Abstract：
:RNA pur*pur-pyr and pyr*pur-pyr (pur = purine, pyr = pyrimidine) triple helices consisting of a Watson-Crick base-paired 28mer hairpin duplex and a Hoogsteen base-paired purine or pyrimidine 12mer are targeted with photoactivated cleavage by the metal complex Rh(phen)2phi3+ (phen = phenanthroline, phi = 9, 10-phenanthrenequinone diimine). The metal complex interacts with these triple helices in a structure-specific manner. Different cleavage patterns are seen with the pyr*pur-pyr and pur*pur-pyr motifs. Cleavage is seen on both of the Watson-Crick strands of the former motif and primarily on the purine Watson-Crick strand of the latter motif. Little cleavage is seen on the Hoogsteen strand for either motif. Importantly, the metal complex shows no detectable cleavage on the A-form RNA duplex in the absence of the third Hoogsteen strand. The cleavage patterns are consistent with an intercalated model for the metal complex in the triple helix. Similar cleavage is seen on DNA triple helices, but over a background of duplex cleavage. Targeting of synthetic RNA triple helices, but not duplex regions, by Rh(phen)2phi3+ provides a basis for the chemical probing of triply bonded sites in folded RNA molecules.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Lim AC,Barton JKdoi
10.1021/bi980509vsubject
Has Abstractpub_date
1998-06-23 00:00:00pages
9138-46issue
25eissn
0006-2960issn
1520-4995pii
bi980509vjournal_volume
37pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract：:A new class of eukaryotic protein kinases that are not homologous to members of the serine/threonine/tyrosine protein kinase superfamily was recently identified [Futey, L. M., et al. (1995) J. Biol. Chem. 270, 523-529; Ryazanov, A. G., et al. (1997) Proc. Natl. Acad. Sci. U.S.A. 94, 4884-4889]. This class includes euk...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0007270
更新日期：2000-10-10 00:00:00
abstract：:An imidazole spin-label was used to study the role of tyrosyl residues in the reassociation process for the nucleosome core particle. The nucleosome core particle, containing 145 base pairs of DNA and a histone core (two each of the four histones H2S, H2B, H3, and H4), was isolated from chicken erythrocytes. Native pa...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00541a034
更新日期：1982-06-08 00:00:00
abstract：:Various omega-halogenated carboxy acids and amides were evaluated as potential active-site-directed reagents for alcohol dehydrogenase. 2-Bromoacetamide and bromoacetic and 3-bromopropionic acids inactivated the enzyme; AMP, NAD+, and NADH markedly decreased the rate of inactivation. Some omega-halogenated carboxyamid...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00694a034
更新日期：1975-11-18 00:00:00
abstract：:To investigate cytosine protonation and its influence on the sequence-dependent thermal stability of DNA triplexes in detail, we have employed homo- and heteronuclear NMR experiments on specifically (15)N-labeled oligodeoxynucleotides that were designed to fold into intramolecular triple helices of the pyrimidine moti...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi992630n
更新日期：2000-05-16 00:00:00
abstract：:In the absence of any external electron donor, the "peroxy" intermediate of cytochrome c oxidase (CcO-607) is converted to the ferryl form (CcO-580) and subsequently to oxidized enzyme. The rate of conversion of CcO-607 to the CcO-580 form is pH dependent between pH 3.0 and pH 7.6. A plot of the logarithm of the rate ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi002373i
更新日期：2001-02-13 00:00:00
abstract：:The residue C221 on pyruvate decarboxylase (EC. 4.1.1.1) from Saccharomyces cerevisiae has been shown to be the site where the substrate activation cascade is triggered [Baburina et al. (1994) Biochemistry 33, 5630-5635] and is located on the beta domain [Arjunan et al. (1996) J. Mol. Biol. 256, 590], while the active...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi9709912
更新日期：1998-02-03 00:00:00
abstract：:Understanding the structural basis for defects in protein function that underlie protein-based genetic diseases is the fundamental requirement for development of therapies. This situation is epitomized by the cystic fibrosis transmembrane conductance regulator (CFTR)-the gene product known to be defective in CF patien...
