Related ArticlesA model of the iron responsive element RNA hairpin loop structure determined from NMR and thermodynamic data.
Biochemistry. 1996 Oct 22;35(42):13586-96
Authors: Laing LG, Hall KB
The iron responsive element (IRE) is a conserved RNA structure that is found in the 5' UTR of ferritin mRNA and in the 3' UTR of transferrin receptor mRNA. It is the binding site of the iron responsive protein (IRP), and the interaction is part of the regulation of cellular iron metabolism. The IRE six-nucleotide hairpin loop, 5'C1A2G3U4G5N6, is conserved in sequence, and mutations have shown that it is required for IRP binding. On the basis of the thermodynamic and NMR experiments utilized here, the IRE loop structure 5'C1A2G3U4G5C6, is described in detail. Measurements of loop stability show that it has 2.9 kcal/mol more free energy than predicted. NMR data suggest that there is hydrogen bonding between C1 and G5 in a tertiary interaction across the loop. A model structure, produced by MC-SYM/energy minimization, illustrates the conformational flexibility of U4 and C6, which appear to exhibit considerable local motion in solution. NMR data indicate that the position of G3 is not well defined, leading to two families of loop structures.
[NMR paper] Solution structure of the two-iron rubredoxin of Pseudomonas oleovorans determined by
Solution structure of the two-iron rubredoxin of Pseudomonas oleovorans determined by NMR spectroscopy and solution X-ray scattering and interactions with rubredoxin reductase.
Related Articles Solution structure of the two-iron rubredoxin of Pseudomonas oleovorans determined by NMR spectroscopy and solution X-ray scattering and interactions with rubredoxin reductase.
Biochemistry. 2004 Mar 23;43(11):3167-82
Authors: Perry A, Tambyrajah W, Grossmann JG, Lian LY, Scrutton NS
Here we provide insights into the molecular structure of the two-iron...
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[NMR paper] Bending and adaptability to proteins of the cAMP DNA-responsive element: molecular dy
Bending and adaptability to proteins of the cAMP DNA-responsive element: molecular dynamics contrasted with NMR.
Related Articles Bending and adaptability to proteins of the cAMP DNA-responsive element: molecular dynamics contrasted with NMR.
Biophys J. 2000 Aug;79(2):656-69
Authors: Derreumaux S, Fermandjian S
DNA bending is assumed to play a crucial role during recognition of the cAMP-responsive element (CRE) by transcription factors. However, diverging results have been obtained for the bending direction of the unbound double helix. The...
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[NMR paper] Mechanism of neomycin and Rev peptide binding to the Rev responsive element of HIV-1
Mechanism of neomycin and Rev peptide binding to the Rev responsive element of HIV-1 as determined by fluorescence and NMR spectroscopy.
Related Articles Mechanism of neomycin and Rev peptide binding to the Rev responsive element of HIV-1 as determined by fluorescence and NMR spectroscopy.
Biochemistry. 2000 May 16;39(19):5630-41
Authors: Lacourciere KA, Stivers JT, Marino JP
Rev is an essential HIV-1 regulatory protein that binds the Rev responsive element (RRE) within the env gene of the HIV-1 RNA genome and is involved in transport of...
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[NMR paper] Oxidation of guanines in the iron-responsive element RNA: similar structures from che
Oxidation of guanines in the iron-responsive element RNA: similar structures from chemical modification and recent NMR studies.
Related Articles Oxidation of guanines in the iron-responsive element RNA: similar structures from chemical modification and recent NMR studies.
Chem Biol. 1998 Dec;5(12):679-87
Authors: Ciftan SA, Theil EC, Thorp HH
BACKGROUND: The translation or stability of the mRNAs from ferritin, maconitase, erythroid aminoevulinate synthase and the transferrin receptor is controlled by the binding of two iron regulatory proteins...
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[NMR paper] Structure of an RNA hairpin loop with a 5'-CGUUUCG-3' loop motif by heteronuclear NMR
Structure of an RNA hairpin loop with a 5'-CGUUUCG-3' loop motif by heteronuclear NMR spectroscopy and distance geometry.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--pubs.acs.org-images-acspubs.jpg Related Articles Structure of an RNA hairpin loop with a 5'-CGUUUCG-3' loop motif by heteronuclear NMR spectroscopy and distance geometry.
Biochemistry. 1997 Nov 18;36(46):13989-4002
Authors: Sich C, Ohlenschläger O, Ramachandran R, Görlach M, Brown LR
Structural features of a 19-nucleotide RNA hairpin loop (5'-GGCGUACGUUUCGUACGCC-3'),...
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[NMR paper] The importance of a single G in the hairpin loop of the iron responsive element (IRE)
The importance of a single G in the hairpin loop of the iron responsive element (IRE) in ferritin mRNA for structure: an NMR spectroscopy study.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www.pubmedcentral.nih.gov-corehtml-pmc-pmcgifs-pubmed-pmc.gif Related Articles The importance of a single G in the hairpin loop of the iron responsive element (IRE) in ferritin mRNA for structure: an NMR spectroscopy study.
Nucleic Acids Res. 1995 Jan 11;23(1):146-53
Authors: Sierzputowska-Gracz H, McKenzie RA, Theil EC
Noncoding sequences...
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[NMR paper] An NMR study of the HIV-1 TAR element hairpin.
An NMR study of the HIV-1 TAR element hairpin.
Related Articles An NMR study of the HIV-1 TAR element hairpin.
Biochemistry. 1993 Nov 23;32(46):12522-30
Authors: Jaeger JA, Tinoco I
The TAR hairpin is an important part of the 5' long terminal repeat of HIV-1 and appears to be recognized by a cellular protein. A 14-base model of the native TAR hairpin 5'-GAGC-GCUC-3' (loop bases in square brackets) has been studied by proton, phosphorus, and natural abundance carbon NMR; these results are compared to other published NMR studies of the TAR...
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[NMR paper] An intrinsic curvature towards the minor groove in the cAMP-responsive element DNA fo
An intrinsic curvature towards the minor groove in the cAMP-responsive element DNA found by combined NMR and molecular modelling studies.
http://www.ncbi.nlm.nih.gov/corehtml/query/egifs/http:--www3.interscience.wiley.com-aboutus-images-wiley_interscience_pubmed_logo_FREE_120x27.gif Related Articles An intrinsic curvature towards the minor groove in the cAMP-responsive element DNA found by combined NMR and molecular modelling studies.
Eur J Biochem. 1999 Feb;259(3):877-86
Authors: Chaoui M, Derreumaux S, Mauffret O, Fermandjian S
The...