A Two-Component System Acquired by Horizontal Gene Transfer Modulates Gene Transfer and Motility via Cyclic Dimeric GMP.

Abstract:

:Bis-(3'-5')-cyclic dimeric guanosine monophosphate (c-di-GMP) is an important intracellular signaling molecule that affects diverse physiological processes in bacteria. The intracellular levels of c-di-GMP are controlled by proteins acting as diguanylate cyclase (DGC) and phosphodiesterase (PDE) enzymes that synthesize and degrade c-di-GMP, respectively. In the alphaproteobacterium Rhodobacter capsulatus, flagellar motility and gene exchange via production of the gene transfer agent RcGTA are regulated by c-di-GMP. One of the R. capsulatus proteins involved in this regulation is Rcc00620, which contains an N-terminal two-component system response regulator receiver (REC) domain and C-terminal DGC and PDE domains. We demonstrate that the enzymatic activity of Rcc00620 is regulated through the phosphorylation status of its REC domain, which is controlled by a cognate histidine kinase protein, Rcc00621. In this system, the phosphorylated form of Rcc00620 is active as a PDE enzyme and stimulates gene transfer and motility. In addition, we discovered that the rcc00620 and rcc00621 genes are present in only one lineage within the genus Rhodobacter and were acquired via horizontal gene transfer from a distantly related alphaproteobacterium in the order Sphingomonadales. Therefore, a horizontally acquired regulatory system regulates gene transfer in the recipient organism.

journal_name

J Mol Biol

authors

Pallegar P,Canuti M,Langille E,Peña-Castillo L,Lang AS

doi

10.1016/j.jmb.2020.07.001

subject

Has Abstract

pub_date

2020-08-07 00:00:00

pages

4840-4855

issue

17

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(20)30435-6

journal_volume

432

pub_type

杂志文章
  • The glucose-regulated protein grp94 is related to heat shock protein hsp90.

    abstract::We report the sequence of a cDNA clone that encodes the C-terminal half of the hamster 94 X 10(3) Mr glucose-regulated protein, grp94. The amino acid sequence of this protein is about 50% homologous to Drosophila hsp83 and yeast hsp90, suggesting that grp94 and hsp90 have similar functional properties. Unlike hsp90, g...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(87)90380-9

    authors: Sorger PK,Pelham HR

    更新日期:1987-03-20 00:00:00

  • Structural and biophysical characterization of the Syk activation switch.

    abstract::Syk is an essential non-receptor tyrosine kinase in intracellular immunological signaling, and the control of Syk kinase function is considered as a valuable target for pharmacological intervention in autoimmune or inflammation diseases. Upon immune receptor stimulation, the kinase activity of Syk is regulated by bind...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2012.11.007

    authors: Grädler U,Schwarz D,Dresing V,Musil D,Bomke J,Frech M,Greiner H,Jäkel S,Rysiok T,Müller-Pompalla D,Wegener A

    更新日期:2013-01-23 00:00:00

  • Structure of Mutant Hepatitis B Core Protein Capsids with Premature Secretion Phenotype.

    abstract::Hepatitis B virus is a major human pathogen that consists of a viral genome surrounded by an icosahedrally ordered core protein and a polymorphic, lipidic envelope that is densely packed with surface proteins. A point mutation in the core protein in which a phenylalanine at position 97 is exchanged for a smaller leuci...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2018.10.018

    authors: Böttcher B,Nassal M

    更新日期:2018-12-07 00:00:00

  • Impact of the terminal bulges of HIV-1 cTAR DNA on its stability and the destabilizing activity of the nucleocapsid protein NCp7.

    abstract::Reverse transcription of HIV-1 genomic RNA to double-stranded DNA by reverse transcriptase (RT) is a critical step in HIV-1 replication. This process relies on two viral proteins, the RT enzyme and nucleocapsid protein NCp7 that has well documented nucleic acid chaperone properties. At the beginning of the linear DNA ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(03)00244-4

    authors: Beltz H,Azoulay J,Bernacchi S,Clamme JP,Ficheux D,Roques B,Darlix JL,Mély Y

    更新日期:2003-04-18 00:00:00

  • The dynamic structure of EF-G studied by fusidic acid resistance and internal revertants.

    abstract::We have previously identified 20 different fusidic acid-resistant alleles of fusA, encoding mutant forms of the ribosomal translocase EF-G. One of these, P413L, is used here as the starting point in selections for internal revertants, identifying 20 different pseudo-wild-type forms of EF-G. We have also identified two...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0259

    authors: Johanson U,Aevarsson A,Liljas A,Hughes D

    更新日期:1996-05-10 00:00:00

  • Vibrio cholerae YaeO is a Structural Homologue of RNA Chaperone Hfq that Inhibits Rho-dependent Transcription Termination by Dissociating its Hexameric State.

