当前位置： SCI文献检索 > JOURNAL OF MOLECULAR BIOLOGY期刊下所有文献 > Infrared dichroism of twisted beta-sheet barrels. The structure of E. coli outer membrane proteins.

Infrared dichroism of twisted beta-sheet barrels. The structure of E. coli outer membrane proteins.

Abstract：

:The infrared dichroic ratios of the amide bands from oriented beta-barrels yield an experimental value for the mean orientation, beta, of the beta-strands, relative to the barrel axis. For a barrel of n strands, this then gives the shear number, S, that characterizes the stagger of the beta-sheet. Combining values of beta and n specifies the barrel geometry by using the optimized model of Murzin, Lesk & Chothia for regular barrels. Application to published infrared data on the Escherichia coli outer membrane protein, OmpA yields S=9-10 (n=8), a barrel radius of 0.81(+/-0.01) nm, and an internal free volume of 0.031 nm(3) per residue, where the average twist of the beta-sheets is theta approximately 28 degrees, and their coiling angle is epsilon approximately 1 degrees. Hydrophobic matching of the 2.6 nm transmembrane stretch partly determines the shear number of the OmpA beta-barrel.

journal_name

J Mol Biol

journal_title

Journal of molecular biology

authors

Marsh D

doi

10.1006/jmbi.2000.3557

keywords:

subject

Has Abstract

pub_date

2000-03-31 00:00:00

pages

803-8

issue

3

eissn

0022-2836

issn

1089-8638

pii

S0022-2836(00)93557-5

journal_volume

297

pub_type

杂志文章

相关文献

JOURNAL OF MOLECULAR BIOLOGY文献大全
  • Fluid and condensed ApoA-I/phospholipid monolayers provide insights into ApoA-I membrane insertion.

    abstract：:Apolipoprotein A-I (ApoA-I) is a protein implicated in the solubilization of lipids and cholesterol from cellular membranes. The study of ApoA-I in phospholipid (PL) monolayers brings relevant information about ApoA-I/PL interactions. We investigated the influence of PL charge and acyl chain organization on the intera...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2011.04.006

    authors： Chièze L,Bolanos-Garcia VM,Pinot M,Desbat B,Renault A,Beaufils S,Vié V

    更新日期：2011-07-01 00:00:00

  • Selective Autophagy Receptors in Neuronal Health and Disease.

    abstract：:Neurons are electrically excitable, postmitotic cells that perform sensory, relaying, and motor functions. Because of their unique morphological and functional specialization, cells of this type are sensitive to the stress caused by accumulation of misfolded proteins or damaged organelles. Autophagy is the fundamental...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章,评审

    doi：10.1016/j.jmb.2019.10.013

    authors： Conway O,Akpinar HA,Rogov VV,Kirkin V

    更新日期：2020-04-03 00:00:00

  • Allosteric changes in protein structure computed by a simple mechanical model: hemoglobin TR2 transition.

    abstract：:Information on protein dynamics has been usually inferred from spectroscopic studies of parts of the proteins, or indirectly from the comparison of the conformations assumed in the presence of different substrates or ligands. While molecular simulations also provide information on protein dynamics, they usually suffer...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2003.08.027

    authors： Xu C,Tobi D,Bahar I

    更新日期：2003-10-10 00:00:00

  • Amino acid periodicities and their structural implications for the evolutionarily conservative central domain of some silkmoth chorion proteins.

    abstract：:The central domain is an evolutionarily conservative region that is invariant in length in the A and Hc-A families of silkmoth chorion proteins. This domain shows strong sixfold periodicities for various amino acid residues, such as glycine and large non-polar residues. The periodicities and their phase relationships,...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(85)90132-9

    authors： Hamodrakas SJ,Etmektzoglou T,Kafatos FC

    更新日期：1985-12-05 00:00:00

  • Improving profile HMM discrimination by adapting transition probabilities.

    abstract：:Profile hidden Markov models (HMMs) are used to model protein families and for detecting evolutionary relationships between proteins. Such a profile HMM is typically constructed from a multiple alignment of a set of related sequences. Transition probability parameters in an HMM are used to model insertions and deletio...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2004.03.023

    authors： Wistrand M,Sonnhammer EL

    更新日期：2004-05-07 00:00:00

  • The 2.0A resolution structure of the catalytic portion of a cyanobacterial membrane-bound manganese superoxide dismutase.

