Characterization of a conserved alpha-helical, coiled-coil motif at the C-terminal domain of the ATP-dependent FtsH (HflB) protease of Escherichia coli.

Abstract:

:FtsH (HflB) is an ATP-dependent protease found in prokaryotic cells, mitochondria and chloroplasts. Here, we have identified, in the carboxy-terminal region of FtsH (HfIB), a short alpha helix predicted of forming a coiled-coil, leucine zipper, structure. This region appears to be structurally conserved. The presence of the coiled-coil motif in the Escherichia coli FtsH (HflB) was demonstrated by circular dichroism and cross-linking experiments. Mutational analysis showed that three highly conserved leucine residues are essential for FtsH (HfIB) activity in vivo and in vitro. Purified proteins mutated in the conserved leucine residues, were found to be defective in the degradation of E. coli sigma(32) and the bacteriophage lambda CII proteins. In addition, the mutant proteins were defective in the binding of CII The mutations did not interfere with the ATPase activity of FtsH (HflB). Finally, the mutant proteins were found to be more sensitive to trypsin degradation than the wild-type enzyme suggesting that the alpha helical region is an important structural element of FtsH (HflB).

journal_name

J Mol Biol

authors

Shotland Y,Teff D,Koby S,Kobiler O,Oppenheim AB

doi

10.1006/jmbi.2000.3767

keywords:

subject

Has Abstract

pub_date

2000-06-16 00:00:00

pages

953-64

issue

4

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(00)93767-7

journal_volume

299

pub_type

杂志文章
  • Structure of cobra cardiotoxin CTX I as derived from nuclear magnetic resonance spectroscopy and distance geometry calculations.

    abstract::The structure of cardiotoxin CTX I from Naja naja atra has been investigated by NMR spectroscopy. Sequence specific resonance assignments have been obtained for all backbone protons as well as for most side-chain protons. Distance geometry calculations were carried out using a metric matrix DG program. A total of 715 ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1460

    authors: Jahnke W,Mierke DF,Béress L,Kessler H

    更新日期:1994-07-29 00:00:00

  • Cloning and sequence analysis of the Escherichia coli 4.5 S RNA gene.

    abstract::The structure of the Escherichia coli gene coding for the metabolically stable 4.5 S RNA has been determined by cloning and DNA sequence analysis. Results from Southern hybridization assays carried out prior to cloning show the 4.5 S DNA to be limited to a single locus in the E. coli K12 genome. A 5.4 X 10(3) base DNA...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(84)90236-5

    authors: Hsu LM,Zagorski J,Fournier MJ

    更新日期:1984-09-25 00:00:00

  • Structures of Tyr188Leu mutant and wild-type HIV-1 reverse transcriptase complexed with the non-nucleoside inhibitor HBY 097: inhibitor flexibility is a useful design feature for reducing drug resistance.

    abstract::The second generation Hoechst-Bayer non-nucleoside inhibitor, HBY 097 (S-4-isopropoxycarbonyl-6-methoxy-3-(methylthiomethyl)-3, 4-dihydroqui noxalin-2(1H)-thione), is an extremely potent inhibitor of HIV-1 reverse transcriptase (RT) and of HIV-1 infection in cell culture. HBY 097 selects for unusual drug-resistance mu...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2171

    authors: Hsiou Y,Das K,Ding J,Clark AD Jr,Kleim JP,Rösner M,Winkler I,Riess G,Hughes SH,Arnold E

    更新日期:1998-11-27 00:00:00

  • A conformational transition at the N terminus of the prion protein features in formation of the scrapie isoform.

    abstract::The scrapie prion protein (PrPSc) is formed from the cellular isoform (PrPC) by a post-translational process that involves a profound conformational change. Linear epitopes for recombinant antibody Fab fragments (Fabs) on PrPC and on the protease-resistant core of PrPSc, designated PrP 27-30, were identified using ELI...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1328

    authors: Peretz D,Williamson RA,Matsunaga Y,Serban H,Pinilla C,Bastidas RB,Rozenshteyn R,James TL,Houghten RA,Cohen FE,Prusiner SB,Burton DR

    更新日期:1997-10-31 00:00:00

  • Ligand-induced conformational changes in ras p21: a normal mode and energy minimization analysis.

    abstract::A normal mode and energy minimization of ras p21 is used to determine the flexibility of the protein and the origin of the conformational differences between GTP and GDP-bound forms. To preserve the integrity of the structures, a hydration shell of water molecules was included as part of the system. Certain low-freque...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.1313

    authors: Ma J,Karplus M

    更新日期:1997-11-21 00:00:00

  • Characterization of the Borrelia burgdorferi RNase P RNA gene reveals a novel tertiary interaction.