    abstract::Rho-dependent transcription termination is a well-conserved process in bacteria. The Psu and YaeO proteins are the two established inhibitors of the ATP-dependent RNA helicase Rho protein of Escherichia coli. Here, we show a detailed sequence and phylogenetic analysis demonstrating that Vibrio cholerae YaeO (VcYaeO) i...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2019.09.019

    authors: Pal K,Yadav M,Jain S,Ghosh B,Sen R,Sen U

    更新日期:2019-12-06 00:00:00

  • phi29 DNA polymerase active site: role of residue Val250 as metal-dNTP complex ligand and in protein-primed initiation.

    abstract::DNA polymerases require two acidic residues to coordinate metal ions A and B at their polymerisation active site during catalysis of nucleotide incorporation. Crystallographic resolution of varphi29 DNA polymerase ternary complex showed that metal B coordination also depends on the carbonyl group of Val250 that belong...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2009.10.061

    authors: Pérez-Arnaiz P,Lázaro JM,Salas M,de Vega M

    更新日期:2010-01-15 00:00:00

  • Crystallization and preliminary X-ray diffraction analysis of a type I beta-glucosidase encoded by the bgIA gene of Bacillus polymyxa.

    abstract::The enzyme encoded by the bgIA gene of Bacillus polymyxa, a type I beta-glucosidase belonging to family I of glycosyl hydrolases, has been purified to homogeneity from an Escherichia coli culture which overexpressed the gene, and crystallized. The crystals, which diffract to 3.0 A resolution, belong to the orthorhombi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1441

    authors: Sanz-Aparicio J,Romero A,Martinez-Ripoll M,Madarro A,Flors A,Polaina J

    更新日期:1994-07-15 00:00:00

  • Sequence dependence of amyloid fibril formation: insights from molecular dynamics simulations.

    abstract::The clarification of the physico-chemical determinants underlying amyloid deposition is critical for our understanding of misfolding diseases. With this purpose we have performed a systematic all-atom molecular dynamics (MD) study of a series of single point mutants of the de novo designed amyloidogenic peptide STVIIE...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.03.081

    authors: López de la Paz M,de Mori GM,Serrano L,Colombo G

    更新日期:2005-06-10 00:00:00

  • A cross-talk between hypoxia and TGF-beta orchestrates erythropoietin gene regulation through SP1 and Smads.

    abstract::Erythropoietin (Epo) is the humoral regulator of red blood-cell production. Low oxygen tension increases the Epo levels by enhancing transcription, through the hypoxia-inducible factor (HIF)-1, a transcriptional modulator in oxygen-regulated gene expression. In the present work, a cooperative interaction between hypox...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2003.12.023

    authors: Sánchez-Elsner T,Ramírez JR,Sanz-Rodriguez F,Varela E,Bernabéu C,Botella LM

    更新日期:2004-02-06 00:00:00

  • Sequence-specific DNA binding of the phage Mu C protein: footprinting analysis reveals altered DNA conformation upon protein binding.

    abstract::The mom gene of bacteriophage Mu, which codes for a DNA modification function, is regulated in a complex manner at both transcriptional and translational levels. The phage-encoded C protein functions as an activator of mom transcription. The mom promoter has features of an activator-dependent weak promoter, and the C ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0379

    authors: Ramesh V,Nagaraja V

    更新日期:1996-07-05 00:00:00

  • Neuronal BC1 RNA: microtubule-dependent dendritic delivery.

    abstract::RNA localization is an important means of post-transcriptional regulation of gene expression in many eukaryotic cell types. In neurons, select RNAs are delivered to postsynaptic dendritic microdomains, a mechanism that is considered a key underpinning in the administration of long-term synaptic plasticity. BC1 RNA is ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.11.090

    authors: Cristofanilli M,Iacoangeli A,Muslimov IA,Tiedge H

    更新日期:2006-03-10 00:00:00

  • M-LDH serves as a regulatory subunit of the cytosolic substrate-channelling complex in vivo.

    abstract::Nucleoside diphosphate kinase A (NDPK-A) regulates the alpha1 isoform of the AMP-activated protein kinase (AMPK alpha1) selectively, independent of [AMP] and surrounding [ATP], by a process termed substrate channelling. Here, we show, using a range of empirically validated biochemical techniques, that the muscle form ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2007.05.081

    authors: Jovanović S,Jovanović A,Crawford RM

    更新日期:2007-08-10 00:00:00

  • Crystal structures of penicillin-binding protein 3 (PBP3) from methicillin-resistant Staphylococcus aureus in the apo and cefotaxime-bound forms.

