Intermediates in serine recombinase-mediated site-specific recombination.

Abstract:

:Site-specific recombinases are enzymes that promote precise rearrangements of DNA sequences. They do this by cutting and rejoining the DNA strands at specific positions within a pair of target sites recognized and bound by the recombinase. One group of these enzymes, the serine recombinases, initiates strand exchange by making double-strand breaks in the DNA of the two sites, in an intermediate built around a catalytic tetramer of recombinase subunits. However, these catalytic steps are only the culmination of a complex pathway that begins when recombinase subunits recognize and bind to their target sites as dimers. To form the tetramer-containing reaction intermediate, two dimer-bound sites are brought together by protein dimer-dimer interactions. During or after this initial synapsis step, the recombinase subunit and tetramer conformations change dramatically by repositioning of component subdomains, bringing about a transformation of the enzyme from an inactive to an active configuration. In natural serine recombinase systems, these steps are subject to elaborate regulatory mechanisms in order to ensure that cleavage and rejoining of DNA strands only happen when and where they should, but we and others have identified recombinase mutants that have lost dependence on this regulation, thus facilitating the study of the basic steps leading to catalysis. We describe how our studies on activated mutants of two serine recombinases, Tn3 resolvase and Sin, are providing us with insights into the structural changes that occur before catalysis of strand exchange, and how these steps in the reaction pathway are regulated.

journal_name

Biochem Soc Trans

authors

Marshall Stark W,Boocock MR,Olorunniji FJ,Rowland SJ

doi

10.1042/BST0390617

subject

Has Abstract

pub_date

2011-04-01 00:00:00

pages

617-22

issue

2

eissn

0300-5127

issn

1470-8752

pii

BST0390617

journal_volume

39

pub_type

杂志文章,评审
  • Nucleosome recognition and spacing by chromatin remodelling factor ISW1a.

    abstract::Nucleosomes are actively positioned along DNA by ATP-dependent, chromatin remodelling factors. A structural model for the ISW1a chromatin remodelling factor from Saccharomyces cerevisiae in complex with a dinucleosome substrate was constructed from the X-ray structures of ISW1a (ΔATPase) with and without DNA bound, tw...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20110748

    authors: Richmond TJ

    更新日期:2012-04-01 00:00:00

  • The furanosidic scaffold of d-ribose: a milestone for cell life.

    abstract::The recruitment of the furanosidic scaffold of ribose as the crucial step for nucleotides and then for nucleic acids synthesis is presented. Based on the view that the selection of molecules to be used for relevant metabolic purposes must favor structurally well-defined molecules, the inadequacy of ribose as a prefere...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20190749

    authors: Del-Corso A,Cappiello M,Moschini R,Balestri F,Mura U,Ipata PL

    更新日期:2019-12-20 00:00:00

  • Unravelling chlorophyll catabolism in higher plants.

    abstract::Chlorophyll metabolism is probably the most visible manifestation of life. In spite of this, chlorophyll catabolism has remained something of a mystery until about 10 years ago. At that time, the first non-green tetrapyrrolic chlorophyll breakdown products from higher plants were discovered, and the structure of the f...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0300625

    authors: Kräutler B

    更新日期:2002-08-01 00:00:00

  • Tetraspanin CD9 in cell migration.

    abstract::Tetraspanin CD9 is associated with integrin adhesion receptors and it was reported that CD9 regulates integrin-dependent cell migration and invasion. Pro- and anti-migratory effects of CD9 have been linked to adhesion-dependent signalling pathways, including phosphorylation of FAK (focal adhesion kinase) and activatio...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0390563

    authors: Powner D,Kopp PM,Monkley SJ,Critchley DR,Berditchevski F

    更新日期:2011-04-01 00:00:00

  • Dietary meat, endogenous nitrosation and colorectal cancer.

    abstract::Colorectal cancer is the third most common cancer in developed countries such as the U.K., but incidence rates around the world vary approx. 20-fold. Diet is thought to be a key factor determining risk: red and processed meat, but not white meat or fish, are associated with an increased risk of colorectal cancer. The ...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0351355

    authors: Kuhnle GG,Bingham SA

    更新日期:2007-11-01 00:00:00

  • Mammalian expression of transmembrane receptors for pharmaceutical applications.

