translational peptide chain elongation

Summary

Summary: A process of GENETIC TRANSLATION, when an amino acid is transferred from its cognate TRANSFER RNA to the lengthening chain of PEPTIDES.

Top Publications

  1. pmc Nascent peptide-mediated translation elongation arrest coupled with mRNA degradation in the CGS1 gene of Arabidopsis
    Hitoshi Onouchi
    Division of Applied Bioscience, Graduate School of Agriculture, Hokkaido University, Sapporo 060 8589, Japan
    Genes Dev 19:1799-810. 2005
  2. pmc Hypusine-containing protein eIF5A promotes translation elongation
    Preeti Saini
    Laboratory of Gene Regulation and Development, NICHD, National Institutes of Health, Bethesda, Maryland 20892, USA
    Nature 459:118-21. 2009
  3. pmc Ribosome kinetics and aa-tRNA competition determine rate and fidelity of peptide synthesis
    Aaron Fluitt
    Department of Chemical Engineering, University of Nebraska, Lincoln, NE 68588, USA
    Comput Biol Chem 31:335-46. 2007
  4. ncbi eIF5A has a function in the elongation step of translation in yeast
    Ana P B Gregio
    Department of Biological Sciences, School of Pharmaceutical Sciences, Sao Paulo State University UNESP, Faculdade de Ciencias Farmaceuticas, Rodovia Araraquara Jaú, km 01, Araraquara, SP 14801 902, Brazil
    Biochem Biophys Res Commun 380:785-90. 2009
  5. pmc Dominant-negative mutant phenotypes and the regulation of translation elongation factor 2 levels in yeast
    Pedro A Ortiz
    Department of Molecular Genetics, Microbiology and Immunology, UMDNJ Robert Wood Johnson Medical School 675 Hoes Lane, Piscataway, NJ 08854 5635, USA
    Nucleic Acids Res 33:5740-8. 2005
  6. pmc Identification of a soluble protein that stimulates peptide bond synthesis
    B R Glick
    Proc Natl Acad Sci U S A 72:4257-60. 1975
  7. pmc Protein synthesis by single ribosomes
    Francesco Vanzi
    Pennsylvania Muscle Institute, University of Pennsylvania, Philadelphia, Pennsylvania 19104 6083, USA
    RNA 9:1174-9. 2003
  8. ncbi Structure of the signal recognition particle interacting with the elongation-arrested ribosome
    Mario Halic
    Institute of Biochemistry, Charite, University Medical School, Humboldt University of Berlin, Monbijoustrasse 2, 10117 Berlin, Germany
    Nature 427:808-14. 2004
  9. ncbi The role of tRNA as a molecular spring in decoding, accommodation, and peptidyl transfer
    Joachim Frank
    Howard Hughes Medical Institute, Post Office Box 509, Albany, New York 12201 0509, USA
    FEBS Lett 579:959-62. 2005
  10. pmc EF-G-independent reactivity of a pre-translocation-state ribosome complex with the aminoacyl tRNA substrate puromycin supports an intermediate (hybrid) state of tRNA binding
    Divya Sharma
    Howard Hughes Medical Institute, Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA
    RNA 10:102-13. 2004

Research Grants

  1. AUTOMATED DNA ANALYSIS SYSTEM
    TERRI KINZY; Fiscal Year: 2001
  2. Development of selenomethionine resistant yeast
    TERRI KINZY; Fiscal Year: 2007
  3. Structure of Eukaryotic Translation Elongation Factor 1
    TERRI KINZY; Fiscal Year: 2004
  4. Mechanism of ribosomal subunit joining in eukaryotes
    Tatyana Pestova; Fiscal Year: 2005
  5. Structure Function Studies of DNA Mismatch Repair
    Dorothy A Erie; Fiscal Year: 2010
  6. Translational control of LTP
    EMMANUEL LANDAU; Fiscal Year: 2007
  7. Mechanistic studies of DNA repair and damage response
    Dorothy A Erie; Fiscal Year: 2010
  8. MECHANISM OF INITIATION OF PROTEIN BIOSYNTHESIS
    JOHN HERSHEY; Fiscal Year: 2004
  9. REVERSE TRANSCRIPTASE AND OTHER HIV MOLECULAR STRUCTURES
    Thomas Steitz; Fiscal Year: 2002
  10. BIOPHYSICAL AND SCANNING FORCE MICROSCOPY STUDIES
    DOROTHY ERIE; Fiscal Year: 2001

Detail Information

Publications152 found, 100 shown here

  1. pmc Nascent peptide-mediated translation elongation arrest coupled with mRNA degradation in the CGS1 gene of Arabidopsis
    Hitoshi Onouchi
    Division of Applied Bioscience, Graduate School of Agriculture, Hokkaido University, Sapporo 060 8589, Japan
    Genes Dev 19:1799-810. 2005
    ..Furthermore, our data suggest that the ribosome stalls at the step of translocation rather than at the step of peptidyl transfer...
  2. pmc Hypusine-containing protein eIF5A promotes translation elongation
    Preeti Saini
    Laboratory of Gene Regulation and Development, NICHD, National Institutes of Health, Bethesda, Maryland 20892, USA
    Nature 459:118-21. 2009
    ..Because eIF5A is a structural homologue of the bacterial protein EF-P, we propose that eIF5A/EF-P is a universally conserved translation elongation factor...
  3. pmc Ribosome kinetics and aa-tRNA competition determine rate and fidelity of peptide synthesis
    Aaron Fluitt
    Department of Chemical Engineering, University of Nebraska, Lincoln, NE 68588, USA
    Comput Biol Chem 31:335-46. 2007
    ..06ms and the average delay to process a near-cognate aa-tRNA is 10.45ms and (vii) the model also provides estimates of the vacancy times of the A site of the ribosome - an important factor in frameshifting...
  4. ncbi eIF5A has a function in the elongation step of translation in yeast
    Ana P B Gregio
    Department of Biological Sciences, School of Pharmaceutical Sciences, Sao Paulo State University UNESP, Faculdade de Ciencias Farmaceuticas, Rodovia Araraquara Jaú, km 01, Araraquara, SP 14801 902, Brazil
    Biochem Biophys Res Commun 380:785-90. 2009
    ..Taken together, these results not only reinforce a role for eIF5A in translation but also strongly support a function for eIF5A in the elongation step of protein synthesis...
