Structure and DNA binding of alkylation response protein AidB.

Abstract:

:Exposure of Escherichia coli to alkylating agents activates expression of AidB in addition to DNA repair proteins Ada, AlkA, and AlkB. AidB was recently shown to possess a flavin adenine dinucleotide (FAD) cofactor and to bind to dsDNA, implicating it as a flavin-dependent DNA repair enzyme. However, the molecular mechanism by which AidB acts to reduce the mutagenic effects of specific DNA alkylators is unknown. We present a 1.7-A crystal structure of AidB, which bears superficial resemblance to the acyl-CoA dehydrogenase superfamily of flavoproteins. The structure reveals a unique quaternary organization and a distinctive FAD active site that provides a rationale for AidB's limited dehydrogenase activity. A highly electropositive C-terminal domain not present in structural homologs was identified by mutational analysis as the DNA binding site. Structural analysis of the DNA and FAD binding sites provides evidence against AidB-catalyzed DNA repair and supports a model in which AidB acts to prevent alkylation damage by protecting DNA and destroying alkylating agents that have yet to reach their DNA target.

authors

Bowles T,Metz AH,O'Quin J,Wawrzak Z,Eichman BF

doi

10.1073/pnas.0806521105

subject

Has Abstract

pub_date

2008-10-07 00:00:00

pages

15299-304

issue

40

eissn

0027-8424

issn

1091-6490

pii

0806521105

journal_volume

105

pub_type

杂志文章
  • Amelioration of lupus-like autoimmune disease in NZB/WF1 mice after treatment with a blocking monoclonal antibody specific for complement component C5.

    abstract::New Zealand black x New Zealand white (NZB/W) F1 mice spontaneously develop an autoimmune syndrome with notable similarities to human systemic lupus erythematosus. Female NZB/WF1 mice produce high titers of antinuclear antibodies and invariably succumb to severe glomerulonephritis by 12 months of age. Although the dev...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.93.16.8563

    authors: Wang Y,Hu Q,Madri JA,Rollins SA,Chodera A,Matis LA

    更新日期:1996-08-06 00:00:00

  • Local maternal control of seed size by KLUH/CYP78A5-dependent growth signaling.

    abstract::Seed development in plants involves the coordinated growth of the embryo, endosperm, and maternal tissue. Several genes have been identified that influence seed size by acting maternally, such as AUXIN RESPONSE FACTOR2, APETALA2, and DA1. However, given the lack of gain-of-function effects of these genes on seed size,...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0907024106

    authors: Adamski NM,Anastasiou E,Eriksson S,O'Neill CM,Lenhard M

    更新日期:2009-11-24 00:00:00

  • Triggered amplification by hybridization chain reaction.

    abstract::We introduce the concept of hybridization chain reaction (HCR), in which stable DNA monomers assemble only upon exposure to a target DNA fragment. In the simplest version of this process, two stable species of DNA hairpins coexist in solution until the introduction of initiator strands triggers a cascade of hybridizat...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0407024101

    authors: Dirks RM,Pierce NA

    更新日期:2004-10-26 00:00:00

  • Fire cycles in North American interior grasslands and their relation to prairie drought.

    abstract::High-resolution analyses of a late Holocene core from Kettle Lake in North Dakota reveal coeval fluctuations in loss-on-ignition carbonate content, percentage of grass pollen, and charcoal flux. These oscillations are indicative of climate-fuel-fire cycles that have prevailed on the Northern Great Plains (NGP) for mos...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0503621102

    authors: Brown KJ,Clark JS,Grimm EC,Donovan JJ,Mueller PG,Hansen BC,Stefanova I

    更新日期:2005-06-21 00:00:00

  • Classification of hypergeometric identities for pi and other logarithms of algebraic numbers.

    abstract::This paper provides transcendental and algebraic framework for the classification of identities expressing pi and other logarithms of algebraic numbers as rapidly convergent generalized hypergeometric series in rational parameters. Algebraic and arithmetic relations between values of p+1Fp hypergeometric functions and...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.95.6.2744

    authors: Chudnovsky DV,Chudnovsky GV

    更新日期:1998-03-17 00:00:00

  • Multiple areas of the cerebral cortex influence the stomach.

    abstract::The central nervous system both influences and is influenced by the gastrointestinal system. Most research on this gut-brain connection has focused on how ascending signals from the gut and its microbiome alter brain function. Less attention has focused on how descending signals from the central nervous system alter g...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.2002737117

    authors: Levinthal DJ,Strick PL

    更新日期:2020-06-09 00:00:00

  • Incorporation of cellular and plasma fibronectins into smooth muscle cell extracellular matrix in vitro.

