Zoya Ignatova

Zoya Ignatova

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Zoya Ignatova

Zoya Ignatova

Publications by authors named "Zoya Ignatova"

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66Publications

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Structure of a hibernating 100S ribosome reveals an inactive conformation of the ribosomal protein S1.

Nat Microbiol 2018 Sep 3. Epub 2018 Sep 3.

Institute for Biochemistry and Molecular Biology, University of Hamburg, Hamburg, Germany.

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September 2018

Timing during translation matters: synonymous mutations in human pathologies influence protein folding and function.

Biochem Soc Trans 2018 Aug 31;46(4):937-944. Epub 2018 Jul 31.

Institute of Biochemistry and Molecular Biology, University of Hamburg, Hamburg 20146, Germany

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August 2018

The RNA-binding protein Hfq is important for ribosome biogenesis and affects translation fidelity.

EMBO J 2018 Jun 18;37(11). Epub 2018 Apr 18.

Instituto de Tecnologia Química e Biológica António Xavier, Universidade Nova de Lisboa, Oeiras, Portugal

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June 2018

Examining tRNA 3'-ends in : teamwork between CCA-adding enzyme, RNase T, and RNase R.

RNA 2018 03 27;24(3):361-370. Epub 2017 Nov 27.

Institute for Biochemistry, Leipzig University, Leipzig 04103, Germany.

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March 2018

Growth-Rate Dependent Regulation of tRNA Level and Charging in Bacillus licheniformis.

J Mol Biol 2017 Oct 14;429(20):3102-3112. Epub 2017 Sep 14.

Biochemistry and Molecular Biology, Department of Chemistry, University of Hamburg, Hamburg, Germany. Electronic address:

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October 2017

Alteration of protein function by a silent polymorphism linked to tRNA abundance.

PLoS Biol 2017 May 16;15(5):e2000779. Epub 2017 May 16.

Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany.

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May 2017

Systematic probing of the bacterial RNA structurome to reveal new functions.

Curr Opin Microbiol 2017 Apr 1;36:14-19. Epub 2017 Feb 1.

Department of Microbial Biology, Ruhr University Bochum, Bochum, Germany. Electronic address:

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April 2017

Competition for amino acid flux among translation, growth and detoxification in bacteria.

RNA Biol 2017 Mar 15:1-4. Epub 2017 Mar 15.

a Institute of Biochemistry and Molecular Biology, University of Hamburg , Germany.

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March 2017

Rewiring host activities for synthetic circuit production: a translation view.

Biotechnol Lett 2017 Jan 4;39(1):25-31. Epub 2016 Oct 4.

Biochemistry and Molecular Biology, Department of Chemistry, University of Hamburg, Hamburg, Germany.

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January 2017

Insights into the adaptive response of Arabidopsis thaliana to prolonged thermal stress by ribosomal profiling and RNA-Seq.

BMC Plant Biol 2016 10 10;16(1):221. Epub 2016 Oct 10.

Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany.

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October 2016

Discharging tRNAs: a tug of war between translation and detoxification in Escherichia coli.

Nucleic Acids Res 2016 09 9;44(17):8324-34. Epub 2016 Aug 9.

Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14467 Potsdam, Germany Biochemistry and Molecular Biology, University of Hamburg, Martin-Luther-King-Pl. 6, 20146 Hamburg, Germany

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September 2016

An Expanded CAG Repeat in Huntingtin Causes +1 Frameshifting.

J Biol Chem 2016 08 5;291(35):18505-13. Epub 2016 Jul 5.

From the Institute of Biochemistry, University of Potsdam, 14467 Potsdam, Germany, Biochemistry and Molecular Biology, Department of Chemistry, University of Hamburg, 20146 Hamburg, Germany,

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August 2016

A Minimal Model of Ribosome Allocation Dynamics Captures Trade-offs in Expression between Endogenous and Synthetic Genes.

ACS Synth Biol 2016 07 3;5(7):710-20. Epub 2016 May 3.

Biochemistry, Institute of Biochemistry and Biology, University of Potsdam , 14476 Potsdam, Germany.

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July 2016

Probing dimensionality beyond the linear sequence of mRNA.

Curr Genet 2016 May 9;62(2):331-4. Epub 2015 Dec 9.

Biochemistry and Molecular Biology, Department of Chemistry, University of Hamburg, Hamburg, Germany.

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May 2016

Bacteria differently regulate mRNA abundance to specifically respond to various stresses.

