Oligomeric initiator protein-mediated DNA looping negatively regulates plasmid replication in vitro by preventing origin melting.

Abstract:

:Although DNA looping between the initiator binding sites (iterons) of the replication origin (ori) of a plasmid and the iterons located in a cis-acting control sequence called inc has been postulated to promote negative control of plasmid DNA replication, not only was definitive evidence for such looping lacking, but also the detailed molecular mechanism of this control had not been elucidated. Here, we present direct evidence showing that both the monomeric and the dimeric forms of the RepE initiator protein of F factor together promote pairing of incC-oriF sites by DNA looping. By using a reconstituted replication system consisting of 26 purified proteins, we show further that the DNA loop formation negatively regulates plasmid replication by inhibiting the formation of an open complex at the replication origin, thus elucidating a key step of replication control.

journal_name

Mol Cell

journal_title

Molecular cell

authors

Zzaman S,Bastia D

doi

10.1016/j.molcel.2005.10.037

subject

Has Abstract

pub_date

2005-12-22 00:00:00

pages

833-43

issue

6

eissn

1097-2765

issn

1097-4164

pii

S1097-2765(05)01732-6

journal_volume

20

pub_type

杂志文章
  • Magic Acts with the Cohesin Ring.

    abstract::Recent studies, including two in this issue of Molecular Cell (Elbatsh et al., 2016; Beckouët et al., 2016), cast light on how cohesin regulators harness the energy of ATP hydrolysis to open the cohesin ring and enable dynamic, regulated entrapment of chromosomes. ...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2016.02.003

    authors: Yu H

    更新日期:2016-02-18 00:00:00

  • Transcriptional regulation by p53 through intrinsic DNA/chromatin binding and site-directed cofactor recruitment.

    abstract::The tumor suppressor protein, p53, plays a critical role in mediating cellular response to stress signals by regulating genes involved in cell cycle arrest and apoptosis. p53 is believed to be inactive for DNA binding unless its C terminus is modified or structurally altered. We show that unmodified p53 actively binds...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(01)00283-0

    authors: Espinosa JM,Emerson BM

    更新日期:2001-07-01 00:00:00

  • K11-linked polyubiquitination in cell cycle control revealed by a K11 linkage-specific antibody.

    abstract::Polyubiquitination is a posttranslational modification where ubiquitin chains containing isopeptide bonds linking one of seven ubiquitin lysines with the C terminus of an adjoining ubiquitin are covalently attached to proteins. While functions of K48- and K63-linked polyubiquitin are understood, the role(s) of noncano...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2010.07.001

    authors: Matsumoto ML,Wickliffe KE,Dong KC,Yu C,Bosanac I,Bustos D,Phu L,Kirkpatrick DS,Hymowitz SG,Rape M,Kelley RF,Dixit VM

    更新日期:2010-08-13 00:00:00

  • Ctp1 is a cell-cycle-regulated protein that functions with Mre11 complex to control double-strand break repair by homologous recombination.

    abstract::The Mre11-Rad50-Nbs1 (MRN) complex is a primary sensor of DNA double-strand breaks (DSBs). Upon recruitment to DSBs, it plays a critical role in catalyzing 5' --> 3' single-strand resection that is required for repair by homologous recombination (HR). Unknown mechanisms repress HR in G1 phase of the cell cycle during ...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2007.09.009

    authors: Limbo O,Chahwan C,Yamada Y,de Bruin RA,Wittenberg C,Russell P

    更新日期:2007-10-12 00:00:00

  • The special delivery of a tail-anchored protein: why it pays to use a dedicated courier.

    abstract::The membrane-spanning C-terminal regions in tail-anchored proteins must be recognized and delivered posttranslationally to the endoplasmic reticulum or mitochondrial membrane. A paper in this issue of Molecular Cell (Wang et al., 2010) and another recent report (Mariappan et al., 2010) delineate early steps in this pa...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2010.09.016

    authors: Brodsky JL

    更新日期:2010-10-08 00:00:00

  • A core complex of CPSF73, CPSF100, and Symplekin may form two different cleavage factors for processing of poly(A) and histone mRNAs.

    abstract::Metazoan histone mRNAs are unique: their pre-mRNAs contain no introns, and the mRNAs are not polyadenylated, ending instead in a conserved stem-loop structure. In Drosophila, canonical poly(A) signals are located downstream of the normal cleavage site of each histone gene and are utilized when histone 3' end formation...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2009.04.024

    authors: Sullivan KD,Steiniger M,Marzluff WF

    更新日期:2009-05-15 00:00:00

  • Spoon-Feeding Ribosomes to Autophagy.

