Abstract:
:The Escherichia coli Ada protein repairs methylphosphotriesters in DNA through direct, irreversible transfer to a cysteine residue on the protein, Cys 69. Methylation of Cys 69 increases the sequence-specific DNA-binding activity of Ada by 10(3)-fold, enabling the methylated protein to activate transcription of a methylation-resistance regulon. The thiolate sulfur atom of Cys 69 is coordinated to a tightly bound zinc ion in the Ada N-terminal domain, and this metal-ligand interaction plays a direct role in promoting the DNA repair chemistry. Ada is thus the founding member of a mechanistic class of proteins that employ metalloactivated thiolates as nucleophiles, other examples of which include protein prenyltransferases and cobalamin-independent methionine synthase. Here we have probed the role of the three other Cys residues in Ada that together with Cys 69 coordinate the zinc through mutation to the alternative ligand residues Asp and His. All of the mutant proteins folded properly and bound zinc, but none of them exhibited measurable levels of DNA repair activity. Significantly, the Cys-to-His mutant proteins retained nearly wild-type sequence-specific DNA-binding activity in the unmethylated state. These findings demonstrate that the three "spectator" Cys ligands communicate chemically with Cys 69 through the bound metal ion.
journal_name
Biochemistryjournal_title
Biochemistryauthors
Sun LJ,Yim CK,Verdine GLdoi
10.1021/bi011001msubject
Has Abstractpub_date
2001-09-25 00:00:00pages
11596-603issue
38eissn
0006-2960issn
1520-4995pii
bi011001mjournal_volume
40pub_type
杂志文章相关文献
BIOCHEMISTRY文献大全abstract::As part of a search for peptides that have specificity for selected protein kinases, the possibility that adenosine cyclic 3',5'-phosphate dependent protein kinase (A-kinase) recognizes the hydrogen-bonding potential of its peptide substrates was investigated. A-Kinase catalyzes the phosphorylation of five N alpha-met...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00388a041
更新日期:1987-07-14 00:00:00
abstract::The role of ion channels in cell physiology is regulated by processes occurring after protein biosynthesis, which are critical for both channel function and targeting of channels to appropriate cell compartments. Here we apply biochemical and electrophysiological methods to investigate the role of the high-conductance...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi050527u
更新日期:2005-08-02 00:00:00
abstract::Manganese superoxide dismutase (MnSOD) cycles between the Mn(II) and Mn(III) states during the catalyzed disproportionation of O(2)(*-), a catalysis that is limited at micromolar levels of superoxide by a peroxide-inhibited complex with the metal. We have investigated the role in catalysis and inhibition of the conser...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi011047f
更新日期:2001-10-09 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::Heparin was isolated from an unusually large human hemangioma that contained an elevated level of mast cells. Purification of multimilligram quantities of heparin from this tissue sample permitted a thorough examination of its structure and activity. Characterization of this human heparin included the following: one-d...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00164a020
更新日期:1992-12-15 00:00:00
abstract::Steady-state kinetic parameters were determined for the human leukocyte elastase catalyzed hydrolysis of a series of peptide-based thiobenzyl esters and p-nitroanilides. The peptide units are MeOSuc-Val, MeOSuc-Alan-Pro-Val (n = 0-2), and MeOSuc-Alan-Pro-Ala (n = 1 or 2). The results of this study suggest five importa...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00379a015
更新日期:1987-03-10 00:00:00
abstract::Several basic proteins, including the ubiquitous HU proteins, serve histone-like functions in prokaryotes. Significant sequence conservation exists between HU homologues; yet binding sites varying from 9 to 37 bp have been reported. TF1, an HU homologue with a 37 bp binding site that is encoded by the Bacillus subtili...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi016095e
更新日期:2002-06-18 00:00:00
abstract::Complex I of respiratory chains transfers electrons from NADH to ubiquinone, coupled to the translocation of protons across the membrane. Two alternative coupling mechanisms are being discussed, redox-driven or conformation-driven. Using "zero-length" cross-linking reagent and isolated hydrophilic domains of complex I...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi801160u
更新日期:2008-09-30 00:00:00