Philos Trans A Math Phys Eng Sci 2016 03;374(2063)

Department of Biochemsitry, University of Potsdam, Karl-Liebknecht-Straße 24-25, Potsdam 14476, Germany Institute for Biochemsitry and Molecular Biology, Department of Chemistry, University of Hamburg, Martin-Luther-King-Platz 6, Hamburg 20146, Germany

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March 2016

Optimization of translation profiles enhances protein expression and solubility.

PLoS One 2015 12;10(5):e0127039. Epub 2015 May 12.

Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany; Biochemistry, Department of Chemistry and Biochemistry, University of Hamburg, Hamburg, Germany.

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February 2016

Quantifying the 'escapers' among RNA species.

Biochem Soc Trans 2015 Dec;43(6):1215-20

Biochemistry and Molecular Biology, Dept. of Chemistry and Biochemistry, University of Hamburg, Hamburg 20146, Germany

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December 2015

Tuning innate immunity by translation.

Biochem Soc Trans 2015 Dec;43(6):1247-52

Biochemistry and Molecular Biology, Dept. of Chemistry and Biochemistry, University of Hamburg, Hamburg 20146, Germany

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December 2015

Secondary Structure across the Bacterial Transcriptome Reveals Versatile Roles in mRNA Regulation and Function.

PLoS Genet 2015 Oct 23;11(10):e1005613. Epub 2015 Oct 23.

Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany; Biochemistry and Molecular Biology, Department of Chemistry and Biochemistry, University of Hamburg, Hamburg, Germany.

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October 2015

Somatic expression of unc-54 and vha-6 mRNAs declines but not pan-neuronal rgef-1 and unc-119 expression in aging Caenorhabditis elegans.

Sci Rep 2015 Jun 2;5:10692. Epub 2015 Jun 2.

1] Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany [2] Biochemistry, and Molecular Biology, Dept of Chemistry, University of Hamburg, Hamburg, Germany.

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June 2015

A flexible approach to assess fluorescence decay functions in complex energy transfer systems.

BMC Biophys 2015 3;8. Epub 2015 Apr 3.

Biochemistry and Biology, University of Potsdam, Potsdam, Germany ; Biochemistry and Molecular Biology, University of Hamburg, Hamburg, Germany.

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April 2015

Trade-offs between tRNA abundance and mRNA secondary structure support smoothing of translation elongation rate.

Nucleic Acids Res 2015 Mar 12;43(6):3022-32. Epub 2015 Mar 12.

DSM Biotechnology Center, P.O. Box 1, 2600 MA Delft, The Netherlands.

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March 2015

Emerging roles of tRNA in adaptive translation, signalling dynamics and disease.

Nat Rev Genet 2015 Feb 23;16(2):98-112. Epub 2014 Dec 23.

1] Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Strasse 24-25, 14476 Potsdam, Germany. [2] Institute of Biochemistry and Molecular Biology, University of Hamburg, Martin-Luther-King-Platz 6, 20146 Hamburg, Germany.

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February 2015

Systematic identification of tRNAome and its dynamics in Lactococcus lactis.

Mol Microbiol 2014 Sep 6;93(5):944-56. Epub 2014 Aug 6.

Department of Biochemistry, Groningen Biomolecular Sciences and Biotechnology Institute, Netherlands Proteomics Centre & Zernike Institute for Advanced Materials, University of Groningen, Nijenborgh 4, 9747 AG, Groningen, The Netherlands.

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September 2014

Architecture of polyglutamine-containing fibrils from time-resolved fluorescence decay.

J Biol Chem 2014 Sep 4;289(39):26817-28. Epub 2014 Aug 4.

From the Institute of Biochemistry and Biologie and

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September 2014

GPER functions as a tumor suppressor in triple-negative breast cancer cells.

J Cancer Res Clin Oncol 2014 May 20;140(5):713-23. Epub 2014 Feb 20.

Department of Obstetrics and Gynecology, University of Magdeburg, Gerhart-Hauptmann Str 35, Magdeburg, Germany.

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May 2014

Interplay between polymerase II- and polymerase III-assisted expression of overlapping genes.

FEBS Lett 2013 Nov 7;587(22):3692-5. Epub 2013 Oct 7.

Department of Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14476 Potsdam, Germany; Department of Molecular Biology, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14476 Potsdam, Germany.

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November 2013

Reversible and rapid transfer-RNA deactivation as a mechanism of translational repression in stress.

PLoS Genet 2013 Aug 29;9(8):e1003767. Epub 2013 Aug 29.

Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany.

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August 2013

Efficient translation initiation dictates codon usage at gene start.

Mol Syst Biol 2013 Jun 18;9:675. Epub 2013 Jun 18.