    abstract::The ribosome, a ribonucleoprotein machine for protein synthesis, can also serve as an abundant nutrient source under starvation conditions. In a recent issue of Science, Wyant et al. (2018) discovered a specialized "spoon" to "scoop up" more ribosomes for degradation by autophagy. ...

    journal_title:Molecular cell

    pub_type: 评论,杂志文章

    doi:10.1016/j.molcel.2018.07.003

    authors: Nakatogawa H

    更新日期:2018-07-19 00:00:00

  • Crystal structure of the vesicular transport protein Sec17: implications for SNAP function in SNARE complex disassembly.

    abstract::SNAP proteins play an essential role in membrane trafficking in eukaryotic cells. They activate and recycle SNARE proteins by serving as adaptors between SNAREs and the cytosolic chaperone NSF. We have determined the crystal structure of Sec17, the yeast homolog of alpha-SNAP, to 2.9 A resolution. Sec17 is composed of...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(00)80190-2

    authors: Rice LM,Brunger AT

    更新日期:1999-07-01 00:00:00

  • A DDX6-CNOT1 complex and W-binding pockets in CNOT9 reveal direct links between miRNA target recognition and silencing.

    abstract::CCR4-NOT is a major effector complex in miRNA-mediated gene silencing. It is recruited to miRNA targets through interactions with tryptophan (W)-containing motifs in TNRC6/GW182 proteins and is required for both translational repression and degradation of miRNA targets. Here, we elucidate the structural basis for the ...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2014.03.034

    authors: Chen Y,Boland A,Kuzuoğlu-Öztürk D,Bawankar P,Loh B,Chang CT,Weichenrieder O,Izaurralde E

    更新日期:2014-06-05 00:00:00

  • Emerging Principles of Gene Expression Programs and Their Regulation.

    abstract::Many mechanisms contribute to regulation of gene expression to ensure coordinated cellular behaviors and fate decisions. Transcriptional responses to external signals can consist of many hundreds of genes that can be parsed into different categories based on kinetics of induction, cell-type and signal specificity, and...

    journal_title:Molecular cell

    pub_type: 杂志文章,评审

    doi:10.1016/j.molcel.2018.07.017

    authors: Pope SD,Medzhitov R

    更新日期:2018-08-02 00:00:00

  • ChIC and ChEC; genomic mapping of chromatin proteins.

    abstract::To map the genomic interaction sites of chromatin proteins, two related methods were developed and experimentally explored in Saccharomyces cerevisiae. The ChIC method (chromatin immunocleavage) consists of tethering a fusion protein (pA-MN) consisting of micrococcal nuclease (MN) and staphylococcal protein A to speci...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2004.09.007

    authors: Schmid M,Durussel T,Laemmli UK

    更新日期:2004-10-08 00:00:00

  • SLC19A1 Is an Importer of the Immunotransmitter cGAMP.

    abstract::2'3'-cyclic-GMP-AMP (cGAMP) is a second messenger that activates the antiviral stimulator of interferon genes (STING) pathway. We recently identified a novel role for cGAMP as a soluble, extracellular immunotransmitter that is produced and secreted by cancer cells. Secreted cGAMP is then sensed by host cells, elicitin...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2019.05.006

    authors: Ritchie C,Cordova AF,Hess GT,Bassik MC,Li L

    更新日期:2019-07-25 00:00:00

  • Distinct signals generate repeating striped pattern in the embryonic parasegment.

    abstract::How repeating striped patterns arise across cellular fields is unclear. To address this we examined the repeating pattern of Stripe (Sr) expression across the parasegment (PS) in Drosophila. This pattern is generated in two steps. First, the ligands Hedgehog (Hh) and Wingless (Wg) subdivide the PS into smaller territo...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(01)00163-0

    authors: Hatini V,DiNardo S

    更新日期:2001-01-01 00:00:00

  • The Chaperone Activity of the Developmental Small Heat Shock Protein Sip1 Is Regulated by pH-Dependent Conformational Changes.

    abstract::Small heat shock proteins (sHsps) are ubiquitous molecular chaperones that prevent the aggregation of unfolding proteins during proteotoxic stress. In Caenorhabditis elegans, Sip1 is the only sHsp exclusively expressed in oocytes and embryos. Here, we demonstrate that Sip1 is essential for heat shock survival of repro...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2015.04.019

    authors: Fleckenstein T,Kastenmüller A,Stein ML,Peters C,Daake M,Krause M,Weinfurtner D,Haslbeck M,Weinkauf S,Groll M,Buchner J

    更新日期:2015-06-18 00:00:00

  • Control of vertebrate limb outgrowth by the proximal factor Meis2 and distal antagonism of BMPs by Gremlin.

    abstract::The mechanisms controlling growth and patterning along the proximal-distal axis of the vertebrate limb are yet to be understood. We show that restriction of expression of the homeobox gene Meis2 to proximal regions of the limb bud is essential for limb development, since ectopic Meis2 severely disrupts limb outgrowth....