    abstract::Three mammalian expression systems suitable for expressing recombinant receptors have been described. Each is suited to a different aspect of the study of receptors and their behaviour. IRES-based vectors are ideal for creating stable mammalian cell lines suitable for screening receptors using a signalling readout. Un...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0260699

    authors: Rhodes AD,Bevan N,Patel K,Lee M,Rees S

    更新日期:1998-11-01 00:00:00

  • The petite purple photosynthetic powerpack.

    abstract::Photoreaction centres are Nature's solar batteries. These nanometre-scale power producers are responsible for transducing the energy of sunlight into a form that can be used by biological systems, thereby powering most of the biological activity on the planet. Although to the layman the word 'photosynthesis' is usuall...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0370400

    authors: Jones MR

    更新日期:2009-04-01 00:00:00

  • Pushing with actin: from cells to pathogens.

    abstract::Actin polymerization is harnessed by cells to generate lamellipodia for movement and by a subclass of pathogens to facilitate invasion of their infected hosts. Using electron tomography (ET), we have shown that lamellipodia are formed via the generation of subsets of actin filaments joined by branch junctions. Image a...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20140184

    authors: Small JV

    更新日期:2015-02-01 00:00:00

  • Functional analysis of the tumour suppressor gene PTEN in murine B cells and keratinocytes.

    abstract::To investigate the roles of the PTEN (phosphatase and tensin homologue deleted from chromosome 10)/PI3K (phosphoinositide 3-kinase) signalling pathway in vivo, we have generated a series of mutant mice with null or tissue-specific gene-targeted deletions of Pten. Here we present our investigations of Pten function in ...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0320362

    authors: Suzuki A,Sasaki T,Mak TW,Nakano T

    更新日期:2004-04-01 00:00:00

  • Subnanometer-scale imaging of nanobio-interfaces by frequency modulation atomic force microscopy.

    abstract::Recently, there have been significant advancements in dynamic-mode atomic force microscopy (AFM) for biological applications. With frequency modulation AFM (FM-AFM), subnanometer-scale surface structures of biomolecules such as secondary structures of proteins, phosphate groups of DNAs, and lipid-ion complexes have be...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST20200155

    authors: Fukuma T

    更新日期:2020-08-28 00:00:00

  • Lysosomal membrane proteins: life between acid and neutral conditions.

    abstract::Whereas we have a profound understanding about the function and biogenesis of the protein constituents in the lumen of the lysosomal compartment, much less is known about the functions of proteins of the lysosomal membrane. Proteomic analyses of the lysosomal membrane suggest that, apart from the well-known lysosomal ...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0381420

    authors: Saftig P,Schröder B,Blanz J

    更新日期:2010-12-01 00:00:00

  • Protein kinase C in cellular transformation: a valid target for therapy?

    abstract::The protein kinase C (PKC) family of serine/threonine protein kinases share structural homology, while exhibiting substantial functional diversity. PKC isoforms are ubiquitously expressed in tissues which makes it difficult to define roles for individual isoforms, with complexity compounded by the finding that PKC iso...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20140255

    authors: Tarafdar A,Michie AM

    更新日期:2014-12-01 00:00:00

  • SLPI and trappin-2 as therapeutic agents to target airway serine proteases in inflammatory lung diseases: current and future directions.

    abstract::It is now clear that NSPs (neutrophil serine proteases), including elastase, Pr3 (proteinase 3) and CatG (cathepsin G) are major pathogenic determinants in chronic inflammatory disorders of the lungs. Two unglycosylated natural protease inhibitors, SLPI (secretory leucocyte protease inhibitor) and elafin, and its prec...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0391441

    authors: Zani ML,Tanga A,Saidi A,Serrano H,Dallet-Choisy S,Baranger K,Moreau T

    更新日期:2011-10-01 00:00:00

  • Apoptosis-like programmed cell death in the grey mould fungus Botrytis cinerea: genes and their role in pathogenicity.

    abstract::A considerable number of fungal homologues of human apoptotic genes have been identified in recent years. Nevertheless, we are far from being able to connect the different pieces and construct a primary structure of the fungal apoptotic regulatory network. To get a better picture of the available fungal components, we...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0391493

    authors: Shlezinger N,Doron A,Sharon A

    更新日期:2011-10-01 00:00:00

  • Modelling the peroxisomal carbon leak during lipid mobilization in Arabidopsis.