  5. pmc Dominant-negative mutant phenotypes and the regulation of translation elongation factor 2 levels in yeast
    Pedro A Ortiz
    Department of Molecular Genetics, Microbiology and Immunology, UMDNJ Robert Wood Johnson Medical School 675 Hoes Lane, Piscataway, NJ 08854 5635, USA
    Nucleic Acids Res 33:5740-8. 2005
    ..The observed regulation suggests that the cell needs an optimum amount of active eEF2 to grow properly. This provides information about a new mechanism by which translation is efficiently maintained...
  6. pmc Identification of a soluble protein that stimulates peptide bond synthesis
    B R Glick
    Proc Natl Acad Sci U S A 72:4257-60. 1975
    ..We suggest that this extraribosomal factor modulates the intrinsic activity of ribosomes to catalyze peptide-bond synthesis, and regard it as a new factor required for peptide chain elongation, which we call EF-P...
  7. pmc Protein synthesis by single ribosomes
    Francesco Vanzi
    Pennsylvania Muscle Institute, University of Pennsylvania, Philadelphia, Pennsylvania 19104 6083, USA
    RNA 9:1174-9. 2003
    ..This work opens the way for application of biophysical techniques, originally developed for the classical motor proteins, to the understanding of protein biosynthesis...
  8. ncbi Structure of the signal recognition particle interacting with the elongation-arrested ribosome
    Mario Halic
    Institute of Biochemistry, Charite, University Medical School, Humboldt University of Berlin, Monbijoustrasse 2, 10117 Berlin, Germany
    Nature 427:808-14. 2004
    ....
  9. ncbi The role of tRNA as a molecular spring in decoding, accommodation, and peptidyl transfer
    Joachim Frank
    Howard Hughes Medical Institute, Post Office Box 509, Albany, New York 12201 0509, USA
    FEBS Lett 579:959-62. 2005
    ..Recent findings show that the tRNA structure itself undergoes large conformational changes as well, and that the decoding process must be seen as a complex dynamic interplay between tRNA and the ribosome...
  10. pmc EF-G-independent reactivity of a pre-translocation-state ribosome complex with the aminoacyl tRNA substrate puromycin supports an intermediate (hybrid) state of tRNA binding
    Divya Sharma
    Howard Hughes Medical Institute, Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA
    RNA 10:102-13. 2004
    ..These data establish that pre-translocation-state ribosomes must sample or reside in an intermediate state of tRNA binding independent of the action of EF-G...
  11. ncbi Intraribosomal regulation of expression and fate of proteins
    Hitoshi Nakatogawa
    Institute for Virus Research, Kyoto University, Kyoto 606 8507, Japan
    Chembiochem 5:48-51. 2004
    ..These properties of nascent proteins can in turn provide regulatory mechanisms by which the expression of genetic information at different levels is regulated...
  12. ncbi Translation elongation factor 2 anticodon mimicry domain mutants affect fidelity and diphtheria toxin resistance
    Pedro A Ortiz
    Department of Molecular Genetics, Microbiology and Immunology, University of Medicine and Dentistry of New Jersey, Robert Wood Johnson Medical School, 675 Hoes Lane, Piscataway, NJ 08854 5635, USA
    J Biol Chem 281:32639-48. 2006
    ....
  13. pmc Cryo-EM reveals an active role for aminoacyl-tRNA in the accommodation process
    Mikel Valle
    Howard Hughes Medical Institute, Health Research, Inc, Empire State Plaza, Albany, NY 12201 0509, USA
    EMBO J 21:3557-67. 2002
    ....
  14. pmc Identification of molecular interactions between P-site tRNA and the ribosome essential for translocation
    J S Feinberg
    Department of Chemistry and Biochemistry, University of California at San Diego, La Jolla, CA 92093 0314, USA
    Proc Natl Acad Sci U S A 98:11120-5. 2001
    ..These results establish a set of functional interactions between P-site tRNA and 23S rRNA that are essential for translocation...
  15. ncbi eIF5A binds to translational machinery components and affects translation in yeast
    Cleslei F Zanelli
    Department of Biological Sciences, School of Pharmaceutical Sciences, Sao Paulo State University UNESP, Araraquara, SP 14801 902, Brazil
    Biochem Biophys Res Commun 348:1358-66. 2006
    ..Our results re-establish a function for eIF5A in translation and suggest a role for this factor in translation elongation instead of translation initiation...
  16. ncbi Role of yeast elongation factor 3 in the elongation cycle
    A Kamath
    Department of Biochemistry, Medical College of Wisconsin, Milwaukee 53226
    J Biol Chem 264:15423-8. 1989
    ..and Kamath, A. (1988) Int. J. Biochem. 20, 581-590). However, we failed to demonstrate the effect of EF-3 in binding aa-tRNA to such a heterologous combination of the ribosomal subunits...
  17. ncbi Ribosome structure and the mechanism of translation
    V Ramakrishnan
    MRC Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH, United Kingdom
    Cell 108:557-72. 2002
    ..This review is an attempt to correlate the structures with biochemical and genetic data to identify the gaps and limits in our current knowledge of the mechanisms involved in translation...
  18. pmc Heterologous complementation reveals that mutant alleles of QSR1 render 60S ribosomal subunits unstable and translationally inactive
    F A Dick
    Department of Biochemistry, Dartmouth Medical School, Hanover, NH 03755, USA
    Nucleic Acids Res 26:2442-8. 1998
    ..Velocity gradient analyses of the hybrid ribosomes after exposure to high concentrations of salt indicate that the decreased activity is due to lability of the hybrid 60S subunits...
  19. ncbi Short pyrimidine stretches containing mixed base PNAs are versatile tools to induce translation elongation arrest and truncated protein synthesis
    Catherine Senamaud-Beaufort
    Laboratoire de Biophysique, Museum national d histoire naturelle, INSERM 5153, CNRS UMR 8646, 75231, Paris, France
    Oligonucleotides 13:465-78. 2003
    ..The remarkable efficacy of the tridecamer PNAs in arresting translation elongation of HIV-1 integrase mRNA is explained by their ability to form stable triplexes at neutral pH with short purine sequences...
