Abstract：
:The antibiotic bicyclomycin inhibits rho-dependent termination processes by interfering with RNA translocation by preventing RNA binding at the translocation site or by uncoupling the translocation process from ATP hydrolysis. Previous studies have shown that bicyclomycin binds near the ATP hydrolysis pocket on rho. The hexameric structure of rho indicates that it is in a class of enzymes with strong sequence similarity to F(1)-ATP synthase. The bicyclomycin derivative 5a-formylbicyclomycin, an inhibitor comparable to bicyclomycin, was previously shown to form a stable imine with rho and when reduced to the amine with NaBH(4) to singly label five of the six rho subunits. Lysine-336 was identified by mass spectrometric analysis of trypsin-digested fragments as the site of 5a-formylbicyclomycin adduction. A model of rho was made by threading the rho sequence on the known crystal structure of the alpha and beta subunits of F(1)-ATP synthase. The model, along with information concerning the extent and site of 5a-formylbicyclomycin adduction, indicates an overall C6 symmetry for rho subunit organization. We propose that the sequence similarity between rho and F(1)-ATP synthase extends to a similar quaternary structure and an equivalent enzyme mechanism. The proposed mechanism of RNA translocation coupled with ATP hydrolysis changes the overall symmetry of rho from C6 to C6/C3.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Vincent F,Openshaw M,Trautwein M,Gaskell SJ,Kohn H,Widger WRdoi
10.1021/bi000504+subject
Has Abstractpub_date
2000-08-08 00:00:00pages
9077-83issue
31eissn
0006-2960issn
1520-4995pii
bi000504+journal_volume
39pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract：:Filamin A (FLNA) is a ubiquitously expressed actin cross-linking protein and a scaffold of numerous binding partners to regulate cell proliferation, migration, and survival. FLNA is a homodimer, and each subunit has an N-terminal actin-binding domain followed by 24 immunoglobulin-like repeats (R). FLNA mediates mechan...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.9b00100
更新日期：2019-11-26 00:00:00
abstract：:The activation of adenosine-5'-monophosphate aminohydrolase from rabbit skeletal muscle by H+ has been demonstrated. Evidence is presented which indicates that the binding of H+ and K+ is linked, in that the dissociation constant (KA) for K+ activation is reduced as the pH is lowered. Concomitantly, the pK of several ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00641a013
更新日期：1977-11-01 00:00:00
abstract：:Sumoylation, the process by which the ubiquitin-related SUMO protein is covalently attached to lysine side chains in other proteins, is involved in numerous processes in the eukaryotic cell, including transcriptional repression. In this study, we identify Gcn5, the histone-modifying subunit of the transcriptional regu...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi051624q
更新日期：2006-01-24 00:00:00
abstract：:Protein prenylation involves the attachment of a hydrophobic isoprenoid moiety to the C-terminus of proteins. Several small GTPases, including members of the Ras and Rho subfamilies, require prenylation for their normal and pathological functions. Recent work has suggested that SmgGDS proteins regulate the prenylation...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.8b00567
更新日期：2018-07-24 00:00:00
abstract：:The photoautotrophic freshwater cyanobacterium Synechococcus elongatus is widely used as a chassis for biotechnological applications as well as a photosynthetic bacterial model. In this study, a method for expanding the genetic code of this cyanobacterium has been established, thereby allowing the incorporation of unn...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.7b00131
更新日期：2017-04-25 00:00:00
abstract：:Many bacteria produce isonitrile-containing natural products that are derived from aromatic amino acids. The synthetic clusters that control biosynthesis most commonly encode two enzymes, designated PvcA and PvcB, as well as additional enzymes that direct synthesis of the natural product. The PvcA enzyme installs the ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.5b00255
更新日期：2015-04-28 00:00:00
abstract：:This study presents an approach to identifying surface residues on membrane proteins that are exposed toward the membrane-aqueous interface. The method employs a lipid Ni(II) chelate that localizes the metal ion to a region near the membrane-aqueous interface. Lateral diffusion of the lipid chelate results in Heisenbe...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi015828s
更新日期：2002-01-29 00:00:00
