Research Topics
| PAUL L BABITZKESummaryAffiliation: Pennsylvania State University Country: USA Publications
Research Grants
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Detail Information
Publications
Regulation of tryptophan biosynthesis: Trp-ing the TRAP or how Bacillus subtilis reinvented the wheelP Babitzke
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park 16802, USA
Mol Microbiol 26:1-9. 1997..In the case of trpG, TRAP binds to nine repeats that overlap the ribosome-binding site, thereby blocking translation...- Regulation of transcription attenuation and translation initiation by allosteric control of an RNA-binding protein: the Bacillus subtilis TRAP proteinPaul Babitzke
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
Curr Opin Microbiol 7:132-9. 2004..In addition, bound TRAP regulates translation initiation of pabA, trpP and ycbK by directly blocking ribosome binding. The anti-TRAP protein inhibits TRAP activity by competing with RNA for the RNA binding surface of TRAP... - CsrB sRNA family: sequestration of RNA-binding regulatory proteinsPaul Babitzke
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
Curr Opin Microbiol 10:156-63. 2007.... 
Regulation of translation initiation by RNA binding proteinsPaul Babitzke
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
Annu Rev Microbiol 63:27-44. 2009..Examples also exist in which the bound protein traps the ribosome in a complex that is incapable of initiating translation...- A Mg2+-dependent RNA tertiary structure forms in the Bacillus subtilis trp operon leader transcript and appears to interfere with trpE translation control by inhibiting TRAP bindingJanell E Schaak
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
J Mol Biol 332:555-74. 2003..Results from expression studies using trpE'-'lacZ translational fusions and RNA-directed cell-free translation experiments suggest that the Mg(2+)-dependent tertiary structure inhibits TRAP's ability to regulate translation of trpE... - The trp RNA-binding attenuation protein (TRAP) of Bacillus subtilis regulates translation initiation of ycbK, a gene encoding a putative efflux protein, by blocking ribosome bindingHelen Yakhnin
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
Mol Microbiol 61:1252-66. 2006..We also identified two dipeptide coding minigenes between the Shine-Dalgarno sequence and start codon of ycbK. Expression of one of the minigenes modestly interfered with translation of ycbK... 
CsrA regulates translation of the Escherichia coli carbon starvation gene, cstA, by blocking ribosome access to the cstA transcriptAshok K Dubey
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
J Bacteriol 185:4450-60. 2003..These results establish that CsrA regulates translation of cstA by sterically interfering with ribosome binding...- The trp RNA-binding attenuation protein of Bacillus subtilis regulates translation of the tryptophan transport gene trpP (yhaG) by blocking ribosome bindingHelen Yakhnin
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
J Bacteriol 186:278-86. 2004.... - Molecular basis of TRAP-5'SL RNA interaction in the Bacillus subtilis trp operon transcription attenuation mechanismAdam P McGraw
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
RNA 15:55-66. 2009.... - RNA sequence and secondary structure participate in high-affinity CsrA-RNA interactionAshok K Dubey
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
RNA 11:1579-87. 2005..A mutational analysis of one selected ligand confirmed that the conserved ACA, GGA, and GU residues were critical for CsrA binding and that RNA secondary structure participates in CsrA-RNA recognition... - TRAP-5' stem loop interaction increases the efficiency of transcription termination in the Bacillus subtilis trpEDCFBA operon leader regionAdam P McGraw
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
RNA 13:2020-33. 2007.... - Translation control of trpG from transcripts originating from the folate operon promoter of Bacillus subtilis is influenced by translation-mediated displacement of bound TRAP, while translation control of transcripts originating from a newly identified trHelen Yakhnin
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
J Bacteriol 189:872-9. 2007..We found that TRAP-dependent regulation of trpG expression is more extensive for a transcript originating from P(trpG) and that transcripts originating from P(trpG) are not subject to translation-mediated displacement of bound TRAP... - CsrA of Bacillus subtilis regulates translation initiation of the gene encoding the flagellin protein (hag) by blocking ribosome bindingHelen Yakhnin
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