  20. ncbi Hydrolysis of GTP by elongation factor G drives tRNA movement on the ribosome
    M V Rodnina
    Institute of Molecular Biology, University of Witten Herdecke, Germany
    Nature 385:37-41. 1997
    ..By coupling the free energy of GTP hydrolysis to translocation, EF-G serves as a motor protein to drive the directional movement of transfer and messenger RNAs on the ribosome...
  21. pmc Divergent tRNA-like element supports initiation, elongation, and termination of protein biosynthesis
    Eric Jan
    Department of Microbiology and Immunology, Stanford University School of Medicine, 299 Campus Drive, Stanford, CA 94305, USA
    Proc Natl Acad Sci U S A 100:15410-5. 2003
    ..Thus, this P-site-occupying IRES directs the assembly of 80S ribosomes, sets the translational reading frame, and mimics the functions of both Met-tRNAi and peptidyl tRNA to support elongation and termination...
  22. ncbi Mammalian hibernation. Transcriptional and translational controls
    Kenneth B Storey
    Institute of Biochemistry, Carleton University, Ottawa, Ontario, Canada
    Adv Exp Med Biol 543:21-38. 2003
    ..Studies of gene expression, protein synthesis regulation, controls on fuel metabolism, and signal transduction pathways are combining to produce an integrated model of the biochemical regulation of hibernation...
  23. ncbi Conformational change in the 16S rRNA in the Escherichia coli 70S ribosome induced by P/P- and P/E-site tRNAPhe binding
    James W Noah
    Department of Molecular and Structural Biochemistry, North Carolina State University, Raleigh, North Carolina 27695 7622, USA
    Biochemistry 42:14386-96. 2003
    ....
  24. ncbi Ribosomal translocation: sparsomycin pushes the button
    Daniel R Southworth
    Howard Hughes Medical Institute, Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, MD 21205, USA
    Curr Biol 13:R652-4. 2003
  25. ncbi [Highly conserved region 1816-1831 of the 18S ribosomal RNA is close to the first nucleotide of the A-site codon in elongation and termination of translation]
    K N Bulygin
    Novosibirsk Institute of Bioorganic Chemistry, Siberian Division, Russian Academy of Sciences, Novosibirsk, 630090 Russia
    Mol Biol (Mosk) 37:486-93. 2003
    ....
  26. ncbi Antibiotics acting on the translational machinery
    Jörg M Harms
    Max Planck Arbeitsgruppe Ribosomenstruktur, Notkestr 85, 22607 Hamburg, Germany
    J Cell Sci 116:1391-3. 2003
  27. ncbi RNA polymerase II conducts a symphony of pre-mRNA processing activities
    Kenneth James Howe
    Department of Molecular and Cell Biology, University of California, Berkeley, CA 94720, USA
    Biochim Biophys Acta 1577:308-24. 2002
    ....
  28. ncbi Transcription attenuation
    Paul Gollnick
    Department of Biological Sciences, State University of New York, Buffalo, NY 14260, USA
    Biochim Biophys Acta 1577:240-50. 2002
    ..Finally, antisense RNA is involved in mediating transcription attenuation to control copy number of several plasmids...
  29. ncbi The many conformational states of RNA polymerase elongation complexes and their roles in the regulation of transcription
    Dorothy A Erie
    Department of Chemistry, University of North Carolina, Chapel Hill, NC 27599 3290, USA
    Biochim Biophys Acta 1577:224-39. 2002
    ..The role of each of the conformational states in elongation is then discussed in detail. Finally, an integrated mechanism of elongation is presented, bringing together the panoply of experiments...
  30. pmc Yhh1p/Cft1p directly links poly(A) site recognition and RNA polymerase II transcription termination
    Bernhard Dichtl
    Department of Cell Biology, Biozentrum, University of Basel, Klingelbergstrasse 70, CH 4056 Basel, Switzerland
    EMBO J 21:4125-35. 2002
    ..We propose that direct interactions of Yhh1p/Cft1p with both the RNA transcript and the CTD are required to communicate poly(A) site recognition to elongating pol II to initiate transcription termination...
  31. ncbi Two genetic circuits repress the Caenorhabditis elegans heterochronic gene lin-28 after translation initiation
    Kathy Seggerson
    Fox Chase Cancer Center, 7701 Burholme Avenue, Philadelphia, PA 19111, USA
    Dev Biol 243:215-25. 2002
    ..The role of lin-4 may be to initiate or potentiate the lin-4-independent circuit. We speculate that a parallel lin-4-independent regulatory mechanism regulates the expression of lin-14...
  32. pmc The major 5' determinant in stop codon read-through involves two adjacent adenines
    Sanaa Tork
    CNRS UMR 8621, Institut de Genetique et Microbiologie, Universite Paris Sud, 91405 Orsay Cedex, France
    Nucleic Acids Res 32:415-21. 2004
    ..We propose that the mRNA structure, depending on the nucleotides in the P site, is the main 5' determinant of read-through efficiency...
  33. pmc Deacylated tRNA is released from the E site upon A site occupation but before GTP is hydrolyzed by EF-Tu
    George Dinos
    Max Planck Institut für Molekulare Genetik AG Ribosomen, Ihnestrasse 73, D 14195 Berlin, Germany
    Nucleic Acids Res 33:5291-6. 2005
    ..Collectively these results reveal that the reciprocal linkage between the E and A sites affects the decoding center on the 30S subunit, but does not influence the rate of peptide-bond formation at the active center of the 50S subunit...
  34. ncbi The ribosome in focus: new structures bring new insights
    Andrei Korostelev
    Center for Molecular Biology of RNA and Department of Molecular, Cell and Developmental Biology, University of California, Santa Cruz, Santa Cruz, CA 95064, USA
    Trends Biochem Sci 32:434-41. 2007
    ..Clues to the structural dynamics of translation are suggested by conformational changes that occur in both tRNA and the ribosome upon complex formation...
  35. ncbi A conserved base-pair between tRNA and 23 S rRNA in the peptidyl transferase center is important for peptide release
    Jason S Feinberg
    Department of Chemistry and Biochemistry, University of California, San Diego, La Jolla, CA 92093 0314, USA
    J Mol Biol 364:1010-20. 2006
    ....