    abstract::Fibronectins isolated from the conditioned medium produced by cultures of undifferentiated (monolayer) and differentiated (nodular) swine vascular smooth muscle cells are similar but not identical. In general, the nodular-cell fibronectin has a smaller molecular mass than monolayer-cell fibronectin and appears to lack...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.82.9.2746

    authors: Millis AJ,Hoyle M,Mann DM,Brennan MJ

    更新日期:1985-05-01 00:00:00

  • Induction of neuronal functions: acetylcholine-induced acetylcholinesterase activity in mouse neuroblastoma cells.

    abstract::Addition of acetylcholine to growing cultures of mouse neuroblastoma cells induced a 37-fold increase in the specific activity of acetylcholinesterase (EC 3.1.1.7). Morphological changes, consisting of neurite-extensions, were also observed during the logarithmic phase of growth of cells stimulated with acetylcholine....

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.69.11.3161

    authors: Harkins J,Arsenault M,Schlesinger K,Kates J

    更新日期:1972-11-01 00:00:00

  • Tertiary structure of myohemerythrin at low resolution.

    abstract::X-ray diffraction studies have produced a low resolution image and also located the iron atoms of a monomeric hemerythrin from muscles of a sipunculan worm. These results reveal the course of the polypeptide chain and some details of the active center. ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.72.6.2160

    authors: Hendrickson WA,Klippenstein GL,Ward KB

    更新日期:1975-06-01 00:00:00

  • From the Cover: Directed, efficient, and versatile modifications of the Drosophila genome by genomic engineering.

    abstract::With the completion of genome sequences of major model organisms, increasingly sophisticated genetic tools are necessary for investigating the complex and coordinated functions of genes. Here we describe a genetic manipulation system termed "genomic engineering" in Drosophila. Genomic engineering is a 2-step process t...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0900641106

    authors: Huang J,Zhou W,Dong W,Watson AM,Hong Y

    更新日期:2009-05-19 00:00:00

  • Impaired attentional selection following lesions to human pulvinar: evidence for homology between human and monkey.

    abstract::We examined the contributions of the human pulvinar to goal directed selection of visual targets in 3 patients with chronic, unilateral lesions involving topographic maps in the ventral pulvinar. Observers completed 2 psychophysical tasks in which they discriminated the orientation of a lateralized target grating in t...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 临床试验,杂志文章

    doi:10.1073/pnas.0810086106

    authors: Snow JC,Allen HA,Rafal RD,Humphreys GW

    更新日期:2009-03-10 00:00:00

  • Novel electronic nematicity in heavily hole-doped iron pnictide superconductors.

    abstract::Electronic nematicity, a correlated state that spontaneously breaks rotational symmetry, is observed in several layered quantum materials. In contrast to their liquid-crystal counterparts, the nematic director cannot usually point in an arbitrary direction (XY nematics), but is locked by the crystal to discrete direct...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1909172117

    authors: Ishida K,Tsujii M,Hosoi S,Mizukami Y,Ishida S,Iyo A,Eisaki H,Wolf T,Grube K,V Löhneysen H,Fernandes RM,Shibauchi T

    更新日期:2020-03-24 00:00:00

  • Characteristics of binding of human seminal alpha-inhibin-92 to human pituitary membranes.

    abstract::We investigated the binding of 125I-labeled alpha-inhibin-92 (a 92-residue peptide) to human pituitary membrane preparations. Unlabeled alpha-inhibin-92 competed effectively with the labeled peptide for binding to the membranes. Binding was also inhibited by both alpha-inhibin-52 and alpha-inhibin-31, but less effecti...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.84.11.3595

    authors: Ramasharma K,Li CH

    更新日期:1987-06-01 00:00:00

  • Effect of protein kinase P on phosphorylations catalyzed by the epidermal growth factor.

    abstract::Protein kinase P (PK-P) activated by histones or certain other basic compounds has been purified previously from yeast [Yanagita, Y., Abdel-Ghany, M., Raden, D., Nelson, N. & Racker, E. (1987) Proc. Natl. Acad. Sci. USA 84, 925-929]. It is shown here that PK-P is present in solubilized membranes of A-431 carcinoma cel...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.84.24.8888

    authors: Abdel-Ghany M,Kole HK,Racker E

    更新日期:1987-12-01 00:00:00

  • Electrochemical and homogeneous electron transfers to the Alzheimer amyloid-beta copper complex follow a preorganization mechanism.