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(00)80393-7

    authors: Capdevila J,Tsukui T,Rodríquez Esteban C,Zappavigna V,Izpisúa Belmonte JC

    更新日期:1999-11-01 00:00:00

  • The Rb-related p130 protein controls telomere lengthening through an interaction with a Rad50-interacting protein, RINT-1.

    abstract::The oncogenic process often leads to a loss of normal telomere length control, usually as a result of activation of telomerase. Nevertheless, there are also telomerase-independent events that involve a Rad50-dependent recombination mechanism to maintain telomere length. Previous work has implicated the Rb family of pr...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2006.02.016

    authors: Kong LJ,Meloni AR,Nevins JR

    更新日期:2006-04-07 00:00:00

  • DNA Breaks and End Resection Measured Genome-wide by End Sequencing.

    abstract::DNA double-strand breaks (DSBs) arise during physiological transcription, DNA replication, and antigen receptor diversification. Mistargeting or misprocessing of DSBs can result in pathological structural variation and mutation. Here we describe a sensitive method (END-seq) to monitor DNA end resection and DSBs genome...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2016.06.034

    authors: Canela A,Sridharan S,Sciascia N,Tubbs A,Meltzer P,Sleckman BP,Nussenzweig A

    更新日期:2016-09-01 00:00:00

  • Oncogenic Ras and Akt signaling contribute to glioblastoma formation by differential recruitment of existing mRNAs to polysomes.

    abstract::In order to determine the global effects of oncogenic Ras and Akt signaling pathways on translational efficiencies, we compared the gene expression profiles of total cellular mRNA and mRNA associated with polysomes. We found that the immediate effect of Ras and Akt signaling blockade on transcription was relatively mo...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(03)00395-2

    authors: Rajasekhar VK,Viale A,Socci ND,Wiedmann M,Hu X,Holland EC

    更新日期:2003-10-01 00:00:00

  • RNA polymerase II/TFIIF structure and conserved organization of the initiation complex.

    abstract::The structure of an RNA polymerase II/general transcription factor TFIIF complex was determined by cryo-electron microscopy and single particle analysis. Density due to TFIIF was not concentrated in one area but rather was widely distributed across the surface of the polymerase. The largest subunit of TFIIF interacted...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(03)00387-3

    authors: Chung WH,Craighead JL,Chang WH,Ezeokonkwo C,Bareket-Samish A,Kornberg RD,Asturias FJ

    更新日期:2003-10-01 00:00:00

  • RNA editing enzyme APOBEC1 and some of its homologs can act as DNA mutators.

    abstract::APOBEC1 is the catalytic component of an RNA editing complex but shows homology to activation-induced cytidine deaminase (AID), a protein whose function is to potentiate diversification of immunoglobulin gene DNA. Here, we show that APOBEC1 and its homologs APOBEC3C and APOBEC3G exhibit potent DNA mutator activity in ...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(02)00742-6

    authors: Harris RS,Petersen-Mahrt SK,Neuberger MS

    更新日期:2002-11-01 00:00:00

  • The tangled circuitry of metabolism and apoptosis.

    abstract::For single-cell organisms, nutrient uptake and metabolism are central to the fundamental decision of whether to grow or divide. In metazoans, cell fate decisions are more complex: organismal homeostasis must be strictly maintained by balancing cell proliferation and death. Despite this increased complexity, cell fate ...

    journal_title:Molecular cell

    pub_type: 杂志文章,评审

    doi:10.1016/j.molcel.2012.12.026

    authors: Andersen JL,Kornbluth S

    更新日期:2013-02-07 00:00:00

  • Conserved GU-rich elements mediate mRNA decay by binding to CUG-binding protein 1.

    abstract::We used computational algorithms to find conserved sequences in the 3' untranslated region (UTR) of transcripts that exhibited rapid decay in primary human T cells and found that the consensus sequence UGUUUGUUUGU, which we have termed a GU-rich element (GRE), was enriched in short-lived transcripts. Using a tet-off r...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2007.11.024

    authors: Vlasova IA,Tahoe NM,Fan D,Larsson O,Rattenbacher B,Sternjohn JR,Vasdewani J,Karypis G,Reilly CS,Bitterman PB,Bohjanen PR

    更新日期:2008-02-01 00:00:00

  • Aurora A on the mitotic spindle is activated by the way it holds its partner.

    abstract::An exciting study in this issue reveals how binding of the microtubule associated protein TPX2 to the mitotic kinase Aurora A induces a conformational change. This moves the phosphorylated activation domain into a more compact position within the kinase core, providing a better substrate binding platform and hiding th...

