Abstract：
:Since a major function of RNA polymerase must be to bring together substrates in the optimal configuration for internucleotide bond formation, studies have been undertaken to understand the geometrical relationship of the two substrates. A model has been constructed for the geometry of interaction of two ATP molecules poised on the active site of the Escherichia coli enzyme for the formation of the first bond in RNA synthesis. The model is based primarily on the distance, measured by EPR, between the two metals in the i and i + 1 subsites, as well as distances, measured by NMR, from each metal to points on the substrate in the same subsite, in the presence of a poly(dAdT).poly(dAdT) template. Both the Zn(II) in the i site and the Mg(II) in i + 1 are displaced by Mn(II). The nucleotide bases are not parallel to each other, in line with the reaction of the ATP molecules with DNA within the transcription bubble. The metal in the i site appears too far removed from substrate to participate in catalysis, but the metal in i + 1 is in position to bind to the beta- and gamma-phosphate groups and probably is involved in cleavage of the triphosphate, as has been previously suggested.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Beal RB,Pillai RP,Chuknyisky PP,Levy A,Tarien E,Eichhorn GLdoi
10.1021/bi00477a017subject
Has Abstractpub_date
1990-06-26 00:00:00pages
5994-6002issue
25eissn
0006-2960issn
1520-4995journal_volume
29pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract：:The binding of human Glu- and Lys-plasminogens to intact fibrin clots, to lysine-Sepharose, and to fibrin cleaved by plasmin was quantitatively characterized. On intact fibrin clots, there was one strong binding site for Glu-plasminogen with a dissociation constant, Kd, of 25 microM and one strong binding site for Lys...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00334a031
更新日期：1985-06-18 00:00:00
abstract：:Disruption of the zinc-thiolate center at the active site of yeast alcohol dehydrogenase results in inactivation and zinc release. Measurements of activity, zinc release, and thiol/thiolate oxidation were used to assess the effects of biologically relevant oxidants on alcohol dehydrogenase. Alcohol dehydrogenase was i...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00011a008
更新日期：1995-03-21 00:00:00
abstract：:Recently, a new clathrin assembly protein (AP180) has been purified from coated vesicles of bovine brain (Ahle & Ungewickell, 1986). This protein has been shown to promote polymerization of clathrin into a homogeneous population of baskets under conditions where pure clathrin does not polymerize by itself. We have pur...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00416a040
更新日期：1988-08-09 00:00:00
abstract：:The side chain of the antifungal polyketide ansatrienin A produced by Streptomyces collinus contains a cyclohexanecarboxylic acid (CHC) derived moiety. This CHC in the coenzyme A activated form (CHC-CoA) is derived from shikimic acid via a pathway in which the penultimate step is the isomerization of 2-cyclohexenylcar...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0005714
更新日期：2000-06-27 00:00:00
abstract：:The thermodynamic binding parameters and crystal structure for streptavidin-peptide complexes where the peptide sequences were obtained by random screening methods are reported. The affinities between streptavidin and two heptapeptides were determined by titrating calorimetric methods [Phe-Ser-His-Pro-Gln-Asn-Thr, Ka ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00154a004
更新日期：1992-10-06 00:00:00
abstract：:Time-resolved spectroscopic studies of unfolded horse iron(II) cytochrome c have suggested that the imidazole side chains of His26 and His33 bind transiently to the heme iron on microsecond time scales, after photodissociation of a carbon monoxide ligand from the heme. Our studies of four variants of cytochrome c (hor...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi011371a
更新日期：2002-01-29 00:00:00
abstract：:On the basis of the available high-resolution structures of mandelate racemase (MR) from Pseudomonas putida [Landro, J. A., Gerlt, J. A., Kozarich, J. W., Koo, C. W., Shah, V. J., Kenyon, G. L., Neidhart, D. J., Fujita, J., & Petsko, G. A. (1994) Biochemistry 33, 635-643], Lys 166 and His 297 are positioned appropriat...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00009a007
更新日期：1995-03-07 00:00:00