    abstract::Deciphering the electron transfer reactivity characteristics of amyloid β-peptide copper complexes is an important task in connection with the role they are assumed to play in Alzheimer's disease. A systematic analysis of this question with the example of the amyloid β-peptide copper complex by means of its electroche...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1011315107

    authors: Balland V,Hureau C,Savéant JM

    更新日期:2010-10-05 00:00:00

  • Asymmetrically expressed axin required for anterior development in Tribolium.

    abstract::Canonical Wnt signaling has been implicated in an AP axis polarizing mechanism in most animals, despite limited evidence from arthropods. In the long-germ insect, Drosophila, Wnt signaling is not required for global AP patterning, but in short-germ insects including Tribolium castaneum, loss of Wnt signaling affects d...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1116641109

    authors: Fu J,Posnien N,Bolognesi R,Fischer TD,Rayl P,Oberhofer G,Kitzmann P,Brown SJ,Bucher G

    更新日期:2012-05-15 00:00:00

  • Adaptive aneuploidy protects against thiol peroxidase deficiency by increasing respiration via key mitochondrial proteins.

    abstract::Aerobic respiration is a fundamental energy-generating process; however, there is cost associated with living in an oxygen-rich environment, because partially reduced oxygen species can damage cellular components. Organisms evolved enzymes that alleviate this damage and protect the intracellular milieu, most notably t...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1505315112

    authors: Kaya A,Gerashchenko MV,Seim I,Labarre J,Toledano MB,Gladyshev VN

    更新日期:2015-08-25 00:00:00

  • A cellular enhancer of retrovirus gene expression in embryonal carcinoma cells.

    abstract::Murine embryonal carcinoma (EC) cells are refractory to infection by retroviruses because retroviral long terminal repeat (LTR) enhancers have little activity in EC cells. A previous report described the isolation of clonal EC cell lines that express the integrated neomycin-resistance gene (neo) linked to the Moloney ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.84.11.3748

    authors: Taketo M,Tanaka M

    更新日期:1987-06-01 00:00:00

  • The agroecological matrix as alternative to the land-sparing/agriculture intensification model.

    abstract::Among the myriad complications involved in the current food crisis, the relationship between agriculture and the rest of nature is one of the most important yet remains only incompletely analyzed. Particularly in tropical areas, agriculture is frequently seen as the antithesis of the natural world, where the problem i...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0905455107

    authors: Perfecto I,Vandermeer J

    更新日期:2010-03-30 00:00:00

  • Induction of erythroid differentiation in murine virus infected eythroleukemia cells by highly polar compounds.

    abstract::Murine-virus-infected erythroleukemia cells cultured in a medium with dimethylsulfoxide or N,N-dimethylformamide are induced to differentiate to erythroid cells. A number of highly polar compounds have a similar effect in inducing erythroid differentiation of the virus-infected cells, as assayed by the appearance of h...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.72.3.1003

    authors: Tanaka M,Levy J,Terada M,Breslow R,Rifkind RA,Marks PA

    更新日期:1975-03-01 00:00:00

  • Isolation and characterization of a human serum cholesteryl ester transfer protein.

    abstract::Human plasma has been shown to contain an apolipoprotein that mediates the transport of cholesteryl ester from high density lipoprotein (HDL) to very low density lipoprotein (VLDL) or low density lipoprotein (LDL). This activity, confined to the density greater than 1.063 g/ml interval, has been isolated from HDL and ...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.75.7.3445

    authors: Chajek T,Fielding CJ

    更新日期:1978-07-01 00:00:00

  • The subsynaptic 43-kDa protein is concentrated at developing nerve-muscle synapses in vitro.

    abstract::A 43-kDa peripheral membrane protein is known to copurify with acetylcholine receptor (AcChoR)-rich membranes isolated from the electric organ of Torpedo californica. Immunoelectron microscopy and crosslinking studies have demonstrated that this 43-kDa protein is closely associated with the cytoplasmic domain(s) of th...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.82.23.8270

    authors: Burden SJ

    更新日期:1985-12-01 00:00:00

  • Surfactant protein A mediates mycoplasmacidal activity of alveolar macrophages by production of peroxynitrite.