abstract::Amyloid beta-protein (Abeta) self-assembly is linked strongly to Alzheimer's disease. We found that PP-Leu, a tridecapeptide analogue of broad-spectrum antiviral peptides termed theta-defensins, potently inhibits Abeta oligomer and fibril formation. This effect appeared to be mediated through sequestration of the amyl...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi901325g
更新日期:2009-12-08 00:00:00
abstract::The thermal denaturation of caricain (the most alkaline of papain-related proteinases) was studied in acid media. Under all conditions tested, caricain denatured irreversibly following a single first-order reaction that involves simultaneous loss of secondary and tertiary structures. Besides, variation of the rate con...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi991658w
更新日期:1999-11-30 00:00:00
abstract::CRISPR-Cas9 technology has been at the forefront of the field of biology. The Streptococcus pyogenes (SpyCas9) protein forms a complex with guide RNA and can recognize and cleave double-stranded DNA through hybridization based on 20 base pairings. SpyCas9 has two nuclease domains, HNH and RuvC, each of which cuts each...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/acs.biochem.0c00766
更新日期:2021-01-26 00:00:00
abstract::Kinetics of flash-induced electron transfer from the soluble cytochrome c2 to the primary donor (P) of the reaction center purified from the purple bacterium Rhodobacter sphaeroides R-26 were investigated by time-resolved absorption spectroscopy. Re-reduction of P+ induced by a laser pulse was measured at 1283 nm both...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00211a037
更新日期:1993-12-07 00:00:00
abstract::Factor VIII (FVIII) is the nonproteolytic cofactor for FIXa in the tenase complex of blood coagulation. FVIII is proteolytically activated by thrombin and FXa in vitro to form a heterotrimer with full procoagulant activity. Activated protein C inactivates thrombin-activated FVIII through cleavage adjacent to position ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00125a022
更新日期:1992-03-17 00:00:00
abstract::The extrinsic 33-kDa protein (P33) was cross-linked covalently to the binding site on P33-depleted PSII preparations which is responsible for reconstitution of photosynthetic water oxidation after PSII preparations have been washed with 1 M CaCl2. Conditions were found in which more than half of the cross-linked prote...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00439a033
更新日期:1989-06-27 00:00:00
abstract::Binding studies of the interaction of immobilized 1alpha- and 17alpha-aminoalkyl derivatives of 5alpha-dihydrotestosterone (DHT) with purified N-deglycosylated homodimeric human sex hormone-binding globulin (SHBG) were performed using a surface plasmon resonance biosensor. These 1alpha- and 17alpha-derivatives with sp...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi035269k
更新日期:2003-11-25 00:00:00
abstract::1H NMR and ligand-binding data were used to assess the role of residue Arg(E10) in ligand stabilization of several site-directed mutants, all carrying the His(E7) to Val substitution, obtained using a synthetic sperm whale myoglobin gene. Arg(E10) was previously found to form a hydrogen bond with the ligand in fluoro-...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00074a015
更新日期:1993-06-15 00:00:00
abstract::Investigation of the charge distribution for all known members of the PP-fold family of peptides reveals a common pattern characterized by a cluster of negative charges in the beta-turn region and a cluster of positive charges in the receptor-binding region of the peptide. Detailed analysis of the electrostatic proper...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00063a005
更新日期:1993-03-30 00:00:00
abstract::The structure of octylcarbamoyl-alpha-chymotrypsin to a resolution of 3.0 A is described. The n-octyl side chain of the active site directed irreversible inactivator octyl isocyanate is bound exclusively in the hydrophobic substrate binding pocket. The n-octyl isocyanate forms a planar urethane bond with the Ser-195 O...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00694a008
更新日期:1975-11-18 00:00:00
abstract::Proline-71, an evolutionally conserved residue that separates two short alpha-helical regions, is replaced by valine, threonine, or isoleucine in at least partially functional forms of iso-1-cytochrome c from Saccharomyces cerevisiae [Ernst, J. F., Hampsey, D. M., Stewart, J. W., Rackovsky, S., Goldstein, D., & Sherma...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00370a033
更新日期:1986-11-04 00:00:00