Institute for Theoretical Biology, Humboldt Universität zu Berlin, Berlin, Germany.

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June 2013

Depletion of cognate charged transfer RNA causes translational frameshifting within the expanded CAG stretch in huntingtin.

Cell Rep 2013 Jan 24;3(1):148-59. Epub 2013 Jan 24.

Department of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14476 Potsdam, Germany.

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January 2013

tRNA concentration fine tunes protein solubility.

FEBS Lett 2012 Sep 20;586(19):3336-40. Epub 2012 Jul 20.

Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany.

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September 2012

Assessing polyglutamine conformation in the nucleating event by molecular dynamics simulations.

J Phys Chem B 2012 Aug 16;116(34):10259-65. Epub 2012 Aug 16.

Institute of Biochemistry and Biology, University of Potsdam , Karl-Liebknecht-Str. 24-25, 14476 Potsdam, Germany.

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August 2012

FANSe: an accurate algorithm for quantitative mapping of large scale sequencing reads.

Nucleic Acids Res 2012 Jun 29;40(11):e83. Epub 2012 Feb 29.

Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14467 Potsdam, Germany.

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June 2012

Crystallization and X-ray structure analysis of a thermostable penicillin G acylase from Alcaligenes faecalis.

Acta Crystallogr Sect F Struct Biol Cryst Commun 2012 Mar 15;68(Pt 3):273-7. Epub 2012 Feb 15.

Division of Biochemical Sciences, National Chemical Laboratory, Pune 411 008, India.

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March 2012

Polyglutamine expansion alters the dynamics and molecular architecture of aggregates in dentatorubropallidoluysian atrophy.

J Biol Chem 2012 Jan 1;287(3):2068-78. Epub 2011 Dec 1.

Institute of Biochemistry and Biology, University of Potsdam, 14467 Potsdam, Germany.

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January 2012

Different sequence signatures in the upstream regions of plant and animal tRNA genes shape distinct modes of regulation.

Nucleic Acids Res 2011 Apr 7;39(8):3331-9. Epub 2010 Dec 7.

Department of Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str 24-25, 14476 Potsdam, Potsdam, Germany.

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April 2011

Length-dependent translation of messenger RNA by ribosomes.

Phys Rev E Stat Nonlin Soft Matter Phys 2011 Apr 21;83(4 Pt 1):042903. Epub 2011 Apr 21.

Max Planck Institute of Colloids and Interfaces, Department of Theory and Bio-Systems, D-14424 Potsdam, Germany.

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April 2011

Natural osmolytes remodel the aggregation pathway of mutant huntingtin exon 1.

Biochemistry 2011 Mar 20;50(12):2048-60. Epub 2011 Feb 20.

Department of Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Strasse 24-25, 14467 Potsdam, Germany.

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March 2011

Folding at the birth of the nascent chain: coordinating translation with co-translational folding.

Curr Opin Struct Biol 2011 Feb 24;21(1):25-31. Epub 2010 Nov 24.

Department of Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str. 24-25, 14467 Potsdam, Germany.

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February 2011

Silent mutations in sight: co-variations in tRNA abundance as a key to unravel consequences of silent mutations.

Mol Biosyst 2010 Oct 9;6(10):1767-72. Epub 2010 Jul 9.

Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Karl-Liebknecht-Str 24-25, 14467 Potsdam-Golm, Germany.

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October 2010

Global and local depletion of ternary complex limits translational elongation.

Nucleic Acids Res 2010 Aug 31;38(14):4778-87. Epub 2010 Mar 31.

Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Potsdam, Germany.

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August 2010

Improved A. faecalis penicillin amidase mutant retains the thermodynamic and pH stability of the wild type enzyme.

Protein J 2010 Apr;29(3):181-7

Institute of Technical Biocatalysis, Hamburg University of Technology, Denickestr. 15, 21073, Hamburg, Germany.

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April 2010

Exploiting the features of the finite state automata for biomolecular computing.

Recent Pat DNA Gene Seq 2009 ;3(2):130-8

Institute of Computer Technology, Hamburg University of Technology, Germany.

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September 2009

Generic algorithm to predict the speed of translational elongation: implications for protein biogenesis.

PLoS One 2009 3;4(4):e5036. Epub 2009 Apr 3.

Department of Biochemistry, Institute of Biochemistry and Biology, University of Potsdam, Potsdam-Golm, Germany.

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May 2009

An autonomous DNA model for finite state automata.

Int J Bioinform Res Appl 2009 ;5(1):81-96

Institute of Computer Technology, Hamburg University of Technology, Hamburg 21073, Germany.