journal_title：Biochemistry
pub_type： 杂志文章,评审
doi：10.1021/bi702209s
更新日期：2008-02-12 00:00:00
abstract：:Water deuteron NMR spectra have been studied for the system dipalmitoyllecithin (DPL)-heavy water (D2O) at different compositions and temperatures. From an analysis of the spectra in terms of quadrupole splittings, a phase diagram has been constructed for the temperature range 25-60 degrees C and the composition range...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00645a014
更新日期：1977-12-27 00:00:00
abstract：:Magic angle sample spinning (MASS) 13C NMR spectra have been obtained of bovine rhodopsin regenerated with retinal prosthetic groups isotopically enriched with 13C at C-5 and C-14. In order to observe the 13C retinal chromophore resonances, it was necessary to employ low temperatures (-15-----35 degrees C) to restrict...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00380a018
更新日期：1987-03-24 00:00:00
abstract：:Double-stranded complementary deoxyribonucleic acid (cDNA) transcribed in vitro from a partially pure myosin light-chain messenger ribonucleic acid (mRNA) of the chick embryonic heart was cloned in Escherichia coli strain chi 1776 by using the HindIII cleavage site in the plasmid pBR322. The insertion of essentially f...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00592a019
更新日期：1979-12-11 00:00:00
abstract：:The aspartate receptors of Escherichia coli and Salmonella typhimurium which mediate chemotactic responsiveness to aspartate have 79% amino acid sequence identity but exhibited apparently quite different aspartate binding plots. The Scatchard plot of the Salmonella receptor was concave upward whereas the E. coli recep...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00169a002
更新日期：1994-01-25 00:00:00
abstract：:The effects of phosphorylation at Ser40 of rat tyrosine hydroxylase on the affinities of catechols have been determined with both the ferric and ferrous forms of the enzyme. Phosphorylation had no effect on the Ki value for the inhibition of the ferrous enzyme by either dopamine or DOPA when the initial rate of turnov...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi980582l
更新日期：1998-06-23 00:00:00
abstract：:Four new in vivo metabolites of vitamin D3 were isolated from the blood plasma of chicks given large doses of vitamin D3. The metabolites were isolated by methanol-chloroform extraction and a series of chromatographic procedures. By use of mass spectrometry, ultraviolet absorption spectrophotometry, and specific chemi...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00529a010
更新日期：1981-12-22 00:00:00
abstract：:Transition metal-transporting P1B-type CPx ATPases play crucial roles in mediating metal homeostasis and resistance in all cells. The degree to which N-terminal metal binding domains (MBDs) confer metal specificity to the transporter is unclear. We show that the two MBDs of the Zn/Cd/Pb effluxing pump Anabaena AztA ar...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi7006367
更新日期：2007-10-02 00:00:00
abstract：:Thymidylate synthase (TS) is a highly conserved homodimeric enzyme with two active sites, each of which contains amino acid residues from both subunits. We show that the conservation at the subunit interface between Escherichia coli TS and Lactobacillus casei TS is sufficient to permit the formation of a cross-species...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00090a002
更新日期：1993-10-05 00:00:00
abstract：:The effects of GDP and of aurodox (N-methylkirromycin) on the affinity of elongation factor Tu (EF-Tu) for aminoacyl-tRNA (aa-tRNA) have been quantified spectroscopically by using Phe-tRNA(Phe)-Fl8, a functionally active analogue of Phe-tRNA(Phe) with a fluorescein dye convalently attached to the s4U-8 base. The assoc...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00459a014
更新日期：1990-02-20 00:00:00
abstract：:The formation and excision of 313-nm light-induced cyclobutane-type pyrimidine photodimers were determined in confluent cultures of human fibroblasts. A new method was developed for the resolution and determination of cytosine-thymine (CT) and thymine-thymine dimers (TT) by using sodium borohydride reduction and high-...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00275a011
更新日期：1983-03-15 00:00:00
abstract：:We have designed a novel estrogen-responsive unit, overERE, which consists of two overlapping ERE separated by 5 bp (center-to-center). In gel retardation assays, this sequence forms a low-mobility complex that migrates like an estrogen receptor tetramer. The receptor-overERE complex was specific and was supershifted ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi972445e
更新日期：1998-04-28 00:00:00