    abstract::Characterization of the RNase P RNA gene derived from Borrelia burgdorferi reveals covariation of the conserved nucleotides at positions corresponding to nucleotides 128 and 230 in Escherichia coli RNase P RNA (M1 RNA). Single base substitutions at either of these positions in M1 RNA resulted in a lack of complementat...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1994.1467

    authors: Mattsson JG,Svärd SG,Kirsebom LA

    更新日期:1994-08-05 00:00:00

  • Domain structure, stability and domain-domain interactions in recombinant factor XIII.

    abstract::The process of heat denaturation of recombinant factor XIII (rFXIII), as well as its C-terminal 24 kDA and 12 kDa elastase-produced fragments starting at Ser514 and Thr628, respectively, was investigated in a wide range of conditions by fluorescence, CD and differential scanning calorimetry (DSC). It was found that th...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(95)80060-3

    authors: Kurochkin IV,Procyk R,Bishop PD,Yee VC,Teller DC,Ingham KC,Medved LV

    更新日期:1995-04-28 00:00:00

  • Bulge-induced bends in RNA: quantification by transient electric birefringence.

    abstract::Bulges represent one of the most common non-helical elements in RNA, often displaying a strong degree of phylogenetic conservation, both in location and sequence, within larger RNA molecules. Thus, knowledge of the conformation and flexibility of RNA bulges is an important prerequisite for understanding the rules gove...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1995.0155

    authors: Zacharias M,Hagerman PJ

    更新日期:1995-03-31 00:00:00

  • RpoD promoters in Campylobacter jejuni exhibit a strong periodic signal instead of a -35 box.

    abstract::We have used a hidden Markov model (HMM) to identify the consensus sequence of the RpoD promoters in the genome of Campylobacter jejuni. The identified promoter consensus sequence is unusual compared to other bacteria, in that the region upstream of the TATA-box does not contain a conserved -35 region, but shows a ver...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/s0022-2836(03)00034-2

    authors: Petersen L,Larsen TS,Ussery DW,On SL,Krogh A

    更新日期:2003-03-07 00:00:00

  • High-affinity, peptide-specific T cell receptors can be generated by mutations in CDR1, CDR2 or CDR3.

    abstract::The third complementarity-determining regions (CDR3s) of antibodies and T cell receptors (TCRs) have been shown to play a major role in antigen binding and specificity. Consistent with this notion, we demonstrated previously that high-affinity, peptide-specific TCRs could be generated in vitro by mutations in the CDR3...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.11.057

    authors: Chlewicki LK,Holler PD,Monti BC,Clutter MR,Kranz DM

    更新日期:2005-02-11 00:00:00

  • The RYMV-encoded viral suppressor of RNA silencing P1 is a zinc-binding protein with redox-dependent flexibility.

    abstract::Viral suppressors of RNA interference (VSRs) target host gene silencing pathways, thereby operating important roles in the viral cycle and in host cells, in which they counteract host innate immune responses. However, the molecular mechanisms of VSRs are poorly understood. We provide here biochemical and biophysical f...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2013.03.028

    authors: Gillet FX,Cattoni DI,Petiot-Bécard S,Delalande F,Poignavent V,Brizard JP,Bessin Y,Dorsselaer AV,Declerck N,Sanglier-Cianférani S,Brugidou C,Vignols F

    更新日期:2013-07-24 00:00:00

  • Three-dimensional structure of NADH-dehydrogenase from Neurospora crassa by electron microscopy and conical tilt reconstruction.

    abstract::NADH-dehydrogenase (Complex I) is the first complex of the mitochondrial respiratory chain. It is an amphipatic molecule located in the inner mitochondrial membrane and is composed of at least 35 unique subunits encoded by both mitochondrial and nuclear DNA. The whole complex was isolated in detergent from the fungus ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0753

    authors: Guénebaut V,Vincentelli R,Mills D,Weiss H,Leonard KR

    更新日期:1997-01-31 00:00:00

  • The rate of polyQ-mediated aggregation is dramatically affected by the number and location of surrounding domains.

    abstract::The nine polyglutamine (polyQ) neurodegenerative diseases are caused in part by a gain-of-function mechanism involving protein misfolding, the deposition of β-sheet-rich aggregates and neuronal toxicity. While previous experimental evidence suggests that the polyQ-induced misfolding mechanism is context dependent, the...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2011.09.014

    authors: Robertson AL,Bate MA,Buckle AM,Bottomley SP

    更新日期:2011-11-04 00:00:00

  • The 80's loop (residues 78 to 85) is important for the differential activity of retroviral proteases.