    abstract::Staphylococcus aureus is a widespread Gram-positive opportunistic pathogen, and a methicillin-resistant form (MRSA) is particularly difficult to treat clinically. We have solved two crystal structures of penicillin-binding protein (PBP) 3 (PBP3) from MRSA, the apo form and a complex with the β-lactam antibiotic cefota...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2012.07.012

    authors: Yoshida H,Kawai F,Obayashi E,Akashi S,Roper DI,Tame JR,Park SY

    更新日期:2012-10-26 00:00:00

  • Structure-based analysis of GPCR function: evidence for a novel pentameric assembly between the dimeric leukotriene B4 receptor BLT1 and the G-protein.

    abstract::We produced human leukotriene B(4) (LTB(4)) receptor BLT1 as a recombinant protein in Escherichia coli. This detergent-solubilized receptor displays two states with regard to its affinity for LTB(4): (i) a low-affinity state (K(a)=7.8x10(8)M(-1)) that involves a receptor homodimer (BLT1.LTB(4))(2); we report evidence ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(03)00439-x

    authors: Banères JL,Parello J

    更新日期:2003-06-13 00:00:00

  • Bacterial repression loops require enhanced DNA flexibility.

    abstract::The Escherichia coli lac operon provides a classic paradigm for understanding regulation of gene transcription. It is now appreciated that lac promoter repression involves cooperative binding of the bidentate lac repressor tetramer to pairs of lac operators via DNA looping. We have adapted components of this system to...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.04.035

    authors: Becker NA,Kahn JD,Maher LJ 3rd

    更新日期:2005-06-17 00:00:00

  • Dominant mutations affecting muscle structure in Caenorhabditis elegans that map near the actin gene cluster.

    abstract::By examining F1 progeny of mutagenized Caenorhabditis elegans larvae, we recovered several dominant mutations which affect muscle structure. Five of these new mutations resulted in phenotypes unlike the previously recognized unc-54 and unc-15 dominant alleles. Mapping studies placed all five mutations in the same smal...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(84)90023-8

    authors: Waterston RH,Hirsh D,Lane TR

    更新日期:1984-12-15 00:00:00

  • Control of gene expression in the P2-related template coliphages. III. DNA sequence of the major control region of phage 186.

    abstract::The PstI fragment (65.5% to 77.4%) of coliphage 186, known genetically to encode the major control genes, has been sequenced, and an analysis performed to assess coding capacity, transcription-translation signals, and to identify any other significant features. Our analysis indicates that the region encodes: seven gen...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(86)90257-3

    authors: Kalionis B,Dodd IB,Egan JB

    更新日期:1986-09-20 00:00:00

  • Inhibition of mammary carcinoma cell growth by RXR is mediated by the receptor's oligomeric switch.

    abstract::Ligands that activate the nuclear receptor retinoid X receptor (RXR) display potent anticarcinogenic activities, but the mechanisms by which these compounds inhibit carcinoma cell growth are poorly understood. While RXR can regulate gene expression due to its intrinsic ligand-activated transcription function, this rec...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.02.030

    authors: Yasmin R,Kannan-Thulasiraman P,Kagechika H,Dawson MI,Noy N

    更新日期:2010-04-16 00:00:00

  • Different subdomains are most protected from hydrogen exchange in the molten globule and native states of human alpha-lactalbumin.

    abstract::alpha-Lactalbumin (alpha-LA) is a two-domain, calcium-binding protein that forms one of the best studied molten globules. We present here amide hydrogen exchange studies of the molten globule formed by human alpha-LA at pH 2 and compare these results with a similar study of the native state at pH 6.3. The most persist...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0579

    authors: Schulman BA,Redfield C,Peng ZY,Dobson CM,Kim PS

    更新日期:1995-11-10 00:00:00

  • Meiotic Clade AAA ATPases: Protein Polymer Disassembly Machines.

    abstract::Meiotic clade AAA ATPases (ATPases associated with diverse cellular activities), which were initially grouped on the basis of phylogenetic classification of their AAA ATPase cassette, include four relatively well characterized family members, Vps4, spastin, katanin and fidgetin. These enzymes all function to disassemb...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1016/j.jmb.2015.11.004

    authors: Monroe N,Hill CP

    更新日期:2016-05-08 00:00:00

  • The 1.2 A structure of a novel quorum-sensing protein, Bacillus subtilis LuxS.

    abstract::In bacteria, the regulation of gene expression in response to changes in cell density is called quorum sensing. The autoinducer-2 production protein LuxS, is involved in a novel quorum-sensing system and is thought to catalyse the degradation of S-ribosylhomocysteine to homocysteine and the autoinducer molecule 4,5-di...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.5027

    authors: Ruzheinikov SN,Das SK,Sedelnikova SE,Hartley A,Foster SJ,Horsburgh MJ,Cox AG,McCleod CW,Mekhalfia A,Blackburn GM,Rice DW,Baker PJ