abstract：:The beta-glycosidase from the hyperthermophilic Archaeon Sulfolobus solfataricus hydrolyzes beta-glycosides following a retaining mechanism based upon the action of two amino acids: Glu387, which acts as the nucleophile of the reaction, and Glu206, which acts as the general acid/base catalyst. The activities of inacti...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi981855f
更新日期：1998-12-08 00:00:00
abstract：:Introduction of a disulfide bond by site-directed mutagenesis was found to enhance the stability of subtilisin BPN' (EC 3.4.21.14) under a variety of conditions. The location of the new disulfide bond was selected with the aid of a computer program, which scored various sites according to the amount of distortion that...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00382a002
更新日期：1987-04-21 00:00:00
abstract：:Although the synthesis of RNA from a DNA template is (and must be) a generally very stable process to enable transcription of kilobase transcripts, it has long been known that during initial transcription of the first 8-10 bases of RNA complexes are relatively unstable, leading to the release of short abortive RNA tra...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi200620q
更新日期：2011-08-16 00:00:00
abstract：:2,3-Butanedione monoxime (BDM) reversibly inhibits force production in muscle. At least part of its action appears to be directly on the contractile apparatus. To understand better its mechanism of action, we studied the effect of BDM on the steps of myosin subfragment 1 Mg(2+)-ATPase in 0.1 M potassium acetate, pH 7....
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00163a036
更新日期：1992-12-08 00:00:00
abstract：:Pyrophosphate-dependent 6-phosphofructo-1-kinase (PPi-PFK) from Propionibacterium freudenreichii was inactivated by low concentrations of the lysine-specific reagent pyridoxal phosphate (PLP) after sodium borohydride reduction. The substrates fructose 6-phosphate and fructose 1,6-bisphosphate protected against inactiv...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00135a011
更新日期：1992-05-26 00:00:00
abstract：:Conformational changes in the prion protein cause transmissible spongiform encephalopathies, also referred to as prion diseases. In its native state, the prion protein is innocuous (PrPC), but it can misfold into a neurotoxic and infectious isoform (PrPSc). The full-length cellular form of the prion protein consists o...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0619066
更新日期：2007-03-20 00:00:00
abstract：:High-molecular mass thioredoxin reductases (TRs) are pyridine nucleotide disulfide oxidoreductases that catalyze the reduction of the disulfide bond of thioredoxin (Trx). Trx is responsible for reducing multiple protein disulfide targets in the cell. TRs utilize reduced β-nicotinamide adenine dinucleotide phosphate to...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi400931k
更新日期：2014-01-28 00:00:00
abstract：:Post-translational phosphorylation and the related conformational changes in signaling proteins are responsible for regulating a wide range of subcellular processes. Human Pin1 is central to many of these cell signaling pathways in normal and aberrant subcellular processes, catalyzing cis-trans isomerization of the pe...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi2009954
更新日期：2011-11-08 00:00:00
abstract：:We studied hyperosmolarity-induced changes in cell volume and cytoplasmic pH in PS120 cells expressing Na(+)/H(+) exchanger (NHE) isoforms and their mutants. Change in cell volume was estimated by measuring change in cell height by means of confocal microscopy. Regulatory volume increase (RVI) and cytoplasmic alkalini...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi020427d
更新日期：2003-02-04 00:00:00
abstract：:The anaerobic global regulator FNR from Escherichia coli is a [4Fe-4S](2+) cluster-containing dimer that is inactivated by O(2) through disruption of the Fe-S cluster and conversion to the monomeric apoprotein. It was shown that apo-FNR is subject to ClpXP proteolysis, and two recognition sites, amino acids 5-11 and a...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi2018688
更新日期：2012-06-26 00:00:00
abstract：:By use of site-directed mutagenesis, each prolyl residue in the lac permease of Escherichia coli at positions 28 (putative helix I), 31 (helix I), 61 (helix II), 89 (helix III), 97 (helix III), 123 (helix IV), 192 (putative hydrophilic region 7), 220 (helix VII), 280 (helix VIII), and 327 [helix X; Lolkema, J. S., et ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00219a019
更新日期：1991-02-05 00:00:00