abstract：:In Bacillus subtilis, P protein is the noncatalytic component of ribonuclease P (RNase P) that is critical for achieving maximal nuclease activity under physiological conditions. P protein is predominantly unfolded (D) at neutral pH and low ionic strength; however, it folds upon the addition of sulfate anions (ligands...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi0504613
更新日期：2005-10-04 00:00:00
abstract：:Sufiredoxins (Srx) repair the inactivated forms of typical two-Cys peroxiredoxins (Prx) implicated in hydrogen peroxide-mediated cell signaling. The reduction of the cysteine sulfinic acid moiety within the active site of the Prx by Srx involves novel sulfur chemistry and the use of ATP and Mg(2+). The 1.65 A crystal ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi050131i
更新日期：2005-06-21 00:00:00
abstract：:In prokaryotes, the first three enzymes in pyrimidine biosynthesis, carbamoyl phosphate synthetase (CPS), aspartate transcarbamoylase (ATC), and dihydroorotase (DHO), are commonly expressed separately and either function independently (Escherichia coli) or associate into multifunctional complexes (Aquifex aeolicus). I...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi801831r
更新日期：2009-02-03 00:00:00
abstract：:By means of 2D NMR techniques, all backbone resonances in the 1H NMR spectrum of the single-stranded DNA binding protein encoded by gene V of the filamentous phage IKe have been assigned sequence specifically (at pH 4.6, T = 298 K). In addition, a major part of the side chain resonances could be assigned as well. Anal...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00119a039
更新日期：1992-02-04 00:00:00
abstract：:Oxalate:ferredoxin oxidoreductase (OOR) is an unusual member of the thiamine pyrophosphate (TPP)-dependent 2-oxoacid:ferredoxin oxidoreductase (OFOR) family in that it catalyzes the coenzyme A (CoA)-independent conversion of oxalate into 2 equivalents of carbon dioxide. This reaction is surprising because binding of C...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.7b00222
更新日期：2017-06-06 00:00:00
abstract：:Ketosteroid isomerase (KSI) from Pseudomonas putida biotype B is a homodimeric enzyme catalyzing an allylic rearrangement of Delta5-3-ketosteroids at rates comparable with the diffusion-controlled limit. The tyrosine triad (Tyr14.Tyr55.Tyr30) forming a hydrogen-bond network in the apolar active site of KSI has been ch...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi015547k
更新日期：2001-11-13 00:00:00
abstract：:Deposition of misfolded alpha-synuclein is a critical factor in several neurodegenerative disorders. Filamentous alpha-synuclein is the major component of Lewy bodies and Lewy neurites, the intracellular inclusions in the dopaminergic neurons of the substantia nigra, which are considered the pathological hallmark of P...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi034938r
更新日期：2004-03-23 00:00:00
abstract：:The covalent modification of chicken liver fatty acid synthase by 4-(1-pyrenyl)butyryl-CoA (PBA-CoA), a fluorescent analogue of acetyl- and malonyl-CoA, has been studied. The binding isotherms and the kinetics of inactivation suggest 2 mol of PBA-CoA/mol of enzyme is specifically incorporated into the enzyme. Two clas...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00281a032
更新日期：1983-06-07 00:00:00
abstract：:The serotonin transporter (SERT) is a member of a highly homologous family of proteins responsible for the reuptake of biogenic amines from the synaptic cleft. We took advantage of native restriction sites in SERT to construct a chimeric transporter containing a small (34 amino acid) region of the norepinephrine trans...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi962150l
更新日期：1997-02-11 00:00:00
abstract：:The effect of opportunistic infections (OI) on immune-compromised populations has been known for decades, but the recent AIDS epidemic has sparked renewed interest in the development of new anti-OI agents. The mechanism of action of a series of cationic unfused-aromatic anti-OI drugs is believed to involve binding of ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi971599r
更新日期：1997-12-09 00:00:00
abstract：:2-Cys peroxiredoxins (Prxs) are a large and diverse family of peroxidases which, in addition to their antioxidant functions, regulate cell signaling pathways, apoptosis, and differentiation. These enzymes are obligate homodimers (alpha(2)), utilizing a unique intermolecular redox-active disulfide center for the reduct...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi012173m
更新日期：2002-04-30 00:00:00
abstract：:Hexose-1-phosphate uridylyltransferase catalyzes the interconversion of UDP-galactose and glucose-1-P with UDP-glucose and galactose-1-P by a double-displacement mechanism through a covalent intermediate (E-UMP), in which UMP is bonded to one of two histidine residues at the active site, H164 or H166. To identify whic...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00499a003