    abstract::We have previously shown that surfactant protein A (SP-A) mediates in vitro killing of mycoplasmas by alveolar macrophages (AMs) from resistant C57BL/6 mice through a nitric oxide (.NO)-dependent mechanism. Herein, SP-A-deficient [SP-A(-/-)] and inducible.NO synthase-deficient [iNOS(-/-)] mice were infected intranasal...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.96.9.4953

    authors: Hickman-Davis J,Gibbs-Erwin J,Lindsey JR,Matalon S

    更新日期:1999-04-27 00:00:00

  • Origin of the HIV-1 group O epidemic in western lowland gorillas.

    abstract::HIV-1, the cause of AIDS, is composed of four phylogenetic lineages, groups M, N, O, and P, each of which resulted from an independent cross-species transmission event of simian immunodeficiency viruses (SIVs) infecting African apes. Although groups M and N have been traced to geographically distinct chimpanzee commun...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1502022112

    authors: D'arc M,Ayouba A,Esteban A,Learn GH,Boué V,Liegeois F,Etienne L,Tagg N,Leendertz FH,Boesch C,Madinda NF,Robbins MM,Gray M,Cournil A,Ooms M,Letko M,Simon VA,Sharp PM,Hahn BH,Delaporte E,Mpoudi Ngole E,Peeters M

    更新日期:2015-03-17 00:00:00

  • Radiocarbon-based approach capable of subannual precision resolves the origins of the site of Por-Bajin.

    abstract::Inadequate resolution is the principal limitation of radiocarbon dating. However, recent work has shown that exact-year precision is attainable if use can be made of past increases in atmospheric radiocarbon concentration or so-called Miyake events. Here, this nascent method is applied to an archaeological site of pre...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1921301117

    authors: Kuitems M,Panin A,Scifo A,Arzhantseva I,Kononov Y,Doeve P,Neocleous A,Dee M

    更新日期:2020-06-23 00:00:00

  • Antiinflammatory glucocorticoid receptor ligand with reduced side effects exhibits an altered protein-protein interaction profile.

    abstract::Glucocorticoids are commonly used antiinflammatory agents whose use is limited by side effects. We have developed a series of glucocorticoid receptor (GR) ligands that retain the strong antiinflammatory activity of conventional glucocorticoids with reduced side effects. We present a compound, LGD5552, that binds the r...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.0705517104

    authors: Miner JN,Ardecky B,Benbatoul K,Griffiths K,Larson CJ,Mais DE,Marschke K,Rosen J,Vajda E,Zhi L,Negro-Vilar A

    更新日期:2007-12-04 00:00:00

  • Strand specificity in the transcriptional targeting of recombination at immunoglobulin switch sequences.

    abstract::B-lymphocyte-specific class switch recombination is known to occur between pairs of 2- to 10-kb switch regions located immediately upstream of the immunoglobulin constant heavy-chain genes. Others have shown that the recombination is temporally correlated with the induction of transcription at the targeted switch regi...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.92.12.5625

    authors: Daniels GA,Lieber MR

    更新日期:1995-06-06 00:00:00

  • Nematic twist-bend phase in an external field.

    abstract::The response of the nematic twist-bend ([Formula: see text]) phase to an applied field can provide important insight into the structure of this liquid and may bring us closer to understanding mechanisms generating mirror symmetry breaking in a fluid of achiral molecules. Here we investigate theoretically how an extern...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.1721786115

    authors: Pająk G,Longa L,Chrzanowska A

    更新日期:2018-10-30 00:00:00

  • The karrikin signaling regulator SMAX1 controls Lotus japonicus root and root hair development by suppressing ethylene biosynthesis.

    abstract::An evolutionarily ancient plant hormone receptor complex comprising the α/β-fold hydrolase receptor KARRIKIN INSENSITIVE 2 (KAI2) and the F-box protein MORE AXILLARY GROWTH 2 (MAX2) mediates a range of developmental responses to smoke-derived butenolides called karrikins (KARs) and to yet elusive endogenous KAI2 ligan...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.2006111117

    authors: Carbonnel S,Das D,Varshney K,Kolodziej MC,Villaécija-Aguilar JA,Gutjahr C

    更新日期:2020-09-01 00:00:00

  • The superoxide dismutase molecular clock revisited.

    abstract::The Cu,Zn superoxide dismutase (SOD) was examined earlier and found to behave in a very unclock-like manner despite (accepted point mutation, or PAM) corrections for multiple replacements per site. Depending upon the time span involved, rates could differ 5-fold. We have sought to determine whether the data might be c...

    journal_title:Proceedings of the National Academy of Sciences of the United States of America

    pub_type: 杂志文章

    doi:10.1073/pnas.91.15.6802

    authors: Fitch WM,Ayala FJ

    更新日期:1994-07-19 00:00:00