    abstract：:Cyanobacteria are shown to be unique in containing membrane-bound manganese superoxide dismutases (MnSOD). They are homodimeric type 2 membrane proteins that protect this phototrophic organism against oxidative stress. We have determined, for the first time, the 2.0A resolution structure of the catalytic portion of th...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/s0022-2836(02)00624-1

    authors： Atzenhofer W,Regelsberger G,Jacob U,Peschek G,Furtmüller P,Huber R,Obinger C

    更新日期：2002-08-16 00:00:00

  • Origin of ultraviolet damage in DNA.

    abstract：:A novel ultraviolet (u.v.) footprinting technique has been used to analyze the formation of u.v. photoproducts at 250 bases of a 5 S rRNA gene under conditions where the gene is either double or single-stranded. Because many more types of u.v. damage can be detected by the u.v. footprinting technique than has been pre...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(89)90120-4

    authors： Becker MM,Wang Z

    更新日期：1989-12-05 00:00:00

  • The crystal structures of the SH2 domain of p56lck complexed with two phosphonopeptides suggest a gated peptide binding site.

    abstract：:Src homology-2 (SH2) domains are protein modules found within a wide variety of cytoplasmic signalling molecules that bind with high affinity to phosphotyrosyl-containing protein sequences. In order to develop SH2 inhibitors that contain phosphotyrosyl analogues resistant to cellular phosphatases, we have solved the c...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1994.0089

    authors： Mikol V,Baumann G,Keller TH,Manning U,Zurini MG

    更新日期：1995-02-17 00:00:00

  • Dynamic Monte Carlo simulations of a new lattice model of globular protein folding, structure and dynamics.

    abstract：:A long-standing problem of molecular biology is the prediction of globular protein tertiary structure from the primary sequence. In the context of a new, 24-nearest-neighbor lattice model of proteins that includes both alpha and beta-carbon atoms, the requirements for folding to a unique four-member beta-barrel, four-...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章,评审

    doi：10.1016/0022-2836(91)80070-b

    authors： Skolnick J,Kolinski A

    更新日期：1991-09-20 00:00:00

  • Conformational transitions in peptides containing two putative alpha-helices of the prion protein.

    abstract：:Prions are composed largely, if not entirely, of the scrapie isoform of the prion protein (PrPSc). Conversion of the cellular isoform (PrPC) to PrPSc is accompanied by a diminution in the alpha-helical content and an increase in the beta-sheet structure. To investigate the structural basis of this transition, peptide ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1995.0395

    authors： Zhang H,Kaneko K,Nguyen JT,Livshits TL,Baldwin MA,Cohen FE,James TL,Prusiner SB

    更新日期：1995-07-21 00:00:00

  • Genetic basis of bacteriophage HK97 prohead assembly.

    abstract：:We report studies to determine which bacteriophage genes are required for assembly of phage HK97 proheads and what roles they play. We identify the gene encoding the major capsid protein of phage HK97 and report its DNA sequence, together with the DNA sequences of the two genes immediately upstream from it. When the c...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1994.0169

    authors： Duda RL,Martincic K,Hendrix RW

    更新日期：1995-04-07 00:00:00

  • Expression and transmission of a rodent retrovirus-like (VL30) gene family.

    abstract：:A transcriptionally active sub-set of the dispersed mouse VL30 family of proviral genetic elements was shown to be highly transmissible as a murine leukaemia virus pseudotype. Newly acquired VL30 proviruses (present at 1 to 2 copies per cell) were shown to be transcriptionally active. These data substantiate the hypot...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(86)90485-7

    authors： Carter AT,Norton JD,Gibson Y,Avery RJ

    更新日期：1986-03-05 00:00:00

  • Different binding modes of free and carrier-protein-coupled nicotine in a human monoclonal antibody.

    abstract：:Nicotine is the principal addictive component of tobacco. Blocking its passage from the lung to the brain with nicotine-specific antibodies is a promising approach for the treatment of smoking addiction. We have determined the crystal structure of nicotine bound to the Fab fragment of a fully human monoclonal antibody...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2011.10.042

    authors： Tars K,Kotelovica S,Lipowsky G,Bauer M,Beerli RR,Bachmann MF,Maurer P

    更新日期：2012-01-06 00:00:00

  • Cloning and characterization of a novel Bacillus thuringiensis cytolytic delta-endotoxin.

