Sequence anomalies in the Cag7 gene of the Helicobacter pylori pathogenicity island.

Abstract:

:The severity of Helicobacter pylori-related disease is correlated with a pathogenicity island (the Cag region of about 26 genes) whose presence is associated with the up-regulation of an IL-8 cytokine inflammatory response in gastric epithelial cells. Statistical analysis of the Cag gene sequences calculated from the complete genome of strain 26695 revealed several unusual features. The Cag7 sequence (1,927 aa) has two repeat regions. Repeat region I runs 317 aa in a form of AAA proximal to the protein N terminal; repeat region II extends 907 aa in the middle of the protein sequence consisting of 74 contiguous segments composed from selections among six consensus sequences and includes 58 regularly distributed cysteine residues with consecutive cysteines mostly 12, 18, or 24 aa apart. This "regular" cysteine arrangement may provide a scaffolding of linker elements stabilized by disulfide bridges. When Cag7 homologues from different strains are compared, differences were found almost exclusively in the repeat regions, resulting from deletion and/or insertion of repeating units. These observations suggest that the anomalous repetitive structure of the sequence plays an important role in the conformation of Cag7 gene product and potentially in the function of the pathogenicity island. Other facets of the Cag7 sequence show significant charge clusters, high multiplet count, and extremes of amino acid usage.

authors

Liu G,McDaniel TK,Falkow S,Karlin S

doi

10.1073/pnas.96.12.7011

keywords:

subject

Has Abstract

pub_date

1999-06-08 00:00:00

pages

7011-6

issue

12

eissn

0027-8424

issn

1091-6490

journal_volume

96

pub_type

杂志文章
  • Intramolecular energy transfer and molecular conformation.

    abstract::A discussion of the range of applicability of Forster long-range energy transfer in the determination of macromolecular dimensions and conformational dynamics is given. Emphasis is laid on the effect of restrictions in the orientational freedom of donor and acceptor and on the importance of the orientational averaging...

    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.73.2.271

    authors: Dale RE,Eisinger J

    更新日期:1976-02-01 00:00:00

  • Location and nucleotide sequence of the gene for the proton-translocating subunit of wheat chloroplast ATP synthase.

    abstract::The proton-translocating subunit of wheat chloroplast ATP synthase is encoded by a chloroplast gene that has been accurately mapped and whose nucleotide sequence has been determined. The predicted sequence of 81 amino acids has been confirmed in part by determination of the sequence of the first 40 amino acids from 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.79.22.6903

    authors: Howe CJ,Auffret AD,Doherty A,Bowman CM,Dyer TA,Gray JC

    更新日期:1982-11-01 00:00:00

  • Object grouping based on real-world regularities facilitates perception by reducing competitive interactions in visual cortex.

    abstract::In virtually every real-life situation humans are confronted with complex and cluttered visual environments that contain a multitude of objects. Because of the limited capacity of the visual system, objects compete for neural representation and cognitive processing resources. Previous work has shown that such attentio...

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

    pub_type: 杂志文章,随机对照试验

    doi:10.1073/pnas.1400559111

    authors: Kaiser D,Stein T,Peelen MV

    更新日期:2014-07-29 00:00:00

  • Structural correlates of high antibody affinity: three engineered amino acid substitutions can increase the affinity of an anti-p-azophenylarsonate antibody 200-fold.

    abstract::The basis for the 200-fold difference in affinity between two hybridoma antibodies specific for the hapten p-azophenylarsonate (Ars) that have diversified by somatic hypermutation was examined. Oligonucleotide-directed mutagenesis was used to sequentially convert the nucleotide sequence of the lower-affinity antibody ...

    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.87.12.4814

    authors: Sharon J

    更新日期:1990-06-01 00:00:00

  • Repeated challenge with prion disease: the risk of infection and impact on incubation period.

    abstract::Natural exposure to prion disease is likely to occur throughout successive challenges, yet most experiments focus on single large doses of infectious material. We analyze the results from an experiment in which rodents were exposed to multiple doses of feed contaminated with the scrapie agent. We formally define hypot...

    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.1833677100

    authors: Gravenor MB,Stallard N,Curnow R,McLean AR

    更新日期:2003-09-16 00:00:00

  • Constitutive activity of the tumor necrosis factor promoter is canceled by the 3' untranslated region in nonmacrophage cell lines; a trans-dominant factor overcomes this suppressive effect.

    abstract::The role of the mouse tumor necrosis factor (TNF) promoter, 5' untranslated region (UTR), and 3' UTR in TNF gene expression has been examined in three nonmacrophage cell lines (HeLa, NIH 3T3, and L-929). The TNF promoter is not macrophage-specific. On the contrary, it constitutively drives reporter gene expression in ...