    journal_title:Molecular cell

    pub_type: 评论,杂志文章,评审

    doi:10.1016/s1097-2765(03)00405-2

    authors: Glover DM

    更新日期:2003-10-01 00:00:00

  • High-Resolution Whole-Genome Analysis of Sister-Chromatid Contacts.

    abstract::Sister-chromatid cohesion describes the orderly association of newly replicated DNA molecules behind replication forks. It plays an essential role in the maintenance and faithful transmission of genetic information. Cohesion is created by DNA topological links and proteinaceous bridges, whose formation and deposition ...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2020.06.033

    authors: Espinosa E,Paly E,Barre FX

    更新日期:2020-09-03 00:00:00

  • Too much of a good thing: the Prl-3 in p53's oyster.

    abstract::In this issue of Molecular Cell, Basak et al. (2008) identify Prl-3 as a p53-inducible gene acting in DNA damage-induced cell-cycle arrest. Both deletion and overexpression of Prl-3 can be cytostatic, adding to a growing list of genes whose expression must be carefully titrated for proper cell proliferation. ...

    journal_title:Molecular cell

    pub_type: 评论,杂志文章

    doi:10.1016/j.molcel.2008.04.006

    authors: Hinds PW

    更新日期:2008-05-09 00:00:00

  • A Dicer-Independent Route for Biogenesis of siRNAs that Direct DNA Methylation in Arabidopsis.

    abstract::DNA methylation directed by 24-nucleotide (nt) small interfering RNAs (siRNAs) plays critical roles in gene regulation and transposon silencing in Arabidopsis. 24-nt siRNAs are known to be processed from double-stranded RNAs by Dicer-like 3 (DCL3) and loaded into the effector Argonaute 4 (AGO4). Here we report a disti...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2015.11.015

    authors: Ye R,Chen Z,Lian B,Rowley MJ,Xia N,Chai J,Li Y,He XJ,Wierzbicki AT,Qi Y

    更新日期:2016-01-21 00:00:00

  • The survivin-like C. elegans BIR-1 protein acts with the Aurora-like kinase AIR-2 to affect chromosomes and the spindle midzone.

    abstract::Baculoviral IAP repeat proteins (BIRPs) may affect cell death, cell division, and tumorigenesis. The C. elegans BIRP BIR-1 was localized to chromosomes and to the spindle midzone. Embryos and fertilized oocytes lacking BIR-1 had defects in chromosome behavior, spindle midzone formation, and cytokinesis. We observed in...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(00)00023-x

    authors: Speliotes EK,Uren A,Vaux D,Horvitz HR

    更新日期:2000-08-01 00:00:00

  • The yeast G protein alpha subunit Gpa1 transmits a signal through an RNA binding effector protein Scp160.

    abstract::In yeast Saccharomyces cerevisiae the G protein betagamma subunits (Ste4/Ste18) have long been known to transmit the signal required for mating. Here we demonstrate that GTPase-deficient mutants of Galpha (Gpa1) directly activate the mating response pathway. We also show that signaling by activated Gpa1 requires direc...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/s1097-2765(03)00307-1

    authors: Guo M,Aston C,Burchett SA,Dyke C,Fields S,Rajarao SJ,Uetz P,Wang Y,Young K,Dohlman HG

    更新日期:2003-08-01 00:00:00

  • Binding of chromatin-modifying activities to phosphorylated histone H2A at DNA damage sites.

    abstract::Yeast histone H2A is phosphorylated on Ser129 upon DNA damage, an event required for efficient repair. We show that phosphorylation occurs rapidly over a large region around DNA double-strand breaks (DSBs). Histone H4 acetylation is also important for DSB repair, and we found that the NuA4 HAT complex associates speci...

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2004.12.003

    authors: Downs JA,Allard S,Jobin-Robitaille O,Javaheri A,Auger A,Bouchard N,Kron SJ,Jackson SP,Côté J

    更新日期:2004-12-22 00:00:00

  • Phosphorylation of BRAF by AMPK impairs BRAF-KSR1 association and cell proliferation.

    abstract::BRAF is an oncogenic protein kinase that drives cell growth and proliferation through the MEK-ERK signaling pathway. BRAF inhibitors have demonstrated antitumor efficacy in melanoma therapy but have also been found to be associated with the development of cutaneous squamous cell carcinomas (cSCCs) in certain patients....

    journal_title:Molecular cell

    pub_type: 杂志文章

    doi:10.1016/j.molcel.2013.08.044

    authors: Shen CH,Yuan P,Perez-Lorenzo R,Zhang Y,Lee SX,Ou Y,Asara JM,Cantley LC,Zheng B

    更新日期:2013-10-24 00:00:00