    abstract::The abundance of structural data available for retroviral proteases affords a unique opportunity to investigate structure activity relationships. Our approach attempts to genetically engineer an HIV (human immunodeficiency virus)-1 protease that is functionally equivalent to the HIV-2 and the SIV (simian immunodeficie...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1997.0891

    authors: Stebbins J,Towler EM,Tennant MG,Deckman IC,Debouck C

    更新日期:1997-04-04 00:00:00

  • Characterization of the dimer interface of transcription factor NFkappaB p50 homodimer.

    abstract::Dimers of the Rel/NFkappaB transcription factor family form with differential stabilities through the combinatorial association of five polypeptides: p50, p52, p65, cRel, and RelB. Here, we have characterized the nature of the monomer-dimer equilibrium of the p50 homodimer. Sedimentation equilibrium studies show that ...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.2823

    authors: Sengchanthalangsy LL,Datta S,Huang DB,Anderson E,Braswell EH,Ghosh G

    更新日期:1999-06-18 00:00:00

  • Functional cartography of the ectodomain of the type I interferon receptor subunit ifnar1.

    abstract::Ligand-induced cross-linking of the type I interferon (IFN) receptor subunits ifnar1 and ifnar2 induces a pleiotrophic cellular response. Several studies have suggested differential signal activation by flexible recruitment of the accessory receptor subunit ifnar1. We have characterized the roles of the four Ig-like s...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.05.008

    authors: Lamken P,Gavutis M,Peters I,Van der Heyden J,Uzé G,Piehler J

    更新日期:2005-07-15 00:00:00

  • Long range base-pairing in the leftward transcription unit of bacteriophage lambda. Characterization by electron microscopy and computer-aided sequence analysis.

    abstract::Restriction fragments of bacteriophage lambda DNA corresponding to the major leftward transcription unit were purified, denatured to form single-stranded DNA, self-annealed, and examined by electron microscopy. Three intrastrand stem and loop secondary structures were observed reproducibly and the locations of the pai...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/0022-2836(84)90070-6

    authors: Edlind TD,Cooley TE,Richards SH,Ihler GM

    更新日期:1984-11-05 00:00:00

  • The requirement for mechanical coupling between head and S2 domains in smooth muscle myosin ATPase regulation and its implications for dimeric motor function.

    abstract::A combination of experimental structural data, homology modelling and elastic network normal mode analysis is used to explore how coupled motions between the two myosin heads and the dimerization domain (S2) in smooth muscle myosin II determine the domain movements required to achieve the inhibited state of this ATP-d...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2004.10.084

    authors: Tama F,Feig M,Liu J,Brooks CL 3rd,Taylor KA

    更新日期:2005-01-28 00:00:00

  • Control of actin dynamics in cell motility.

    abstract::Actin polymerization plays a major role in cell movement. The controls of actin sequestration/desequestration and of filament turnover are two important features of cell motility. Actin binding proteins use properties derived from the steady-state monomer-polymer cycle of actin in the presence of ATP, to control the F...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1006/jmbi.1997.1062

    authors: Carlier MF,Pantaloni D

    更新日期:1997-06-20 00:00:00

  • Derepression of SaPIbov1 Is Independent of φNM1 Type 2 dUTPase Activity and Is Inhibited by dUTP and dUMP.

    abstract::Staphylococcus aureus is an opportunistic human pathogen able to transfer virulence genes to other cells through the mobilization of S. aureus pathogenicity islands (SaPIs). SaPIs are derepressed and packaged into phage-like transducing particles by helper phages like 80α or φNM1. Phages 80α and φNM1 encode structural...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2017.04.001

    authors: Hill RLL,Vlach J,Parker LK,Christie GE,Saad JS,Dokland T

    更新日期:2017-05-19 00:00:00

  • Interstrand pairing patterns in beta-barrel membrane proteins: the positive-outside rule, aromatic rescue, and strand registration prediction.

    abstract::beta-Barrel membrane proteins are found in the outer membrane of Gram-negative bacteria, mitochondria, and chloroplasts. Little is known about how residues in membrane beta-barrels interact preferentially with other residues on adjacent strands. We have developed probabilistic models to quantify propensities of residu...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.09.094

    authors: Jackups R Jr,Liang J

    更新日期:2005-12-09 00:00:00

  • A direct estimation of the context effect on the efficiency of termination.

    abstract::An in vitro assay in which terminating Escherichia coli ribosomes with different stop signals in the A-site compete for a limited amount of a release factor (RF1 or RF2) has been used to estimate the relative termination efficiencies at stop codons with different adjacent downstream nucleotides. The assay allows direc...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2220

    authors: Pavlov MY,Freistroffer DV,Dincbas V,MacDougall J,Buckingham RH,Ehrenberg M