    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.89.2.673

    authors: Kruys V,Kemmer K,Shakhov A,Jongeneel V,Beutler B

    更新日期:1992-01-15 00:00:00

  • Evidence from central Mexico supporting the Younger Dryas extraterrestrial impact hypothesis.

    abstract::We report the discovery in Lake Cuitzeo in central Mexico of a black, carbon-rich, lacustrine layer, containing nanodiamonds, microspherules, and other unusual materials that date to the early Younger Dryas and are interpreted to result from an extraterrestrial impact. These proxies were found in a 27-m-long core as p...

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

    pub_type: 历史文章,杂志文章

    doi:10.1073/pnas.1110614109

    authors: Israde-Alcántara I,Bischoff JL,Domínguez-Vázquez G,Li HC,DeCarli PS,Bunch TE,Wittke JH,Weaver JC,Firestone RB,West A,Kennett JP,Mercer C,Xie S,Richman EK,Kinzie CR,Wolbach WS

    更新日期:2012-03-27 00:00:00

  • An evolutionary constraint: strongly disfavored class of change in DNA sequence during divergence of cis-regulatory modules.

    abstract::The DNA of functional cis-regulatory modules displays extensive sequence conservation in comparisons of genomes from modestly distant species. Patches of sequence that are several hundred base pairs in length within these modules are often seen to be 80-95% identical, although the flanking sequence cannot even be alig...

    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.0505291102

    authors: Cameron RA,Chow SH,Berney K,Chiu TY,Yuan QA,Krämer A,Helguero A,Ransick A,Yun M,Davidson EH

    更新日期:2005-08-16 00:00:00

  • Autonomous translational pausing is required for XBP1u mRNA recruitment to the ER via the SRP pathway.

    abstract::Unconventional mRNA splicing on the endoplasmic reticulum (ER) membrane is the sole conserved mechanism in eukaryotes to transmit information regarding misfolded protein accumulation to the nucleus to activate the stress response. In metazoans, the unspliced form of X-box-binding protein 1 (XBP1u) mRNA is recruited to...

    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.1604435113

    authors: Kanda S,Yanagitani K,Yokota Y,Esaki Y,Kohno K

    更新日期:2016-10-04 00:00:00

  • Engineered antibody fragments for immuno-PET imaging of endogenous CD8+ T cells in vivo.

    abstract::The noninvasive detection and quantification of CD8(+) T cells in vivo are important for both the detection and staging of CD8(+) lymphomas and for the monitoring of successful cancer immunotherapies, such as adoptive cell transfer and antibody-based immunotherapeutics. Here, antibody fragments are constructed to targ...

    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.1316922111

    authors: Tavaré R,McCracken MN,Zettlitz KA,Knowles SM,Salazar FB,Olafsen T,Witte ON,Wu AM

    更新日期:2014-01-21 00:00:00

  • System-wide organization of actin cytoskeleton determines organelle transport in hypocotyl plant cells.

    abstract::The actin cytoskeleton is an essential intracellular filamentous structure that underpins cellular transport and cytoplasmic streaming in plant cells. However, the system-level properties of actin-based cellular trafficking remain tenuous, largely due to the inability to quantify key features of the actin cytoskeleton...

    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.1706711114

    authors: Breuer D,Nowak J,Ivakov A,Somssich M,Persson S,Nikoloski Z

    更新日期:2017-07-11 00:00:00

  • High-pressure NMR reveals close similarity between cold and alcohol protein denaturation in ubiquitin.

    abstract::Proteins denature not only at high, but also at low temperature as well as high pressure. These denatured states are not easily accessible for experiment, because usually heat denaturation causes aggregation, whereas cold or pressure denaturation occurs at temperatures well below the freezing point of water or pressur...

    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.1212222110

    authors: Vajpai N,Nisius L,Wiktor M,Grzesiek S

    更新日期:2013-01-29 00:00:00

  • Ultrahigh-throughput screening in drop-based microfluidics for directed evolution.

    abstract::The explosive growth in our knowledge of genomes, proteomes, and metabolomes is driving ever-increasing fundamental understanding of the biochemistry of life, enabling qualitatively new studies of complex biological systems and their evolution. This knowledge also drives modern biotechnologies, such as molecular engin...

    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.0910781107

    authors: Agresti JJ,Antipov E,Abate AR,Ahn K,Rowat AC,Baret JC,Marquez M,Klibanov AM,Griffiths AD,Weitz DA

    更新日期:2010-03-02 00:00:00

  • Benefits, costs, and livelihood implications of a regional payment for ecosystem service program.

    abstract::Despite broad interest in using payment for ecosystem services to promote changes in the use of natural capital, there are few expost assessments of impacts of payment for ecosystem services programs on ecosystem service provision, program cost, and changes in livelihoods resulting from program participation. In this ...

