impact E. coli Hfq association with small RNAs and their mRNA targetsQ34322538
RNA structure: reading the ribosomeQ34448207
Large-scale mapping of sequence-function relations in small regulatory RNAs reveals plasticity and modularityQ34510047
Experimental approaches for the discovery and characterization of regulatory small RNA.Q35003330
Structural insights into the dynamics and function of the C-terminus of the E. coli RNA chaperone Hfq.Q35040942
Recognition of the small regulatory RNA RydC by the bacterial Hfq proteinQ35111238
Structural insights into the recognition of the internal A-rich linker from OxyS sRNA by Escherichia coli Hfq.Q35131127
PolyU tail of rho-independent terminator of bacterial small RNAs is essential for Hfq actionQ35164771
Multiple factors dictate target selection by Hfq-binding small RNAsQ35931768
Hfq: the flexible RNA matchmakerQ35933178
Space flight alters bacterial gene expression and virulence and reveals a role for global regulator Hfq.Q36092625
Alternative Hfq-sRNA interaction modes dictate alternative mRNA recognitionQ36172268
Requirement of upstream Hfq-binding (ARN)x elements in glmS and the Hfq C-terminal region for GlmS upregulation by sRNAs GlmZ and GlmY.Q36228436
Hfq proximity and orientation controls RNA annealingQ36280714
Characterization of Vibrio cholerae Hfq provides novel insights into the role of the Hfq C-terminal regionQ36335906
GenoList: an integrated environment for comparative analysis of microbial genomesQ36454054
Analytical ultracentrifugation for the study of protein association and assemblyQ36578705
Conserved arginines on the rim of Hfq catalyze base pair formation and exchangeQ37122110
C-terminal domain of the RNA chaperone Hfq drives sRNA competition and release of target RNA.Q37346798
The role of Hfq in bacterial pathogensQ37676558
The bacterial protein Hfq: much more than a mere RNA-binding factorQ37995707
Small RNAs and their role in biofilm formationQ38062239
Licensing and due process in the turnover of bacterial RNA.Q38098474
Regulation of bacterial metabolism by small RNAs using diverse mechanismsQ38135494
RNA binding by Hfq and ring-forming (L)Sm proteins: a trade-off between optimal sequence readout and RNA backbone conformationQ38211777
The C-terminal domain of Escherichia coli Hfq is required for regulationQ38296490
Hfq negatively regulates type III secretion in EHEC and several other pathogensQ38351169
Interaction of Escherichia coli host factor protein with oligoriboadenylatesQ38356573
Competition among Hfq-binding small RNAs in Escherichia coliQ38469100
Prediction of hydrodynamic and other solution properties of rigid proteins from atomic- and residue-level modelsQ38492496
Hfq binds directly to the ribosome-binding site of IS10 transposase mRNA to inhibit translationQ40987473
RNAs actively cycle on the Sm-like protein Hfq.Q41429696
GRIL-seq provides a method for identifying direct targets of bacterial small regulatory RNA by in vivo proximity ligationQ41494241
Structure of bacterial regulatory RNAs determines their performance in competition for the chaperone protein Hfq.Q41591827
Global Mapping of Small RNA-Target Interactions in BacteriaQ41926065
Structural flexibility of RNA as molecular basis for Hfq chaperone functionQ42324804
Small regulatory RNAs control the multi-cellular adhesive lifestyle of Escherichia coli.Q42500644
Hexamer to monomer equilibrium of E. coli Hfq in solution and its impact on RNA annealingQ42582045
Dissecting RNA chaperone activityQ42721560
A small, stable RNA induced by oxidative stress: role as a pleiotropic regulator and antimutatorQ48047346
P275copyright licenseCreative Commons Attribution 4.0 InternationalQ20007257
P6216copyright statuscopyrightedQ50423863
P433issue1
P407language of work or nameEnglishQ1860
P921main subjectmolecular chaperonesQ422496
P304page(s)9903
P577publication date2017-08-29
P1433published inScientific ReportsQ2261792
P1476titleIntermolecular base stacking mediates RNA-RNA interaction in a crystal structure of the RNA chaperone Hfq.
P478volume7

Reverse relations

cites work (P2860)
Q64268890Architectural principles for Hfq/Crc-mediated regulation of gene expression
Q64885783Caulobacter crescentus Hfq structure reveals a conserved mechanism of RNA annealing regulation.
Q59599337Small Noncoding Regulatory RNAs from Pseudomonas aeruginosa and Burkholderia cepacia Complex.

Search more.