  36. pmc Prolyl-tRNA(Pro) in the A-site of SecM-arrested ribosomes inhibits the recruitment of transfer-messenger RNA
    Fernando Garza-Sánchez
    Department of Molecular, Cellular, and Developmental Biology, University of California, Santa Barbara, California 93106, USA
    J Biol Chem 281:34258-68. 2006
    ..Moreover, it seems likely that A-site mRNA cleavage is generally avoided or inhibited during regulated ribosome pauses...
  37. ncbi Elongation arrest by SecM via a cascade of ribosomal RNA rearrangements
    Kakoli Mitra
    Howard Hughes Medical Institute, Health Research, Inc, at the Wadsworth Center, Empire State Plaza, Albany, New York 12201, USA
    Mol Cell 22:533-43. 2006
    ..Thus, the ribosome may itself have the ability to regulate its progression through translation by modulating its structure and consequently its receptivity to activation by cofactors...
  38. pmc Chlorolissoclimides: new inhibitors of eukaryotic protein synthesis
    Francis Robert
    Department of Biochemistry, McGill University, Montreal, Quebec, Canada
    RNA 12:717-25. 2006
    ..These data provide a rationale for the cytotoxic nature of this class of small molecule natural products...
  39. ncbi Teaching resources. Regulation of protein translation
    Emmanuel M Landau
    Department of Psychiatry, Mount Sinai School of Medicine, New York, NY 10029, USA
    Sci STKE 2006:tr3. 2006
    ..The lecture concludes with the signaling mechanisms underlying translation regulation...
  40. pmc The hybrid state of tRNA binding is an authentic translation elongation intermediate
    Silke Dorner
    Howard Hughes Medical Institute, Department of Molecular Biology and Genetics, Johns Hopkins University School of Medicine, Baltimore, Maryland 21205, USA
    Nat Struct Mol Biol 13:234-41. 2006
    ....
  41. pmc Destabilization of the P site codon-anticodon helix results from movement of tRNA into the P/E hybrid state within the ribosome
    Kevin G McGarry
    Department of Microbiology, The Ohio State University, Columbus, Ohio 43210, USA
    Mol Cell 20:613-22. 2005
    ..The effects of G2252U are suppressed by C2394A, further implicating the P/E state in mRNA destabilization. This work uncovers a functional attribute of the P/E state crucial for understanding translation...
  42. pmc Function of the ribosomal E-site: a mutagenesis study
    Petr V Sergiev
    Department of Chemistry and A N Belozersky Institute of Physico Chemical Biology, Moscow State University, Moscow, 119899, Russia
    Nucleic Acids Res 33:6048-56. 2005
    ..The mutation affects formation of the P/E hybrid site and leads to a loss of stimulation of the multiple turnover GTPase activity of EF-G by deacylated tRNA bound to the ribosome...
  43. pmc Competition between trans-translation and termination or elongation of translation
    Krisana Asano
    Department of Biochemistry and Biotechnology, Faculty of Agriculture and Life Science, Hirosaki University, Hirosaki 036 8561, Japan
    Nucleic Acids Res 33:5544-52. 2005
    ....
  44. pmc Comparison of tRNA motions in the free and ribosomal bound structures
    Yongmei Wang
    Department of Chemistry, The University of Memphis, Memphis, TN 38152 3550, USA
    Biophys J 89:3399-409. 2005
    ..In summary, the ribosome exerts its control by enforcing rigidity in the functional parts of the tRNAs as well as in the mRNA...
  45. ncbi Reconstitution of eukaryotic translation elongation in vitro following initiation by internal ribosomal entry
    Tatyana V Pestova
    Department of Microbiology and Immunology, State University of New York, Brooklyn, NY, USA
    Methods 36:261-9. 2005
    ....
  46. pmc Dissecting eukaryotic translation and its control by ribosome density mapping
    Yoav Arava
    Howard Hughes Medical Institute, Stanford, CA 94305 5428, USA
    Nucleic Acids Res 33:2421-32. 2005
    ..These results provide new insights into eukaryotic translation in vivo...
  47. ncbi On the structural basis of peptide-bond formation and antibiotic resistance from atomic structures of the large ribosomal subunit
    Thomas A Steitz
    Department of Molecular Biophysics and Biochemistry, Yale University, and Howard Hughes Medical Institute, P O Box 208114, New Haven, CT 06520 8114, USA
    FEBS Lett 579:955-8. 2005
    ..The structure shows that the ribosome is indeed a ribozyme...
  48. ncbi From peptide-bond formation to cotranslational folding: dynamic, regulatory and evolutionary aspects
    David Baram
    Department of Structural Biology, The Weizmann Institute, 76100 Rehovot, Israel
    FEBS Lett 579:948-54. 2005
    ..Remarkably, although antibiotics discrimination is determined by the identity of a single nucleotide, involved also in resistance, additional nucleotides dictate antibiotics effectiveness...
  49. ncbi SsrA tagging of Escherichia coli SecM at its translation arrest sequence
    Justine Collier
    Laboratoire des Réseaux de Régulations et Biogenèse de l Enveloppe Bactérienne, Institut de Genetique et Microbiologie, Universite Paris Sud, CNRS, UMR8621, Batiment 400, F 91405 Orsay cedex, France
    J Biol Chem 279:54193-201. 2004
    ..Therefore, SsrA tagging of SecM would rescue ribosomes to avoid excessive jamming of the translation apparatus on stop-less secM mRNA...
  50. ncbi Coupling of ribosomal L1 stalk and tRNA dynamics during translation elongation
    Jingyi Fei
    Department of Chemistry, Columbia University, New York, NY 10027, USA
    Mol Cell 30:348-59. 2008
    ..Real-time smFRET experiments reveal that the L1 stalk-tRNA interaction persists throughout the translocation reaction, suggesting that the L1 stalk acts to direct tRNA movements during translocation...
  51. pmc Bacterial senescence: protein oxidation in non-proliferating cells is dictated by the accuracy of the ribosomes
    M Ballesteros
    Department of Cell and Molecular Biology-Microbiology, , Medicinaregatan 9C, , Sweden
    EMBO J 20:5280-9. 2001
    ..The data point to an alternative way of approaching the causal factors involved in protein oxidation in eukaryotic G(0) cells...