    abstract：:A gene encoding a major entomocidal polypeptide from Bacillus thuringiensis subspecies kyushuensis delta-endotoxin crystals (CytB) was cloned into Escherichia coli and sequenced. The deduced amino acid sequence gave a predicted molecular mass of 29,236 Da and showed 39% identity and 70% similarity with the 27,371 Da C...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1993.1037

    authors： Koni PA,Ellar DJ

    更新日期：1993-01-20 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

  • Targeted Killing of Pseudomonas aeruginosa by Pyocin G Occurs via the Hemin Transporter Hur.

    abstract：:Pseudomonas aeruginosa is a priority pathogen for the development of new antibiotics, particularly because multi-drug-resistant strains of this bacterium cause serious nosocomial infections and are the leading cause of death in cystic fibrosis patients. Pyocins, bacteriocins of P. aeruginosa, are potent and diverse pr...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2020.04.020

    authors： Atanaskovic I,Mosbahi K,Sharp C,Housden NG,Kaminska R,Walker D,Kleanthous C

    更新日期：2020-06-12 00:00:00

  • DRoP: a water analysis program identifies Ras-GTP-specific pathway of communication between membrane-interacting regions and the active site.

    abstract：:Ras GTPase mediates several cellular signal transduction pathways and is found mutated in a large number of cancers. It is active in the GTP-bound state, where it interacts with effector proteins, and at rest in the GDP-bound state. The catalytic domain is tethered to the membrane, with which it interacts in a nucleot...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2013.10.036

    authors： Kearney BM,Johnson CW,Roberts DM,Swartz P,Mattos C

    更新日期：2014-02-06 00:00:00

  • Mechanism of thermostabilization in a designed cold shock protein with optimized surface electrostatic interactions.

    abstract：:Using computational and sequence analysis of bacterial cold shock proteins, we designed a protein (CspB-TB) that has the core residues of mesophilic protein from Bacillus subtilis(CspB-Bs) and altered distribution of surface charged residues. This designed protein was characterized by circular dichroism spectroscopy, ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2003.12.058

    authors： Makhatadze GI,Loladze VV,Gribenko AV,Lopez MM

    更新日期：2004-02-27 00:00:00

  • Metal-dependent conformational changes in a recombinant vWF-A domain from human factor B: a solution study by circular dichroism, fourier transform infrared and (1)H NMR spectroscopy.

    abstract：:Factor B is a key component of the alternative pathway of complement and is cleaved by factor D into the Ba and Bb fragments when complexed with the activated form of C3, namely C3b. The Bb fragment contains a von Willebrand factor type A (vWF-A) domain, which is composed of an open twisted almost-parallel beta-sheet ...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2000.3632

    authors： Hinshelwood J,Perkins SJ

    更新日期：2000-04-21 00:00:00

  • Structure of a Ca(2+)/CaM:Kv7.4 (KCNQ4) B-helix complex provides insight into M current modulation.

    abstract：:Calmodulin (CaM) is an important regulator of Kv7.x (KCNQx) voltage-gated potassium channels. Channels from this family produce neuronal M currents and cardiac and auditory I(KS) currents and harbor mutations that cause arrhythmias, epilepsy, and deafness. Despite extensive functional characterization, biochemical and...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2012.11.023

    authors： Xu Q,Chang A,Tolia A,Minor DL Jr

    更新日期：2013-01-23 00:00:00

  • Effect of flap mutations on structure of HIV-1 protease and inhibition by saquinavir and darunavir.

    abstract：:HIV-1 (human immunodeficiency virus type 1) protease (PR) and its mutants are important antiviral drug targets. The PR flap region is critical for binding substrates or inhibitors and catalytic activity. Hence, mutations of flap residues frequently contribute to reduced susceptibility to PR inhibitors in drug-resistan...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2008.05.062

    authors： Liu F,Kovalevsky AY,Tie Y,Ghosh AK,Harrison RW,Weber IT

    更新日期：2008-08-01 00:00:00

  • tRNA structure and ribosomal function. I. tRNA nucleotide 27-43 mutations enhance first position wobble.

    abstract：:Transfer RNA su7 G36 is a derivative of tRNA(Trp) with a 3'GUC anticodon complementary to the glutamine codon CAG. This tRNA requires a normally forbidden G-U wobble at the first codon position to suppress a UAG (amber) termination codon. Measurement of amber suppression by mutated su7 G36 tRNAs and correction for tRN...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1994.1095

    authors： Schultz DW,Yarus M

    更新日期：1994-02-04 00:00:00

  • Organization and evolution of repeated DNA sequences in closely related plant genomes.