    更新日期:1998-12-04 00:00:00

  • The anticodon loop is a major identity determinant of Saccharomyces cerevisiae tRNA(Leu).

    abstract::The recognition of tRNALeu, one of the class II tRNAs having a long variable arm, by leucyl-tRNA synthetase in Saccharomyces cerevisiae was studied using the T7 transcription system. Exchanging the anticodon arm of tRNALeu but not the D- or T psi C-arm to that of tRNASer seriously affected the leucine accepting activi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1996.0610

    authors: Soma A,Kumagai R,Nishikawa K,Himeno H

    更新日期:1996-11-15 00:00:00

  • Self-interaction of pneumolysin, the pore-forming protein toxin of Streptococcus pneumoniae.

    abstract::The pathogenically important cholesterol-binding pore-forming bacterial "thiol-activated" toxins (TATs) are commonly believed to be monomeric in solution and to undergo a transition on membrane binding mediated by cholesterol to an oligomeric pore. We present evidence, gained through the application of a number of bio...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.2258

    authors: Gilbert RJ,Rossjohn J,Parker MW,Tweten RK,Morgan PJ,Mitchell TJ,Errington N,Rowe AJ,Andrew PW,Byron O

    更新日期:1998-12-11 00:00:00

  • Dissection of the his leader pause site by base substitution reveals a multipartite signal that includes a pause RNA hairpin.

    abstract::A key feature of transcriptional attenuation in some amino acid biosynthetic operons is a transcriptional pause that occurs immediately after synthesis of the first leader transcript secondary structure. Both RNA secondary structure and downstream DNA sequence are important for pausing at these sites; however, the pre...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1993.1482

    authors: Chan CL,Landick R

    更新日期:1993-09-05 00:00:00

  • Electrostatic contributions to the stability of halophilic proteins.

    abstract::Examination of the first crystal structures of proteins from a halophilic organism suggests that an abundance of acidic residues distributed over the protein surface is a key determinant of adaptation to high-salt conditions. Although one extant theory suggests that acidic residues are favored because of their superio...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1998.1904

    authors: Elcock AH,McCammon JA

    更新日期:1998-07-24 00:00:00

  • Negative cooperativity of uric acid binding to the transcriptional regulator HucR from Deinococcus radiodurans.

    abstract::Members of the MarR family of winged helix transcriptional regulators have been shown to regulate multidrug and oxidative stress response, pathogenesis, and catabolism of aromatic compounds. Many respond to anionic lipophilic compounds in their capacity to bind DNA, and the co-crystal structure of MarR bound to salicy...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2005.05.027

    authors: Wilkinson SP,Grove A

    更新日期:2005-07-22 00:00:00

  • High-resolution structure of bovine pancreatic trypsin inhibitor with altered binding loop sequence.

    abstract::A mutant of bovine pancreatic trypsin inhibitor (BPTI) has been constructed and expressed in Escherichia coli in order to probe the kinetic and structural consequences of truncating the binding loop residues to alanine. In addition to two such mutations (Thr11Ala and Pro13Ala), it has a conservative Lys15Arg substitut...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1006/jmbi.1999.3445

    authors: Czapinska H,Otlewski J,Krzywda S,Sheldrick GM,Jaskólski M

    更新日期:2000-02-04 00:00:00

  • The crystal structure of glutamine-binding protein from Escherichia coli.

    abstract::The crystal structure of the glutamine-binding protein (GlnBP) from Escherichia coli in a ligand-free "open" conformational state has been determined by isomorphous replacement methods and refined to an R-value of 21.4% at 2.3 A resolution. There are two molecules in the asymmetric unit, related by pseudo 4-fold screw...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章,评审

    doi:10.1006/jmbi.1996.0509

    authors: Hsiao CD,Sun YJ,Rose J,Wang BC

    更新日期:1996-09-20 00:00:00

  • Topological frustration in beta alpha-repeat proteins: sequence diversity modulates the conserved folding mechanisms of alpha/beta/alpha sandwich proteins.

    abstract::The thermodynamic hypothesis of Anfinsen postulates that structures and stabilities of globular proteins are determined by their amino acid sequences. Chain topology, however, is known to influence the folding reaction, in that motifs with a preponderance of local interactions typically fold more rapidly than those wi...

    journal_title:Journal of molecular biology

    pub_type: 杂志文章

    doi:10.1016/j.jmb.2010.03.001

    authors: Hills RD Jr,Kathuria SV,Wallace LA,Day IJ,Brooks CL 3rd,Matthews CR

    更新日期:2010-04-30 00:00:00