更新日期：1990-11-27 00:00:00
abstract：:The solution structure of the complementary d(C1-A2-T3-G4-X5-G6-T7-A8-C9).d(G10-T11-A12-C13-A14-C15-A16-T17-G18) DNA duplex (designated X.A 9-mer), which contains a 1,N2-propanodeoxyguanosine exocyclic adduct X5 opposite deoxyadenosine A14 at the center, is pH dependent [Kouchakdjian, M., Eisenberg, M., Live, D., Mari...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00066a004
更新日期：1993-04-20 00:00:00
abstract：:The packing of lipids into different aggregates, such as spheres, rods, or bilayers, is dependent on the hydrophobic volume, the hydrocarbon-water interfacial area, and the hydrocarbon chain length of the participating molecules, according to the self-assembly theory [Israelachvili, J. N., Marcelja, S., & Horn, R. G. ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00371a038
更新日期：1986-11-18 00:00:00
abstract：:A type II topoisomerase is essential for decatenating DNA replication products, and it accomplishes this task by passing one DNA duplex through a transient break in a second duplex. The B' domain of topoisomerase II contains three highly conserved motifs, EGDSA, PL(R/K)GK(I/L/M)LNVR, and IMTD(Q/A)DXD. We have investig...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi991328b
更新日期：2000-02-15 00:00:00
abstract：:NADH:ubiquinone oxidoreductase (NDH-1 or complex I) from Escherichia coli was purified using a combination of anion exchange chromatography and centrifugation in sucrose density gradient. The dependence of enzyme activity on detergent and phospholipids was studied. Artificial hexaammineruthenium reductase activity was...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi050134v
更新日期：2005-06-14 00:00:00
abstract：:Microfibrils having a diameter of 10-12 nm, found either in association with elastin or independently, are an important component of the extracellular matrix of many tissues. Because isolation of native proteins composing the microfibrils has proven difficult, information on structure/function relationships is limited...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00168a026
更新日期：1994-01-18 00:00:00
abstract：:Michler's hydrol blue (MHB) is investigated with respect to photophysical properties in varied solvent environment and when bound to insulin and lysozyme fibrils. The MHB chromophore is shown to act like a molecular rotor and bind well to amyloid fibrils, where it exhibits a characteristic red-shift in its excitation ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi102016p
更新日期：2011-05-03 00:00:00
abstract：:Base excision repair is a major pathway for the removal of simple lesions in DNA including base damage and base loss (abasic site). Base excision repair requires the coordinated action of several repair and ancillary proteins, the impairment of which can lead to genetic instability. Using a protein-DNA cross-linking a...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi050085m
更新日期：2005-08-09 00:00:00
abstract：:Mammalian thioredoxin reductase (TR) is a pyridine nucleotide disulfide oxidoreductase that uses the rare amino acid selenocysteine (Sec) in place of the more commonly used amino acid cysteine (Cys) in the redox-active tetrapeptide Gly-Cys-Sec-Gly motif to catalyze thiol/disulfide exchange reactions. Sec can accelerat...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi400658g
更新日期：2014-02-04 00:00:00
abstract：:The two-finger repeat in the human male-associated protein ZFY provides a model for comparative 2D-NMR studies of classical and variant Zn fingers. This repeat is defined in part by an alternation in spacing between consensus (HX3H) and variant (HX4H) histidine spacings. To investigate the effects of a "switch" betwee...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi00103a002
更新日期：1991-10-01 00:00:00
abstract：:C4'-oxidized (C4-AP) and C5'-oxidized abasic sites (DOB) that are produced following abstraction of a hydrogen atom from the DNA backbone reversibly form cross-links selectively with dA opposite a 3'-adjacent nucleotide, despite the comparable proximity of an opposing dA. A previous report on UvrABC incision of DNA su...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/acs.biochem.5b00860
更新日期：2015-10-13 00:00:00
abstract：:To understand the stabilization, folding, and functional mechanisms of proteins, it is very important to understand the structural and thermodynamic properties of the molten globule state. In this study, the global structure of the acid molten globule state, which we call MG1, of horse cytochrome c at low pH and high ...
journal_title：Biochemistry
pub_type： 杂志文章
doi：10.1021/bi101806b
更新日期：2011-04-19 00:00:00