Mol Microbiol 64:1605-20. 2007..Toeprint and cell-free translation studies demonstrate that bound CsrA prevents ribosome binding to the hag transcript, thereby inhibiting translation initiation and Hag synthesis... - CsrA inhibits translation initiation of Escherichia coli hfq by binding to a single site overlapping the Shine-Dalgarno sequenceCarol S Baker
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
J Bacteriol 189:5472-81. 2007..The interaction of CsrA with hfq mRNA is the first example of a CsrA-regulated gene that contains only one CsrA binding site... - RNA polymerase pausing regulates translation initiation by providing additional time for TRAP-RNA interactionAlexander V Yakhnin
Department of Biochemistry and Molecular Biology, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
Mol Cell 24:547-57. 2006..These results establish that pausing is capable of playing a role in regulating translation in bacteria... - NusA-stimulated RNA polymerase pausing and termination participates in the Bacillus subtilis trp operon attenuation mechanism invitroAlexander V Yakhnin
Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA
Proc Natl Acad Sci U S A 99:11067-72. 2002..Finally, NusA-stimulated termination is cooperative, suggesting that binding of multiple NusA molecules influences termination... - CsrA regulates glycogen biosynthesis by preventing translation of glgC in Escherichia coliCarol S Baker
Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA
Mol Microbiol 44:1599-610. 2002..This inhibition of translation probably contributes to destabilization of the glgC transcript that was observed previously... - Mechanism of NusG-stimulated pausing, hairpin-dependent pause site selection and intrinsic termination at overlapping pause and termination sites in the Bacillus subtilis trp leaderAlexander V Yakhnin
Department of Biochemistry and Molecular Biology, Center for RNA Molecular Biology, The Pennsylvania State University, University Park, PA 16802, USA
Mol Microbiol 76:690-705. 2010..NusA was found to increase both pausing and termination by reducing the rate of transcription. We also found that NusG-stimulated pausing is sequence specific and that NusG does not affect termination... - Role of RNA structure in transcription attenuation in Bacillus subtilis: the trpEDCFBA operon as a model systemPaul Babitzke
Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, Pennsylvania 16802, USA
Methods Enzymol 371:392-404. 2003 - Function of the Bacillus subtilis transcription elongation factor NusG in hairpin-dependent RNA polymerase pausing in the trp leaderAlexander V Yakhnin
Department of Biochemistry and Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA
Proc Natl Acad Sci U S A 105:16131-6. 2008..Overexpression of nusG reduces trp operon expression to a larger extent than overexpression of nusA... - Phylogenetic conservation of RNA secondary and tertiary structure in the trpEDCFBA operon leader transcript in BacillusJanell E Schaak
Department of Biochemistry and Molecular Biology, The Huck Institute for Life Sciences, The Pennsylvania State University, University Park, Pennsylvania 16802, USA
RNA 9:1502-15. 2003..These data indicate that RNA secondary and tertiary structures involved in TRAP-mediated translation control are conserved in at least four Bacillus species... - CsrA represses translation of sdiA, which encodes the N-acylhomoserine-L-lactone receptor of Escherichia coli, by binding exclusively within the coding region of sdiA mRNAHelen Yakhnin
Department of Biochemistry and Molecular Biology, Center for RNA Molecular Biology, Pennsylvania State University, University Park, PA 16802, USA
J Bacteriol 193:6162-70. 2011..Thus, this represents the first example of CsrA preventing translation by interacting solely within the coding region of an mRNA target...
Research Grants
- MECHANISM OF TRP GENE REGULATION BY TRAP-RNA RECOGNITIONPaul Babitzke; Fiscal Year: 2007..Genetic and biochemical experiments will be carried out to understand how the relative placement of the triplet repeats influences TRAP-mediated translation control of these three genes. ..
- MECHANISM OF TRP GENE REGULATION BY TRAP-RNA RECOGNITIONPaul Babitzke; Fiscal Year: 2004..Finally, the possible role of an RNA pseudoknot in regulating translation and/or mRNA stability of the trp operon will be determined by several genetic and biochemical approaches. ..
- MECHANISM OF TRP GENE REGULATION BY TRAP-RNA RECOGNITIONPaul Babitzke; Fiscal Year: 1999..The defects associated with various mutant TRAP proteins will be determined using available techniques. A collaboration with William Royer will continue to determine the crystal structure of the TRAP-RNA complex. ..
- MECHANISM OF TRP GENE REGULATION BY TRAP-RNA RECOGNITIONPaul Babitzke; Fiscal Year: 2009..Genetic and biochemical experiments will be carried out to understand how the relative placement of the triplet repeats influences TRAP-mediated translation control of these three genes. ..