    abstract：:In common with many other eukaryotic species, the genomes of species in the genus Allium contain a high proportion of repeated DNA sequences, which may be implicated in the considerable differences in genome size that are seen between even very closely related species. The gross organization of repetitive sequences wi...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/s0022-2836(83)80189-2

    authors： Evans IJ,James AM,Barnes SR

    更新日期：1983-11-15 00:00:00

  • Regulation of mating-type information in yeast. Negative control requiring sequences both 5' and 3' to the regulated region.

    abstract：:The genome of the yeast Saccharomyces cerevisiae contains three complete copies of the genetic information governing cell mating type. Normally, only the information in one of the copies (the MAT locus) is expressed; the other two copies (HML and HMR) are repressed and serve as donors of mating-type sequences that can...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/0022-2836(84)90492-3

    authors： Abraham J,Nasmyth KA,Strathern JN,Klar AJ,Hicks JB

    更新日期：1984-07-05 00:00:00

  • Functional determinants of the Epstein-Barr virus protease.

    abstract：:Herpesvirus proteases are essential for the production of progeny virus. They cleave the assembly protein that fills the immature capsid in order to make place for the viral DNA. The recombinant protease of the human gamma-herpesvirus Epstein-Barr virus (EBV) was expressed in Escherichia coli and purified. Circular di...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.2001.4854

    authors： Buisson M,Valette E,Hernandez JF,Baudin F,Ebel C,Morand P,Seigneurin JM,Arlaud GJ,Ruigrok RW

    更新日期：2001-08-03 00:00:00

  • Regulation of the Caenorhabditis elegans gut cysteine protease gene cpr-1: requirement for GATA motifs.

    abstract：:Expression of the Caenorhabditis elegans cysteine protease gene cpr-1 is regulated both spatially and temporally. In situ hybridisation and Northern blot analysis have shown that this gene is expressed exclusively in gut cells of all developmental stages except the embryo. We now show by transgenic transformation with...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1998.2093

    authors： Britton C,McKerrow JH,Johnstone IL

    更新日期：1998-01-01 00:00:00

  • Alternative oligomeric states of the yeast Rvb1/Rvb2 complex induced by histidine tags.

    abstract：:Rvb1 and Rvb2 are essential AAA(+) (ATPases associated with diverse cellular activities) helicases, which are important components of critical complexes such as chromatin remodeling and telomerase complexes. The oligomeric state of the Rvb proteins has been controversial. Independent studies from several groups have d...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2010.10.003

    authors： Cheung KL,Huen J,Kakihara Y,Houry WA,Ortega J

    更新日期：2010-12-03 00:00:00

  • The EGF-like protein dlk1 inhibits notch signaling and potentiates adipogenesis of mesenchymal cells.

    abstract：:The EGF-like homeotic gene Dlk1 appears to function as an inhibitor of adipogenesis. Overexpression of Dlk1 prevents adipogenesis of 3T3-L1 cells. Dlk1-deficient mice are obese; however, adipose tissue still develops in Fc-dlk1 transgenic mice, suggesting that Dlk1 is not a strict inhibitor of adipogenesis. To clarify...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1016/j.jmb.2006.10.043

    authors： Nueda ML,Baladrón V,Sánchez-Solana B,Ballesteros MA,Laborda J

    更新日期：2007-04-13 00:00:00

  • Solution structure of an EGF module pair from the Plasmodium falciparum merozoite surface protein 1.

    abstract：:The solution structure of the 96-residue C-terminal fragment of the merozoite surface protein 1 (MSP-1) from Plasmodium falciparum has been determined using nuclear magnetic resonance (NMR) spectroscopic measurements on uniformly13C/15N-labelled protein, efficiently expressed in the methylotrophic yeast Komagataella (...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1999.2753

    authors： Morgan WD,Birdsall B,Frenkiel TA,Gradwell MG,Burghaus PA,Syed SE,Uthaipibull C,Holder AA,Feeney J

    更新日期：1999-05-28 00:00:00

  • The GTP-binding domain of McrB: more than just a variation on a common theme?

    abstract：:The methylation-dependent restriction endonuclease McrBC from Escherichia coli K12 cleaves DNA containing two R(m)C dinucleotides separated by about 40 to 2000 base-pairs. McrBC is unique in that cleavage is totally dependent on GTP hydrolysis. McrB is the GTP binding and hydrolyzing subunit, whereas MrC stimulates it...

    journal_title：Journal of molecular biology

    pub_type： 杂志文章

    doi：10.1006/jmbi.1999.3103

    authors： Pieper U,Schweitzer T,Groll DH,Gast FU,Pingoud A

    更新日期：1999-09-24 00:00:00