    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.1312324110

    authors: Zheng H,Robinson BE,Liang YC,Polasky S,Ma DC,Wang FC,Ruckelshaus M,Ouyang ZY,Daily GC

    更新日期:2013-10-08 00:00:00

  • Pyrolysis of organomercury compounds: investigation by the method of matrix isolation.

    abstract::The method of matrix isolation has been used to investigate mechanisms of gas-phase chemical reactions, in particular the pyrolysis of some organomercury compounds. A molecular beam of pyrolysis products was condensed simultaneously with a large excess of rare gas at temperatures from 5 to 15 degrees K to form a matri...

    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.68.12.3238

    authors: Maltsev AK,Mikaelian RG,Nefedov OM,Hauge RH,Margrave JL

    更新日期:1971-12-01 00:00:00

  • Critical role for phosphoinositide 3-kinase gamma in parasite invasion and disease progression of cutaneous leishmaniasis.

    abstract::Obligate intracellular pathogens such as Leishmania specifically target host phagocytes for survival and replication. Phosphoinositide 3-kinase γ (PI3Kγ), a member of the class I PI3Ks that is highly expressed by leukocytes, controls cell migration by initiating actin polymerization and cytoskeletal reorganization, wh...

    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.1110339109

    authors: Cummings HE,Barbi J,Reville P,Oghumu S,Zorko N,Sarkar A,Keiser TL,Lu B,Rückle T,Varikuti S,Lezama-Davila C,Wewers MD,Whitacre C,Radzioch D,Rommel C,Seveau S,Satoskar AR

    更新日期:2012-01-24 00:00:00

  • Transcription initiation in the histidine operon of Salmonella typhimurium.

    abstract::Evidence is presented for two natural transcription initiators positioned internally in the histidine operon of Salmonella typhimurium. They were detected using highly polar S. typhimurium his mutants as recipients for F' Escherichia coli his episomes. These intergeneric complementation tests provide a sensitive metho...

    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.65.4.925

    authors: Atkins JF,Loper JC

    更新日期:1970-04-01 00:00:00

  • Rotavirus mRNAS are released by transcript-specific channels in the double-layered viral capsid.

    abstract::Rotaviruses are the single most common cause of fatal and severe childhood diarrheal illness worldwide (>125 million cases annually). Rotavirus shares structural and functional features with many viruses, such as the presence of segmented double-stranded RNA genomes selectively and tightly packed with a conserved numb...

    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.1220345110

    authors: Periz J,Celma C,Jing B,Pinkney JN,Roy P,Kapanidis AN

    更新日期:2013-07-16 00:00:00

  • Visual responses of neurons in somatosensory cortex of hamsters with experimentally induced retinal projections to somatosensory thalamus.

    abstract::These experiments investigate the capacity of thalamic and cortical structures in a sensory system to process information of a modality normally associated with another system. Retinal ganglion cells in newborn Syrian hamsters were made to project permanently to the main thalamic somatosensory (ventrobasal) nucleus. W...

    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.86.1.357

    authors: Métin C,Frost DO

    更新日期:1989-01-01 00:00:00

  • Vasopressin mRNA localization in nerve cells: characterization of cis-acting elements and trans-acting factors.

    abstract::mRNA localization is a complex pathway. Besides mRNA sorting per se, this process includes aspects of regulated translation. It requires protein factors that interact with defined sequences (or sequence motifs) of the transcript, and the protein/RNA complexes are finally guided along the cytoskeleton to their ultimate...

    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.111146598

    authors: Mohr E,Prakash N,Vieluf K,Fuhrmann C,Buck F,Richter D

    更新日期:2001-06-19 00:00:00

  • Photosensitivity of a protoporphyrin-accumulating, light-sensitive mutant (visA) of Escherichia coli K-12.

    abstract::Mutations in the visA gene of Escherichia coli cause the mutant bacteria to die upon illumination with visible light. We confirmed genetically that the visA gene is a structural gene for ferrochelatase (protoheme ferro-lyase, EC 4.99.1.1). Since other mutations in the genes involved in the biosynthesis of heme can cur...

    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.88.23.10520

    authors: Nakahigashi K,Nishimura K,Miyamoto K,Inokuchi H

    更新日期:1991-12-01 00:00:00

  • Mapping of multiple susceptibility variants within the MHC region for 7 immune-mediated diseases.

    abstract::The human MHC represents the strongest susceptibility locus for autoimmune diseases. However, the identification of the true predisposing gene(s) has been handicapped by the strong linkage disequilibrium across the region. Furthermore, most studies to date have been limited to the examination of a subset of the HLA an...