  52. ncbi Recognition of the mRNA selenocysteine insertion sequence by the specialized translational elongation factor SELB
    S Ringquist
    Department of Molecular, Cellular, and Developmental Biology, University of Colorado, Boulder 80309
    Genes Dev 8:376-85. 1994
    ..Cis-acting mRNA regulatory elements can tether protein factors to the translation complex during protein synthesis...
  53. ncbi Recognition of cognate transfer RNA by the 30S ribosomal subunit
    J M Ogle
    MRC Laboratory of Molecular Biology, Hills Road, Cambridge CB2 2QH, UK
    Science 292:897-902. 2001
    ..The third, or "wobble," position of the codon is free to accommodate certain noncanonical base pairs. By partially inducing these structural changes, paromomycin facilitates binding of near-cognate tRNAs...
  54. pmc NAC covers ribosome-associated nascent chains thereby forming a protective environment for regions of nascent chains just emerging from the peptidyl transferase center
    S Wang
    Cellular Biochemistry and Biophysics Program, Memorial Sloan Kettering Cancer Center, New York 10021, USA
    J Cell Biol 130:519-28. 1995
    ..Since NAC is not a core ribosomal protein, the emergence of nascent chains from the ribosome may be more dynamic than previously thought...
  55. pmc The beta subunit of the Sec61 complex facilitates cotranslational protein transport and interacts with the signal peptidase during translocation
    K U Kalies
    Abteilung Biochemie II, Zentrum Biochemie und Molekulare Zellbiologie, Georg August Universitat, 37073 Gottingen, Germany
    J Cell Biol 141:887-94. 1998
    ..We propose that the SPC is transiently recruited to the translocation site, thus enhancing its activity...
  56. ncbi Erythromycin inhibits the assembly of the large ribosomal subunit in growing Escherichia coli cells
    H S Chittum
    Department of Biochemistry, J H Quillen College of Medicine, East Tennessee State University, Johnson City 37614, USA
    Curr Microbiol 30:273-9. 1995
    ..These novel results indicate that erythromycin has two effects on translation, preventing elongation of the polypeptide chain and also inhibiting the formation of the large ribosomal subunit...
  57. pmc Release factor RF-3 GTPase activity acts in disassembly of the ribosome termination complex
    G Grentzmann
    Howard Hughes Medical Institute, University of Utah, Salt Lake City 84112, USA
    RNA 4:973-83. 1998
    ..Based on our results, we propose a model of how RF3 might function in translational termination and ribosome recycling...
  58. ncbi Rit1, a tRNA backbone-modifying enzyme that mediates initiator and elongator tRNA discrimination
    S U Aström
    Department of Microbiology, University of Umea, Sweden
    Cell 79:535-46. 1994
    ..The modification enzyme was shown to recognize the stem-loop IV region that is unique in eukaryotic cytoplasmic initiator tRNAs...
  59. pmc Endonucleolytic cleavage of eukaryotic mRNAs with stalls in translation elongation
    Meenakshi K Doma
    Howard Hughes Medical Institute, Department of Molecular and Cellular Biology, University of Arizona, Tucson, Arizona 85721, USA
    Nature 440:561-4. 2006
    ..No-go decay provides a mechanism for clearing the cell of stalled translation elongation complexes, which could occur as a result of damaged mRNAs or ribosomes, or as a mechanism of post-transcriptional control...
  60. ncbi The unc operon. Nucleotide sequence, regulation and structure of ATP-synthase
    J E Walker
    Biochim Biophys Acta 768:164-200. 1984
  61. pmc Effects of ethyl and benzyl analogues of spermine on Escherichia coli peptidyltransferase activity, polyamine transport, and cellular growth
    P Karahalios
    Laboratory of Biochemistry, School of Medicine, University of Patras, GR 26500 Patras, Greece
    J Bacteriol 181:3904-11. 1999
    ..Despite this fact, none of the analogues could be internalized by the polyamine transport system, and therefore they could not influence the intracellular polyamine pools and growth of E. coli cells...
  62. ncbi Translational control genes in the sea urchin genome
    Julia Morales
    Equipe Cycle Cellulaire et Développement, UMR 7150 CNRS UPMC, Station Biologique 29680 Roscoff, France
    Dev Biol 300:293-307. 2006
    ....
  63. ncbi Spt16 and Pob3 of Saccharomyces cerevisiae form an essential, abundant heterodimer that is nuclear, chromatin-associated, and copurifies with DNA polymerase alpha
    J Wittmeyer
    Department of Biochemistry, University of Utah, Salt Lake City 84132, USA
    Biochemistry 38:8961-71. 1999
    ..Some of the Spt16-Pob3 complex was found to copurify with the yeast DNA polymerase alpha/primase complex, further supporting a connection between Spt16-Pob3 and DNA replication...
  64. ncbi Mechanism of primer synthesis by the herpes simplex virus 1 helicase-primase
    Kathryn A Ramirez-Aguilar
    Department of Chemistry and Biochemistry, University of Colorado, Boulder, Colorado 80309, USA
    Biochemistry 43:1754-62. 2004
    ..However, if template concentrations were lowered such that primase synthesized primers on all or most of the template present in the reaction, then primase would elongate previously synthesized primers...
  65. pmc Omnipotent role of archaeal elongation factor 1 alpha (EF1α in translational elongation and termination, and quality control of protein synthesis
    Kazuki Saito
    Division of Molecular Biology, Department of Basic Medical Science, Institute of Medical Science, University of Tokyo, 4 6 1 Shirokanedai, Minato ku, Tokyo 108 8639, Japan
    Proc Natl Acad Sci U S A 107:19242-7. 2010
    ....
  66. ncbi Properties of RNA polymerase II elongation complexes before and after the P-TEFb-mediated transition into productive elongation
    Bo Cheng
    Department of Biochemistry, Molecular and Cellular Biology Program, University of Iowa, Iowa City, IA 52242, USA
    J Biol Chem 282:21901-12. 2007
    ..Our results have uncovered important properties of elongation complexes that allow a more complete understanding of how P-TEFb controls the elongation phases of transcription by RNA polymerase II...