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April 2009

A method for direct measurement of protein stability in vivo.

Methods Mol Biol 2009 ;490:165-78

Cellular Biochemistry, Institute of Biology and Biochemistry, University of Potsdam, Potsdam-Golm, Germany.

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March 2009

Transient ribosomal attenuation coordinates protein synthesis and co-translational folding.

Nat Struct Mol Biol 2009 Mar 8;16(3):274-80. Epub 2009 Feb 8.

Department of Cellular Biochemistry, Max-Planck-Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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March 2009

Chapter 3: A fluorescent window into protein folding and aggregation in cells.

Methods Cell Biol 2008 ;89:59-70

Department of Biochemistry, Institute of Biology and Biochemistry, University of Potsdam, Potsdam-Golm, Germany.

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February 2009

Orthogonal cross-seeding: an approach to explore protein aggregates in living cells.

Biochemistry 2008 Apr 11;47(14):4196-200. Epub 2008 Mar 11.

Max Planck Institute of Biochemistry, Am Klopferspitz 18, 82152 Martinsried, Germany.

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April 2008

In-cell aggregation of a polyglutamine-containing chimera is a multistep process initiated by the flanking sequence.

J Biol Chem 2007 Dec 17;282(50):36736-43. Epub 2007 Oct 17.

Max Planck Institute of Biochemistry, Am Klopferspitz 18, Martinsried 82152, Germany.

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December 2007

Effects of osmolytes on protein folding and aggregation in cells.

Methods Enzymol 2007 ;428:355-72

Max Planck Institute for Biochemistry, Martinsried, Germany.

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November 2007

Computational genes: a tool for molecular diagnosis and therapy of aberrant mutational phenotype.

BMC Bioinformatics 2007 Sep 28;8:365. Epub 2007 Sep 28.

Institute of Computer Technology, Hamburg University of Technology, Hamburg 21073, Germany.

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September 2007

Inhibition of protein aggregation in vitro and in vivo by a natural osmoprotectant.

Proc Natl Acad Sci U S A 2006 Sep 9;103(36):13357-61. Epub 2006 Aug 9.

Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, MA 01003, USA.

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September 2006

Extended polyglutamine tracts cause aggregation and structural perturbation of an adjacent beta barrel protein.

J Biol Chem 2006 May 8;281(18):12959-67. Epub 2006 Mar 8.

Department of Biochemistry & Molecular Biology, University of Massachusetts, Amherst, Massachusetts 01003, USA.

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May 2006

Effect of the increased stability of the penicillin amidase mRNA on the protein expression levels.

FEBS Lett 2005 Sep;579(22):5069-73

Instituto de Tecnologia Química e Biológica, Universidade Nova de Lisboa, Apartado 127, 2781-901 Oeiras, Portugal.

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September 2005

Monitoring protein stability in vivo.

Authors:
Zoya Ignatova

Microb Cell Fact 2005 Aug 24;4:23. Epub 2005 Aug 24.

Biotechnologie II, Technische Universität Hamburg-Harburg, Denickestr. 15, 21073 Hamburg, Germany.

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August 2005

Pro-sequence and Ca2+-binding: implications for folding and maturation of Ntn-hydrolase penicillin amidase from E. coli.

J Mol Biol 2005 May;348(4):999-1014

Institute of Biotechnology II, Technical University Hamburg-Harburg, Denickestr. 15, 21073 Hamburg, Germany.

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May 2005

Aggregation of a slow-folding mutant of a beta-clam protein proceeds through a monomeric nucleus.

Biochemistry 2005 May;44(19):7266-74

Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, Massachusetts 01003, USA.

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May 2005

Monitoring protein stability and aggregation in vivo by real-time fluorescent labeling.

Proc Natl Acad Sci U S A 2004 Jan 30;101(2):523-8. Epub 2003 Dec 30.

Department of Biochemistry and Molecular Biology, University of Massachusetts, Amherst, MA 01003, USA.

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January 2004

Fragments of pro-peptide activate mature penicillin amidase of Alcaligenes faecalis.

Eur J Biochem 2003 Dec;270(23):4721-8

Institute of Biotechnology II, Technical University Hamburg-Harburg, Hamburg, Germany.

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December 2003

Unusual signal peptide directs penicillin amidase from Escherichia coli to the Tat translocation machinery.

Biochem Biophys Res Commun 2002 Feb;291(1):146-9

Institut für Biotecnologie II, Technische Universität Hamburg-Harburg, Denickestrasse 15, Hamburg, 21073, Germany.

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February 2002