    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.0909307106

    authors: International MHC and Autoimmunity Genetics Network.,Rioux JD,Goyette P,Vyse TJ,Hammarström L,Fernando MM,Green T,De Jager PL,Foisy S,Wang J,de Bakker PI,Leslie S,McVean G,Padyukov L,Alfredsson L,Annese V,Hafler DA,Pan-

    更新日期:2009-11-03 00:00:00

  • Resistance to juvenile hormone and an insect growth regulator in Drosophila is associated with an altered cytosolic juvenile hormone-binding protein.

    abstract::The Met mutant of Drosophila melanogaster is highly resistant to juvenile hormone III (JH III) or its chemical analog, methoprene, an insect growth regulator. Five major mechanisms of insecticide resistance were examined in Met and susceptible Met+ flies. These two strains showed only minor differences when penetratio...

    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.87.6.2072

    authors: Shemshedini L,Wilson TG

    更新日期:1990-03-01 00:00:00

  • Considerations of the concept of structural homology as applied to bovine carboxypeptidases A and B.

    abstract::An argument is presented in favor of the hypothesis that, bovine carboxypeptidases A and B fit by and large, the concept of homology on the levels of both amino acid sequence and three-dimensional structure. Two peptide sequences from carboxypeptidases A and B, comprising 46 amino acid residues, display structural hom...

    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.63.2.406

    authors: Bradshaw RA,Neurath H,Walsh KA

    更新日期:1969-06-01 00:00:00

  • Mitochondrial transcription factor A promotes DNA strand cleavage at abasic sites.

    abstract::In higher eukaryotic cells, mitochondria are essential subcellular organelles for energy production, cell signaling, and the biosynthesis of biomolecules. The mitochondrial DNA (mtDNA) genome is indispensable for mitochondrial function because it encodes protein subunits of the electron transport chain and a full set ...

    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.1911252116

    authors: Xu W,Boyd RM,Tree MO,Samkari F,Zhao L

    更新日期:2019-09-03 00:00:00

  • Multisectoral climate impact hotspots in a warming world.

    abstract::The impacts of global climate change on different aspects of humanity's diverse life-support systems are complex and often difficult to predict. To facilitate policy decisions on mitigation and adaptation strategies, it is necessary to understand, quantify, and synthesize these climate-change impacts, taking into acco...

    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.1222471110

    authors: Piontek F,Müller C,Pugh TA,Clark DB,Deryng D,Elliott J,Colón González Fde J,Flörke M,Folberth C,Franssen W,Frieler K,Friend AD,Gosling SN,Hemming D,Khabarov N,Kim H,Lomas MR,Masaki Y,Mengel M,Morse A,Neumann K,N

    更新日期:2014-03-04 00:00:00

  • Proenkephalin, [Met]enkephalin, and oxytocin immunoreactivities are colocalized in bovine hypothalamic magnocellular neurons.

    abstract::The distribution of proenkephalin and [Met]enkephalin immunoreactivities in the bovine hypothalamo-neurohypophyseal system was studied by use of specific antisera. Proenkephalin and [Met]enkephalin immunoreactivities were found in magnocellular neuronal cell bodies in the dorsal part of the supraoptic nuclei and in 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.80.16.5139

    authors: Vanderhaeghen JJ,Lotstra F,Liston DR,Rossier J

    更新日期:1983-08-01 00:00:00

  • Precursors of three exported proteins in Escherichia coli.

    abstract::Arabinose-binding protein, maltose-binding protein, and lambda receptor are synthesized in vitro on membrane-bound polysomes from Escherichia coli. All three proteins are exported from the cytoplasm of E. coli and all three are made in vitro in a form a few thousand daltons larger than the authentic protein. The large...

    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.75.3.1209

    authors: Randall LL,Hardy SJ,Josefsson LG

    更新日期:1978-03-01 00:00:00

  • A fatty acid desaturase modulates the activation of defense signaling pathways in plants.

    abstract::Salicylic acid (SA) plays an important role in activating various plant defense responses, including expression of the pathogenesis-related (PR) genes and systemic acquired resistance. A critical positive regulator of the SA signaling pathway in Arabidopsis is encoded by the NPR1 gene. However, there is growing eviden...

    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.151258398

    authors: Kachroo P,Shanklin J,Shah J,Whittle EJ,Klessig DF

    更新日期:2001-07-31 00:00:00

  • F1-ATPase conformational cycle from simultaneous single-molecule FRET and rotation measurements.

    abstract::Despite extensive studies, the structural basis for the mechanochemical coupling in the rotary molecular motor F1-ATPase (F1) is still incomplete. We performed single-molecule FRET measurements to monitor conformational changes in the stator ring-α3β3, while simultaneously monitoring rotations of the central shaft-γ. ...

    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.1524720113

    authors: Sugawa M,Okazaki K,Kobayashi M,Matsui T,Hummer G,Masaike T,Nishizaka T

    更新日期:2016-05-24 00:00:00