abstract::The truncated hemoglobins from Bacillus subtilis (Bs-trHb) and Thermobifida fusca (Tf-trHb) have been shown to form high-affinity complexes with hydrogen sulfide in their ferric state. The recombinant proteins, as extracted from Escherichia coli cells after overexpression, are indeed partially saturated with sulfide, ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi901671d
更新日期:2010-03-16 00:00:00
abstract::Difference Fourier transform infrared spectra of lumirhodopsin, metarhodopsin I, and metarhodopsin II versus rhodopsin were recorded with hydrated films of bovine rod outer segments at 200, 240, and 270 K. In the region between 3700 and 3450 cm-1, the O-H stretching vibrational bands of water were identified by H(2)18...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00096a013
更新日期:1993-11-16 00:00:00
abstract::The conversion of prion protein (PrP) to the pathogenic PrPSc conformation is central to prion disease. Previous studies revealed that PrP interacts with lipids and the interaction induces PrP conformational changes, yet it remains unclear whether in the absence of any denaturing treatment, PrP-lipid interaction is su...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi700299h
更新日期:2007-06-12 00:00:00
abstract::The reaction catalyzed by orotidine 5'-monophosphate decarboxylase (OMPDC) is accompanied by exceptional values for rate enhancement (k(cat)/k(non) = 7.1 × 10(16)) and catalytic proficiency [(k(cat)/K(M))/k(non) = 4.8 × 10(22) M(-1)]. Although a stabilized vinyl carbanion/carbene intermediate is located on the reactio...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi2012355
更新日期:2011-10-04 00:00:00
abstract::In this work, we show that adenosine 5'-O-(3-thiotriphosphate) (ATP gamma S) is a substrate for yeast inorganic pyrophosphatase (PPase) (EC 3.6.1.1) and further, using chirally labeled [gamma-17O,18O]ATP gamma S, that enzyme-catalyzed hydrolysis to produce chiral inorganic thio[17O,18O]phosphate proceeds with inversio...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00300a002
更新日期:1984-02-28 00:00:00
abstract::Tandem calponin-homology (CH) domains are the most common actin-binding domains in proteins. However, structural principles underlying their function are poorly understood. These tandem domains exist in multiple conformations with varying degrees of inter-CH-domain interactions. Dystrophin and utrophin tandem CH domai...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/acs.biochem.5b00741
更新日期:2015-09-08 00:00:00
abstract::A modified multiple binding equilibria treatment is presented that allows determination of thermodynamic parameters of the interaction of phospholipids with integral membrane proteins solubilized in excess detergent. Lipid binding is modeled as a series of exchange reactions between lipid molecules and detergent molec...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00376a019
更新日期:1987-01-27 00:00:00
abstract::By following the kinetics of abortive and productive synthesis in single-round transcription assays, we confirm the existence of two general classes of initial transcribing complexes (ITCs), which we term "productive ITC" and "unproductive ITC". The productive ITCs are able to escape from the promoter rapidly to produ...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi0269613
更新日期:2003-04-08 00:00:00
abstract::The catalytically competent active-site structure of a true acylenzyme reaction intermediate of TEM-1 beta-lactamase formed with the kinetically specific spin-labeled substrate 6-N-(2,2,5,5-tetramethyl-1-oxypyrrolinyl-3-carboxyl)-penicillanic acid isolated under cryoenzymologic conditions has been determined by angle-...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi0021075
更新日期:2001-02-27 00:00:00
abstract::The Pf1 gene 5 protein forms a large helical nucleoprotein complex (Mr = 3.1 x 10(7)) with single-stranded viral DNA, from which a 32 amino acid sequence rich in alanine, proline, and glutamine residues can be removed from the C-terminus by limited proteolysis. Sharp resonances in the 1H NMR spectrum of the Pf1 nucleo...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00001a018
更新日期:1995-01-10 00:00:00
abstract::A series of diastereomeric dipeptide amides, containing an N-terminal L-lysyl residue and a C-terminal L- or D-amino acid with a derivatized aromatic ring on the side chain, was synthesized to determine the dependence of (1) the chirality of the N-terminal amino acid alpha-carbon and (2) the length of the N-terminal a...
journal_title:Biochemistry
pub_type: 杂志文章
doi:10.1021/bi00278a005
更新日期:1983-04-26 00:00:00