    abstract::Mutation of the ACN1 (acetate non-utilizing 1) locus of Arabidopsis results in altered acetate assimilation into gluconeogenic sugars and anapleurotic amino acids and leads to an overall depression in primary metabolite levels by approx. 50% during seedling development. Levels of acetyl-CoA were higher in acn1 compare...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0381230

    authors: Hooks MA,Allen E,Wattis JA

    更新日期:2010-10-01 00:00:00

  • The use of fluorescence correlation spectroscopy to characterize the molecular mobility of fluorescently labelled G protein-coupled receptors.

    abstract::The membranes of living cells have been shown to be highly organized into distinct microdomains, which has spatial and temporal consequences for the interaction of membrane bound receptors and their signalling partners as complexes. Fluorescence correlation spectroscopy (FCS) is a technique with single cell sensitivit...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20150285

    authors: Kilpatrick LE,Hill SJ

    更新日期:2016-04-15 00:00:00

  • DNA replication in the hyperthermophilic archaeon Sulfolobus solfataricus.

    abstract::Studies of the DNA-replication machinery of Archaea have revealed striking similarities to that of eukaryotes. Indeed, it appears that in most cases Archaea possess a simplified version of the eukaryotic replication apparatus. Studies of Archaea are therefore shedding light on the fundamental processes of DNA replicat...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/bst0310674

    authors: Dionne I,Robinson NP,McGeoch AT,Marsh VL,Reddish A,Bell SD

    更新日期:2003-06-01 00:00:00

  • Mitochondrial respiration at low levels of oxygen and cytochrome c.

    abstract::In the intracellular microenvironment of active muscle tissue, high rates of respiration are maintained at near-limiting oxygen concentrations. The respiration of isolated heart mitochondria is a hyperbolic function of oxygen concentration and half-maximal rates were obtained at 0.4 and 0.7 microM O(2) with substrates...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/

    authors: Gnaiger E,Kuznetsov AV

    更新日期:2002-04-01 00:00:00

  • An overview of the fission yeast septation initiation network (SIN).

    abstract::The fission yeast septation initiation network, or SIN, is a signal transduction network that is required for septum formation in Schizosaccharomyces pombe. Its activity is tightly regulated through the cell cycle, to ensure proper co-ordination of mitosis and cytokinesis. SIN signalling requires three protein kinases...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0360411

    authors: Krapp A,Simanis V

    更新日期:2008-06-01 00:00:00

  • Microtubule-associated proteins (MAPs) regulate cAMP signalling through exchange protein directly activated by cAMP (EPAC).

    abstract::cAMP is an essential signalling molecule whose concentration in cells is regulated by a wide range of hormones. A large number of diseases, including cancer and asthma, are linked to improper regulation of the cAMP signalling system, and manipulation of cAMP levels by pharmaceutical agents has proven therapeutic benef...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20051327

    authors: Yarwood SJ

    更新日期:2005-12-01 00:00:00

  • Inverted-repeat DNA: a new gene-silencing tool for seed lipid modification.

    abstract::Post-transcriptional gene silencing (PTGS) has been successfully used to modify seed lipids in oilseed crops like soybean, canola and sunflower. Conventionally, PTGS has been induced by transforming the plants with either antisense or co-suppression constructs targeted against key seed lipid biosynthesis genes. A majo...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:

    authors: Singh S,Green A,Stoutjesdijk P,Liu Q

    更新日期:2000-12-01 00:00:00

  • ERK5 and its role in tumour development.

    abstract::The MEK5 [MAPK (mitogen-activated protein kinase)/ERK (extracellular-signal-regulated kinase) kinase 5]/ERK5 pathway is the least well studied MAPK signalling module. It has been proposed to play a role in the pathology of cancer. In the present paper, we review the role of the MEK5/ERK5 pathway using the 'hallmarks o...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20110663

    authors: Lochhead PA,Gilley R,Cook SJ

    更新日期:2012-02-01 00:00:00

  • The activation of the CGRP receptor.