abstract：:Induced fit has been postulated to be an important component of ligand interactions with proteins, including protein-DNA interactions. We imagined that the entropic cost of induced fit might be highly dependent on the local protein sequence context around critical contact residues. To investigate this question, we ana...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi960256a
更新日期：1996-06-25 00:00:00
abstract：:The S2 subsite specificity of the plant protease papain has been altered to resemble that of mammalian cathepsin B by site-directed mutagenesis. On the basis of amino acid sequence alignments for papain and cathepsin B, a double mutant (Val133Ala/Ser205Glu) was produced where Val133 and Ser205 are replaced by Ala and ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00101a003
更新日期：1991-09-17 00:00:00
abstract：:Indolotryptoline natural products represent a small family of structurally unique chromopyrrolic acid-derived antiproliferative agents. Like many prospective anticancer agents before them, the exploration of their potential clinical utility has been hindered by the limited information known about their mechanism of ac...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi501078j
更新日期：2014-11-18 00:00:00
abstract：:The cytidine repressor (CytR) is a member of the LacR family of bacterial repressors with distinct functional features. The Escherichia coli CytR regulon comprises nine operons whose palindromic operators vary in both sequence and, most significantly, spacing between the recognition half-sites. This suggests a strong ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi200205v
更新日期：2011-08-09 00:00:00
abstract：:Human apolipoprotein(a) kringle IV type 10 [apo(a) KIV(10)] contains a strong lysine-binding site (LBS) that mediates the interaction of Lp(a) with biological substrates such as fibrin. Mutations in the KIV(10) LBS have been reported in both the rhesus monkey and chimpanzee, and have been proposed to explain the lack ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi048156p
更新日期：2005-01-18 00:00:00
abstract：:Prenyltransferase (EC 2.5.1.1) has been obtained from chicken liver in a stable crystalline form. The enzyme has been shown to be homogeneous by polyacrylamide gel electrophoresis at pH 8.4, and by electrophoresis in sodium dodecyl sulfate containing gels. Electrofocusing of the crystalline enzyme results in a single ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00672a009
更新日期：1975-01-14 00:00:00
abstract：:A novel phosphotriesterase was recently discovered and purified from Sphingobium sp. TCM1 (Sb-PTE) and shown to catalyze the hydrolysis of a broad spectrum of organophosphate esters with a catalytic efficiency that exceeds 10(6) M(-1) s(-1) for the hydrolysis of triphenyl phosphate. The enzyme was crystallized and the...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.6b00364
更新日期：2016-07-19 00:00:00
abstract：:Distinct structural features of DNA, such as the curvature of dA tracts, are important in the recognition, packaging, and regulation of DNA. Physiologically relevant concentrations of magnesium have been found to enhance the curvature of dA tract DNAs, as monitored by solution-state NMR, indicating that the structure ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi010853j
更新日期：2001-08-07 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
abstract：:Protocatechuate 3,4-dioxygenase (3,4-PCD) utilizes a ferric ion to catalyze the aromatic ring cleavage of 3,4-dihydroxybenzoate (PCA) by incorporation of both atoms of dioxygen to yield beta-carboxy-cis, cis-muconate. The crystal structures of the anaerobic 3,4-PCD.PCA complex, aerobic complexes with two heterocyclic ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi970469f
更新日期：1997-08-19 00:00:00
abstract：:The neutral glycosphingolipids of hairy cells from a patient with hairy cell leukemia were chemically analyzed by thin-layer and gas-liquid chromatography, mass spectrometry, combined gas chromatography-mass spectrometry, and glycosidase treatment. These cells were found to have compounds containing one to four sugars...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00525a032
更新日期：1981-10-27 00:00:00
abstract：:Properties of the interaction of bleomycin (Blm) and metallobleomycins [M = Zn, Cu(II), Fe(III), and HO(2)-Co(III)] with site-specific and nonspecific DNA oligomers, d(GGAAGCTTCC)(2) (I) and d(GGAAATTTCC)(2) (II), respectively, were investigated. With both 10-mers association constants increased in the series Blm A(2)...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi001915t
更新日期：2001-06-26 00:00:00