abstract：:We report that recombinant glia maturation factor (GMF), a 17-kDa brain protein, inhibits the activity of mitogen-activated protein (MAP) kinase in the test tube assay, in particular the ERK1/ERK2 isoforms. A preliminary phosphorylation of GMF by protein kinase A (PKA) dramatically increases its inhibitory effect by o...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi960034c
更新日期：1996-05-21 00:00:00
abstract：:CopA, a thermophilic membrane ATPase from Archaeoglobus fulgidus, drives the outward movement of Cu(+) or Ag(+) [Mandal et al. (2002) J. Biol. Chem. 277, 7201-7208]. This, as other P(IB)-ATPases, is characterized by a putative metal binding sequence (C(380)PC(382)) in its sixth transmembrane fragment and cytoplasmic m...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi034806y
更新日期：2003-09-23 00:00:00
abstract：:15N-labeled hen lysozyme has been studied by 2D and 3D NMR in order to characterize its dynamic behavior. The resonances of all main-chain amide nitrogen atoms were assigned, as were resonances of nitrogen atoms in 28 side chains. Relaxation measurements for the main-chain and arginine and tryptophan side-chain 15N nu...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00012a023
更新日期：1995-03-28 00:00:00
abstract：:Proteins have many distinct tertiary folds (Richardson, J. S. (1981) Adv. Prot. Chem. 34, 167-339). The term tertiary fold refers to the spatial organization of secondary structure elements (alpha-helices and beta-strands). It is not known when, in the process of protein folding, a native tertiary fold emerges. Here, ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00174a021
更新日期：1994-03-01 00:00:00
abstract：:The kinetics of ATP-induced Ca2+ uptake by vesicular dispersions of sarcoplasmic reticulum were determined with a time resolution of about 10 ms, depending on the temperature. Ca2+ uptake was initiated by the addition of ATP through the flash photolysis of P3-1-(2-nitrophenyl)-ethyl adenosine 5'-triphosphate utilizing...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00292a003
更新日期：1983-11-08 00:00:00
abstract：:DNA-DNA interstrand cross-links are thought to be important for the cytotoxicity of many chemotherapeutic agents. To study this more definitively, adduct site-specific methods are used to construct a plasmid with a single nitrogen mustard interstrand cross-link (inter-HN2-pTZSV28). Replication efficiency (RE = [coloni...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi962778w
更新日期：1997-03-25 00:00:00
abstract：:The early redox events involved in iron reduction and mobilization in mammalian ferritin have been investigated by several techniques. Sedimentation velocity measurements of ferritin samples with altered core sizes, prepared by partial reduction and Fe2+ chelation, suggest two different events occur during iron loss f...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00430a033
更新日期：1989-02-21 00:00:00
abstract：:Many proteins that are destined to reside within the lumen of the peroxisome contain the peroxisomal targeting signal-1 (PTS1), a C-terminal tripeptide approximating the consensus sequence -Ser-Lys-Leu-COO(-). The PTS1 is recognized by the tetratricopeptide repeat (TPR) domains of PEX5, a cytosolic receptor that cycle...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi027034z
更新日期：2003-02-18 00:00:00
abstract：:The complete primary and three-dimensional solution structures of subtilosin A (1), a bacteriocin from Bacillus subtilis, were determined by multidimensional NMR studies on peptide produced using isotopically labeled [(13)C,(15)N]medium derived from Anabaena sp. grown on sodium [(13)C]bicarbonate and [(15)N]nitrate. A...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0359527
更新日期：2004-03-30 00:00:00
abstract：:Octaprenyl pyrophosphate synthase (OPPs) catalyzes consecutive condensation reactions of farnesyl pyrophosphate (FPP) with five molecules of isopentenyl pyrophosphate (IPP) to generate C(40) octaprenyl pyrophosphate (OPP) which constitutes the side chain of menaquinone. We have previously reported the X-ray structure ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi036336d
更新日期：2004-06-22 00:00:00
abstract：:During the past decade, there has been much debate about the enormous catalytic rate enhancement observed in enzymatic reactions involving carbanion intermediates. Our recent theoretical study has demonstrated the importance of the short strong hydrogen bond (SSHB) in the enzymatic reactions. Nevertheless, other recen...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0255118
更新日期：2002-04-23 00:00:00
abstract：:The unfolding of human plasma alpha 1-acid glycoprotein (AGP) induced by heat or guanidine hydrochloride was studied under equilibrium conditions. In thermal unfolding, an intermediate state was detected by the appearance of unusual positive difference absorption bands in the 287-295-nm region, which occurred at lower...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00489a026
更新日期：1990-09-18 00:00:00