  67. pmc Transcription elongation factor P-TEFb mediates Tat activation of HIV-1 transcription at multiple stages
    Q Zhou
    Department of Molecular and Cell Biology, University of California at Berkeley, Berkeley, CA 94720, USA
    EMBO J 17:3681-91. 1998
    ..Our data indicate that the various subunits of the human P-TEFb complex may play distinct roles at multiple stages to mediate Tat activation of HIV-1 transcription elongation...
  68. pmc The phi29 DNA polymerase:protein-primer structure suggests a model for the initiation to elongation transition
    Satwik Kamtekar
    Department of Molecular Biophysics and Biochemistry, Yale University, New Haven, CT 06520 8114, USA
    EMBO J 25:1335-43. 2006
    ..The model indicates that terminal protein should dissociate from polymerase after the incorporation of approximately six nucleotides...
  69. pmc Ribosomes containing mutants of L4 ribosomal protein from Thermus thermophilus display multiple defects in ribosomal functions and sensitivity against erythromycin
    Aikaterini Tsagkalia
    Laboratory of Biochemistry, School of Chemistry, Aristotle University of Thessaloniki, Greece
    RNA 11:1633-9. 2005
    ..coli cells expressing wild-type or mutant TthL4 proteins. Our results emphasize the role of the extended loop of L4 ribosomal protein in the exit-tunnel and peptidyltransferase center functions...
  70. ncbi Toward a model for the interaction between elongation factor Tu and the ribosome
    A Weijland
    SDI n 61840 du Centre National de la Recherche Scientifique, Laboratoire de Biochimie, Ecole Polytechnique, Palaiseau, France
    Science 259:1311-4. 1993
    ..This stoichiometry of two is associated with the binding of the correct aa-tRNA to the ribosome...
  71. pmc Carboxyl-terminal amino acid residues in elongation factor G essential for ribosome association and translocation
    Y Hou
    Department of Biochemistry, Robert Wood Johnson Medical School, University of Medicine and Dentistry of New Jersey, Piscataway 08854
    J Bacteriol 176:7038-44. 1994
    ..We propose that all of these mutations are present in a domain that is essential for ribosome association and that GTP hydrolysis was deficient as a secondary consequence of impaired binding to 70S ribosomes...
  72. ncbi Elongation in bacterial protein biosynthesis
    J Nyborg
    Department of Molecular and Structural Biology, University of Aarhus, Denmark
    Curr Opin Biotechnol 7:369-75. 1996
    ..GTP and of the complex EF-Tu.EF-Ts have been determined. Within the same period, new cryo-electron microscopy reconstructions of ribosome particles have been obtained...
  73. ncbi Single synonymous codon substitution eliminates pausing during chloramphenicol acetyl transferase synthesis on Escherichia coli ribosomes in vitro
    Vasanthi Ramachandiran
    Department of Chemistry and Biochemistry, University of Texas, Austin, TX, USA
    FEBS Lett 512:209-12. 2002
    ..Thus we hypothesize that the mRNA structure may be an important determinant for translational pausing...
  74. pmc Interplay between GCN2 and GCN4 expression, translation elongation factor 1 mutations and translational fidelity in yeast
    Tanya Magazinnik
    Department of Molecular Genetics, Microbiology and Immunology, UMDNJ Robert Wood Johnson Medical School, Piscataway, NJ 08854, USA
    Nucleic Acids Res 33:4584-92. 2005
    ..Taken together, this system improves in vivo strategies for the analysis of translational fidelity and further provides new information on the interplay among translation fidelity, altered elongation and translational control via uORFs...
  75. pmc Alu RNP and Alu RNA regulate translation initiation in vitro
    Julien Häsler
    Departement de Biologie Cellulaire, Universite de Geneve, 30 Quai Ernest Ansermet, 1211 Geneve 4, Switzerland
    Nucleic Acids Res 34:2374-85. 2006
    ....
  76. pmc Movement in ribosome translocation
    Christopher S Fraser
    Department of Molecular and Cell Biology, Howard Hughes Medical Institute, University of California, Berkeley, CA 947020, USA
    J Biol 4:8. 2005
    ..A new study reports that EF-G binds to ribosomes as an EF-G.GDP complex and that GTP is exchanged for GDP on the ribosome. Together with cryo-electron microscopy, this unexpected finding helps clarify the role of GTP in translocation...
  77. ncbi Interactions and subcellular distribution of DNA replication initiation proteins in eukaryotic cells
    Normen Brand
    Department of Biochemistry, University of Wurzburg, Biozentrum, Am Hubland, 97074 Wurzburg, Germany
    Mol Genet Genomics 278:623-32. 2007
    ....
  78. ncbi Recombinant mammalian tubulin polyglutamylase TTLL7 performs both initiation and elongation of polyglutamylation on beta-tubulin through a random sequential pathway
    Masahiro Mukai
    Mitsubishi Kagaku Institute of Life Sciences MITILS, Minamiooya, Machida, Tokyo 194 8511, Japan
    Biochemistry 48:1084-93. 2009
    ..Our findings provide evidence that mammalian TTLL7 performs both initiation and elongation in the polyglutamylation reaction on beta-tubulin through a random sequential pathway...
  79. ncbi Downstream DNA sequence effects on transcription elongation. Allosteric binding of nucleoside triphosphates facilitates translocation via a ratchet motion
    Shannon F Holmes
    Department of Chemistry, The University of North Carolina, Chapel Hill, North Carolina 27599, USA
    J Biol Chem 278:35597-608. 2003
    ..This model provides an alternative mechanism for pausing as well as a structural explanation not only for our kinetic data but also for data from elongation studies on yeast RNAP II...
  80. ncbi Activation of AMP-activated protein kinase leads to the phosphorylation of elongation factor 2 and an inhibition of protein synthesis
    Sandrine Horman
    Hormone and Metabolic Research Unit, Christian de Duve International Institute of Cellular Pathology and Université Catholique de Louvain, Avenue Hippocrate, 75, B 1200, Brussels, Belgium
    Curr Biol 12:1419-23. 2002
    ..Therefore, the activation of eEF2 kinase by AMPK, resulting in the phosphorylation and inactivation of eEF2, provides a novel mechanism for the inhibition of protein synthesis...