    abstract::The CGRP (calcitonin gene-related peptide) receptor is a family B GPCR (G-protein-coupled receptor). It consists of a GPCR, CLR (calcitonin receptor-like receptor) and an accessory protein, RAMP1 (receptor activity modifying protein 1). RAMP1 is needed for CGRP binding and also cell-surface expression of CLR. CLR is a...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20120251

    authors: Barwell J,Wheatley M,Conner AC,Taddese B,Vohra S,Reynolds CA,Poyner DR

    更新日期:2013-02-01 00:00:00

  • An unexpected tail of VEGF and PlGF in pre-eclampsia.

    abstract::PET (pre-eclamptic toxaemia), characterized by pregnancy-related hypertension and proteinuria, due to widespread endothelial dysfunction, is a primary cause of maternal morbidity. Altered circulating factors, particularly the VEGF (vascular endothelial growth factor) family of proteins and their receptors, are thought...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20110671

    authors: Bates DO

    更新日期:2011-12-01 00:00:00

  • Genomic instability and cancer: lessons from analysis of Bloom's syndrome.

    abstract::Bloom's syndrome (BS) is a rare autosomal recessive disorder characterized by genomic instability and cancer predisposition. The underlying genetic defect is mutation of the BLM gene, producing deficiency in the RecQ helicase BLM (Bloom's syndrome protein). The present article begins by introducing BLM and its binding...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0370553

    authors: Payne M,Hickson ID

    更新日期:2009-06-01 00:00:00

  • Immunostimulatory activity of Toll-like receptor 8 agonists towards human leucocytes: basic mechanisms and translational opportunities.

    abstract::TLR8 (Toll-like receptor 8) is activated by ssRNAs (single-stranded RNAs) and synthetic imidazoquinoline compounds that resemble purines and have immunostimulatory activity. TLR8 agonists are particularly effective at inducing Th1-polarizing responses from human monocytes and myeloid dendritic cells, with the magnitud...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0351485

    authors: Philbin VJ,Levy O

    更新日期:2007-12-01 00:00:00

  • Enzymes of yeast polyphosphate metabolism: structure, enzymology and biological roles.

    abstract::Inorganic polyphosphate (polyP) is found in all living organisms. The known polyP functions in eukaryotes range from osmoregulation and virulence in parasitic protozoa to modulating blood coagulation, inflammation, bone mineralization and cellular signalling in mammals. However mechanisms of regulation and even the id...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20150213

    authors: Gerasimaitė R,Mayer A

    更新日期:2016-02-01 00:00:00

  • Ion translocation by the Escherichia coli NADH:ubiquinone oxidoreductase (complex I).

    abstract::The energy-converting NADH:ubiquinone oxidoreductase, also known as respiratory complex I, couples the transfer of electrons from NADH to ubiquinone with the translocation of ions across the membrane. It was assumed that the complex exclusively works as a proton pump. Recently, it has been proposed that complex I from...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章

    doi:10.1042/BST0330836

    authors: Friedrich T,Stolpe S,Schneider D,Barquera B,Hellwig P

    更新日期:2005-08-01 00:00:00

  • Structure of artificial and natural VE-cadherin-based adherens junctions.

    abstract::In vascular endothelium, adherens junctions between endothelial cells are composed of VE-cadherin (vascular endothelial cadherin), an adhesive receptor that is crucial for the proper assembly of vascular structures and the maintenance of vascular integrity. As a classical cadherin, VE-cadherin links endothelial cells ...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST0360189

    authors: Taveau JC,Dubois M,Le Bihan O,Trépout S,Almagro S,Hewat E,Durmort C,Heyraud S,Gulino-Debrac D,Lambert O

    更新日期:2008-04-01 00:00:00

  • Regulation of chromosome dynamics by Hsk1/Cdc7 kinase.

    abstract::Hsk1 (homologue of Cdc7 kinase 1) of the fission yeast is a member of the conserved Cdc7 (cell division cycle 7) kinase family, and promotes initiation of chromosome replication by phosphorylating Mcm (minichromosome maintenance) subunits, essential components for the replicative helicase. Recent studies, however, ind...

    journal_title:Biochemical Society transactions

    pub_type: 杂志文章,评审

    doi:10.1042/BST20130217

    authors: Matsumoto S,Masai H

    更新日期:2013-12-01 00:00:00