    更新日期:2001-10-12 00:00:00

  • Assembly of robust bacterial microcompartment shells using building blocks from an organelle of unknown function.

    abstract::Bacterial microcompartments (BMCs) sequester enzymes from the cytoplasmic environment by encapsulation inside a selectively permeable protein shell. Bioinformatic analyses indicate that many bacteria encode BMC clusters of unknown function and with diverse combinations of shell proteins. The genome of the halophilic m...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2014.02.025

    authors: Lassila JK,Bernstein SL,Kinney JN,Axen SD,Kerfeld CA

    更新日期:2014-05-29 00:00:00

  • Structure of a Novel Dimeric SET Domain Methyltransferase that Regulates Cell Motility.

    abstract::Lysine methyltransferases (KMTs) were initially associated with transcriptional control through their methylation of histones and other nuclear proteins, but have since been found to regulate many other cellular activities. The apical complex lysine (K) methyltransferase (AKMT) of the human parasite Toxoplasma gondii ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2018.08.017

    authors: Pivovarova Y,Liu J,Lesigang J,Koldyka O,Rauschmeier R,Hu K,Dong G

    更新日期:2018-10-19 00:00:00

  • Voltage-gating of Escherichia coli porin: a cystine-scanning mutagenesis study of loop 3.

    abstract::Porins, such as Escherichia coli OmpF, provide the only reported example of a voltage-gated channel where the three-dimensional structure is known to high resolution. Mutations that affect voltage-gating are clustered around the eyelet region, which is a mid-channel constriction caused by a polypeptide loop (L3) foldi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1474

    authors: Bainbridge G,Mobasheri H,Armstrong GA,Lea EJ,Lakey JH

    更新日期:1998-01-16 00:00:00

  • Crystallization and preliminary X-ray diffraction studies of human RANTES.

    abstract::The chemotactic cytokine RANTES (Regulated on Activation, Normal T-cell Expressed and Secreted) is a potent chemoattractant and activator of a number of leukocytes, with a molecular mass of 8 kDa. Crystals of this protein have been grown from 100 mM sodium acetate buffer (pH 4.6) containing 200 mM magnesium acetate, w...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1605

    authors: Shaw JP,Kryger G,Cleasby A,Wonacott A,Power CA,Proudfoot AE,Wells TN

    更新日期:1994-09-30 00:00:00

  • Individual domains of colicins confer specificity in colicin uptake, in pore-properties and in immunity requirement.

    abstract::Six different hybrid colicins were constructed by recombining various domains of the two pore-forming colicins A and E1. These hybrid colicins were purified and their properties were studied. All of them were active against sensitive cells, although to varying degrees. From the results, one can conclude that: (1) the ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(91)90747-t

    authors: Benedetti H,Frenette M,Baty D,Knibiehler M,Pattus F,Lazdunski C

    更新日期:1991-02-05 00:00:00

  • Integration host factor binds specifically to sites in the ilvGMEDA operon in Escherichia coli.

    abstract::Integration host factor (IHF) of Escherichia coli is a histone-like protein that is involved both in site-specific recombination and in regulating the expression of a number of phage and bacterial genes. We have shown previously that transcription of the ilvGMEDA operon in E. coli is greatly reduced in IHF mutants. We...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(88)90212-4

    authors: Tsui P,Freundlich M

    更新日期:1988-10-05 00:00:00

  • Structural assembly of the active site in an aldo-keto reductase by NADPH cofactor.

    abstract::A 1.9 A resolution X-ray structure of the apo-form of Corynebacterium 2,5-diketo-d-gluconic acid reductase A (2,5-DKGR A), a member of the aldo-keto reductase superfamily, has been determined by molecular replacement using the NADPH-bound form of the same enzyme as the search model. 2,5-DKGR A catalyzes the NADPH-depe...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.2001.4739

    authors: Sanli G,Blaber M

    更新日期:2001-06-22 00:00:00

  • Solution structure of the SH2 domain of Grb2 complexed with the Shc-derived phosphotyrosine-containing peptide.

    abstract::The solution structure of growth factor receptor-bound protein 2 (Grb2) SH2 complexed with a Shc-derived phosphotyrosine (pTyr)-containing peptide was determined by nuclear magnetic resonance (NMR) spectroscopy. The pTyr binding site of Grb2 SH2 was similar to those of other SH2 domains. In contrast, the amino acid re...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.2792

    authors: Ogura K,Tsuchiya S,Terasawa H,Yuzawa S,Hatanaka H,Mandiyan V,Schlessinger J,Inagaki F

    更新日期:1999-06-11 00:00:00