  81. pmc A folding zone in the ribosomal exit tunnel for Kv1.3 helix formation
    Li Wei Tu
    Department of Physiology, University of Pennsylvania, Philadelphia, PA 19104 6085, USA
    J Mol Biol 396:1346-60. 2010
    ..These findings emerge from accessibility studies of a diversity of native transmembrane and linker sequences and may therefore be applicable to protein biogenesis in general...
  82. ncbi Elongation factor-2 in chick embryo is phosphorylated on tyrosine as well as serine and threonine
    Y W Kim
    Department of Biochemistry, College of Medicine, Gyeongsang National University, Chinju
    Biochem Biophys Res Commun 175:400-6. 1991
    ..Our results suggest the presence of other EF-2 kinase in chick embryo cell than the previously reported Ca2+/calmodulin-dependent protein kinase III...
  83. pmc TCR-dependent translational control of GATA-3 enhances Th2 differentiation
    Kevin D Cook
    David H Smith Center for Vaccine Biology and Immunology, Aab Institute of Biomedical Sciences and Department of Microbiology and Immunology, University of Rochester, Rochester, NY 14642, USA
    J Immunol 185:3209-16. 2010
    ..Thus, TCR signaling through PI3K may play a critical role in Th2 differentiation by the specific enhancement of GATA-3 translation...
  84. pmc SRP keeps polypeptides translocation-competent by slowing translation to match limiting ER-targeting sites
    Asvin K K Lakkaraju
    Departement de Biologie Cellulaire, Universite de Geneve, Sciences III, 1211 Geneva, Switzerland
    Cell 133:440-51. 2008
    ..SRP therefore ensures that nascent chains remain translocation competent during the targeting time window dictated by SR. Since SRP-signal sequence affinities vary, the delay may also regulate which proteins are preferentially targeted...
  85. pmc The target of rapamycin (TOR) proteins
    B Raught
    Department of Biochemistry and McGill Cancer Centre, McGill University, 3655 Promenade Sir-William-Osler, , QC H3G 1Y6 Canada
    Proc Natl Acad Sci U S A 98:7037-44. 2001
    ..Intriguingly, recent studies have also suggested that TOR signaling plays a critical role in brain development, learning, and memory formation...
  86. ncbi Kinetic properties of Escherichia coli ribosomes with altered forms of S12
    N Bilgin
    University of Uppsala, Department of Molecular Biology, Sweden
    J Mol Biol 224:1011-27. 1992
    ..We use our in vitro findings to discuss the in vivo physiology of these mutants as well as mechanistic features of E. coli translation...
  87. ncbi Influences on translation initiation and early elongation by the messenger RNA region flanking the initiation codon at the 3' side
    C Magnus Stenström
    Department of Microbiology, Stockholm University, Sweden
    Gene 288:1-8. 2002
    ..Thus, the messenger RNA base sequence, and not the encoded amino acid sequence, in the early coding region is the determinant for the apparent efficiency of translation initiation and/or early elongation...
  88. pmc Elongation arrest is a physiologically important function of signal recognition particle
    N Mason
    Wellcome Trust Centre for Cell Biology, Institute of Cell and Molecular Biology, University of Edinburgh, Swann Building, The King s Buildings, Mayfield Road, Edinburgh EH9 3JR, UK
    EMBO J 19:4164-74. 2000
    ..In combination, these data indicate that the primary defect in SRP delta C29 is in elongation arrest, and that this is a physiologically important and conserved function of eukaryotic SRP...
  89. pmc A gene controlling variation in Arabidopsis glucosinolate composition is part of the methionine chain elongation pathway
    J Kroymann
    Department of Genetics and Evolution, Max Planck Institute for Chemical Ecology, Carl Zeiss Promenade 10, 07745 Jena, Germany
    Plant Physiol 127:1077-88. 2001
    ....
  90. pmc Late events of translation initiation in bacteria: a kinetic analysis
    J Tomsic
    Laboratory of Genetics, Department of Biology MCA, University of Camerino, 62032 Camerino MC, Italy
    EMBO J 19:2127-36. 2000
    ..2/s. Omission of GTP or its replacement with GDP had no effect, indicating that neither the adjustment of fMet-tRNA(fMet) in the P site nor the release of IF2 from the ribosome required GTP hydrolysis...
  91. pmc Electrostatics in the ribosomal tunnel modulate chain elongation rates
    Jianli Lu
    Department of Physiology, University of Pennsylvania, Philadelphia, PA 19104 6085, USA
    J Mol Biol 384:73-86. 2008
    ..We provide experimental evidence that extraribosomal mechanisms do not account for this charge-specific pausing. We conclude that pausing is due to charge-specific interactions between the tunnel and the nascent peptide...
  92. ncbi Effects of the active aldehyde group generated by RNA N-glycosidase in the sarcin/ricin domain of rat 28S ribosomal RNA on peptide elongation
    Y Z Xu
    Shanghai Institute of Biochemistry, Chinese Academy of Sciences
    Biol Chem 381:113-9. 2000
    ....
  93. ncbi [The structural changes in the ribosome during the elongation cycle]
    S V Kiparisov
    Mol Biol (Mosk) 40:755-68. 2006
    ..Besides the discussion of different biochemical data in the scope of structural data we also consider the hypothesis that the position of GTPase associated center (GAC) in the ribosome regulates the binding of elongation factors...
  94. pmc Rpm2p, a protein subunit of mitochondrial RNase P, physically and genetically interacts with cytoplasmic processing bodies
    Vilius Stribinskis
    Department of Biochemistry and Molecular Biology and Center for Genetics and Molecular Medicine, School of Medicine, University of Louisville, Louisville, KY, USA
    Nucleic Acids Res 35:1301-11. 2007
    ..The results presented here, and the transcriptional activation function demonstrated earlier, implicate Rpm2p as a coordinator of transcription and mRNA storage/decay in P bodies...
  95. pmc Divergent stalling sequences sense and control cellular physiology
    Koreaki Ito
    Faculty of Life Sciences, Kyoto Sangyo University, Motoyama, Kamigamo, Kita ku, Kyoto 603 8555, Japan
    Biochem Biophys Res Commun 393:1-5. 2010
    ....
  96. ncbi Ribosome shifting or splitting: it is all up to the EF-G
    Brooke Christian
    Department of Chemistry, University of North Carolina at Chapel Hill, Chapel Hill, NC 27599 3290, USA
    Mol Cell 35:400-2. 2009
    ..Tsuboi et al. (2009) now show that the function of EF-G2(mt) is not in elongation but, rather, in ribosome recycling...
  97. pmc Exercise improves phosphatidylinositol-3,4,5-trisphosphate responsiveness of atypical protein kinase C and interacts with insulin signalling to peptide elongation in human skeletal muscle
    Christian Frøsig
    Copenhagen Muscle Research Centre, Section of Human Physiology, Department of Exercise and Sport Sciences, University of Copenhagen, 13, Universitetsparken, DK 2100, Copenhagen, Denmark
    J Physiol 582:1289-301. 2007
    ..Furthermore, endurance exercise increased the responsiveness of aPKC to PIP3 providing a possible link to improved insulin-stimulated glucose uptake after exercise...
  98. ncbi Ribosome structure and dynamics during translocation and termination
    Jack A Dunkle
    Department of Molecular and Cell Biology, University of California, Berkeley, California 94720, USA
    Annu Rev Biophys 39:227-44. 2010
    ..Finally, we review recent advances in understanding how bacteria handle errors in both translocation and termination...
  99. ncbi Mechanism of instability in abortive cycling by T7 RNA polymerase
    Peng Gong
    Department of Chemistry, University of Massachusetts Amherst, Amherst, Massachusetts 01003 9336, USA
    J Biol Chem 281:23533-44. 2006
    ....
  100. ncbi A proposed role for IF-3 and EF-T in maintaining the specificity of prokaryotic initiation complex formation
    M C Ganoza
    Banting and Best Department of Medical Research, University of Toronto, Ontario Canada
    Mol Biol Rep 15:33-8. 1991
    ..We propose that one function of EF-T may be to prevent the entry of aminoacyl-tRNAs into the 30S particle during initiation. The possibility that a special site for fMet-tRNA resides on 16S rRNA is also discussed...
  101. ncbi Messenger RNA translation in prokaryotes: GTPase centers associated with translational factors
    S Laalami
    , URA CNRS 1172, , France
    Biochimie 78:577-89. 1996
    ..Of the prokaryotic translational factors, IF2, EF-Tu, SELB, EF-G and RF3 are GTP-binding proteins. In this review we summarize the latest findings on the structures and the roles of these GTPases in the translational process...

Research Grants16

  1. AUTOMATED DNA ANALYSIS SYSTEM
    TERRI KINZY; Fiscal Year: 2001
    ..Trained personnel of the core facility will run and maintain all equipment to ensure optimal quality and speed. These personnel will also provide ongoing technical support to all users of this equipment. ..
  2. Development of selenomethionine resistant yeast
    TERRI KINZY; Fiscal Year: 2007
    ..unreadable] [unreadable] [unreadable]..
  3. Structure of Eukaryotic Translation Elongation Factor 1
    TERRI KINZY; Fiscal Year: 2004
    ..With S. cerevisiae, the structural information obtained on eEF1A can be utilized for molecular genetic analysis of the critical residues for function and regulation. ..
  4. Mechanism of ribosomal subunit joining in eukaryotes
    Tatyana Pestova; Fiscal Year: 2005
    ....
  5. Structure Function Studies of DNA Mismatch Repair
    Dorothy A Erie; Fiscal Year: 2010
    ....
  6. Translational control of LTP
    EMMANUEL LANDAU; Fiscal Year: 2007
    ..The results of this proposal will shed light on the mechanisms that participate in drug addiction, as well as learning and memory, by providing new information on the role of translation control in neuronal plasticity. ..
  7. Mechanistic studies of DNA repair and damage response
    Dorothy A Erie; Fiscal Year: 2010
    ..abstract_text> ..
  8. MECHANISM OF INITIATION OF PROTEIN BIOSYNTHESIS
    JOHN HERSHEY; Fiscal Year: 2004
    ..The experiments will help elucidate the function and regulation of these key initiation factors. ..
  9. REVERSE TRANSCRIPTASE AND OTHER HIV MOLECULAR STRUCTURES
    Thomas Steitz; Fiscal Year: 2002
    ..Crystallographic studies of both full length HIV integrase and the homologous transposase, TN552, complexed with suitable DNA substrates are aimed to produce mechanistic insights. ..
  10. BIOPHYSICAL AND SCANNING FORCE MICROSCOPY STUDIES
    DOROTHY ERIE; Fiscal Year: 2001
    ..3) How do polymorphisms affect the above properties? ..
  11. Kinetic Studies of Transcription Elongation
    DOROTHY ERIE; Fiscal Year: 2005
    ..Accordingly, we will use this information to begin to understand, at the amino acid level, the role of NTP binding and conformational transitions in the regulation of elongation. ..
  12. Structure and Folding of Frameshifting mRNA Pseudoknots
    DAVID GIEDROC; Fiscal Year: 2006
    ..These experiments will significantly enhance our understanding of how mRNA structure, stability and folding influence ribosomal recoding required for replication and propagation of infectious plant and human RNA viruses. ..
  13. Structural studies on ribosomes and antibiotics
    VENKATRAMAN RAMAKRISHNAN; Fiscal Year: 2006
    ..Such knowledge could help improve existing antibiotics and could also lead to the design of new ones. ..
  14. Functions of Spt4-Spt5 in Gene Expression
    Grant Hartzog; Fiscal Year: 2008
    ..Studies here include biochemical and genetic analyses of splicing in spt mutants and tests of the influence of Spt4-Spt5 on the assembly of RNA export proteins onto mRNA. ..
  15. Regulation of Transcription:Structure Function Basis
    Averell Gnatt; Fiscal Year: 2006
    ..Site directed mutagenesis of RNA Polymerase II in yeast will allow for verification and determination of the structure-function relationships of the proteins. ..
  16. 2002 Gordon Research Conference on Biopolymers
    DOROTHY ERIE; Fiscal Year: 2002
    ..The program encompasses some of the most exciting research in the field of nucleic acid and protein biophysics and promises to generate lively discussions both in and outside of the sessions. ..