Search Results - "Lieberman, Kate R"

Automated forward and reverse ratcheting of DNA in a nanopore at 5-Å precision by Cherf, Gerald M, Lieberman, Kate R, Rashid, Hytham, Lam, Christopher E, Karplus, Kevin, Akeson, Mark

“…A key obstacle to sequencing DNA as it passes through a nanopore is that the translocation rate is too fast to resolve individual bases. Cherf et al . solve…”
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Processive Replication of Single DNA Molecules in a Nanopore Catalyzed by phi29 DNA Polymerase by Lieberman, Kate R, Cherf, Gerald M, Doody, Michael J, Olasagasti, Felix, Kolodji, Yvette, Akeson, Mark

“…Coupling nucleic acid processing enzymes to nanoscale pores allows controlled movement of individual DNA or RNA strands that is reported as an ionic…”
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Replication of individual DNA molecules under electronic control using a protein nanopore by Akeson, Mark, Olasagasti, Felix, Lieberman, Kate R, Benner, Seico, Cherf, Gerald M, Dahl, Joseph M, Deamer, David W

“…Nanopores can be used to analyse DNA by monitoring ion currents as individual strands are captured and driven through the pore in single file by an applied…”
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Sequence-specific detection of individual DNA polymerase complexes in real time using a nanopore by Dunbar, William B, Akeson, Mark, Benner, Seico, Chen, Roger J. A, Wilson, Noah A, Abu-Shumays, Robin, Hurt, Nicholas, Lieberman, Kate R, Deamer, David W

“…Nanoscale pores have potential to be used as biosensors and are an established tool for analysing the structure and composition of single DNA or RNA molecules…”
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Modulation of DNA Polymerase Noncovalent Kinetic Transitions by Divalent Cations by Dahl, Joseph M., Lieberman, Kate R., Wang, Hongyun

“…Replicative DNA polymerases (DNAPs) require divalent metal cations for phosphodiester bond formation in the polymerase site and for hydrolytic editing in the…”
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Mapping the Position of DNA Polymerase-Bound DNA Templates in a Nanopore at 5 Å Resolution by Gyarfas, Brett, Olasagasti, Felix, Benner, Seico, Garalde, Daniel, Lieberman, Kate R, Akeson, Mark

“…DNA polymerases are molecular motors that catalyze template-dependent DNA replication, advancing along template DNA by one nucleotide with each catalytic…”
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Kinetic Mechanism at the Branchpoint between the DNA Synthesis and Editing Pathways in Individual DNA Polymerase Complexes by Lieberman, Kate R, Dahl, Joseph M, Wang, Hongyun

“…Exonucleolytic editing of incorrectly incorporated nucleotides by replicative DNA polymerases (DNAPs) plays an essential role in the fidelity of DNA…”
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Kinetic Mechanism of Translocation and dNTP Binding in Individual DNA Polymerase Complexes by Lieberman, Kate R, Dahl, Joseph M, Mai, Ai H, Cox, Ashley, Akeson, Mark, Wang, Hongyun

“…Complexes formed between phi29 DNA polymerase (DNAP) and DNA fluctuate discretely between the pre-translocation and post-translocation states on the…”
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Specific Nucleotide Binding and Rebinding to Individual DNA Polymerase Complexes Captured on a Nanopore by Hurt, Nicholas, Wang, Hongyun, Akeson, Mark, Lieberman, Kate R

“…Nanoscale pores are a tool for single molecule analysis of DNA or RNA processing enzymes. Monitoring catalytic activity in real time using this technique…”
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Dynamics of the Translocation Step Measured in Individual DNA Polymerase Complexes by Lieberman, Kate R, Dahl, Joseph M, Mai, Ai H, Akeson, Mark, Wang, Hongyun

“…Complexes formed between the bacteriophage phi29 DNA polymerase (DNAP) and DNA fluctuate between the pre-translocation and post-translocation states on the…”
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Electronic Control of DNA Polymerase Binding and Unbinding to Single DNA Molecules by Wilson, Noah A, Abu-Shumays, Robin, Gyarfas, Brett, Wang, Hongyun, Lieberman, Kate R, Akeson, Mark, Dunbar, William B

“…DNA polymerases catalyze template-dependent genome replication. The assembly of a high affinity ternary complex between these enzymes, the double strand−single…”
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Kinetic Mechanisms Governing Stable Ribonucleotide Incorporation in Individual DNA Polymerase Complexes by Dahl, Joseph M, Wang, Hongyun, Lázaro, José M, Salas, Margarita, Lieberman, Kate R

“…Ribonucleoside triphosphates (rNTPs) are frequently incorporated during DNA synthesis by replicative DNA polymerases (DNAPs), and once incorporated are not…”
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Distinct Complexes of DNA Polymerase I (Klenow Fragment) for Base and Sugar Discrimination during Nucleotide Substrate Selection by Garalde, Daniel R., Simon, Christopher A., Dahl, Joseph M., Wang, Hongyun, Akeson, Mark, Lieberman, Kate R.

“…During each catalytic cycle, DNA polymerases select deoxyribonucleoside triphosphate (dNTP) substrates complementary to a templating base with high fidelity…”
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Direct Observation of Translocation in Individual DNA Polymerase Complexes by Dahl, Joseph M., Mai, Ai H., Cherf, Gerald M., Jetha, Nahid N., Garalde, Daniel R., Marziali, Andre, Akeson, Mark, Wang, Hongyun, Lieberman, Kate R.

“…Complexes of phi29 DNA polymerase and DNA fluctuate on the millisecond time scale between two ionic current amplitude states when captured atop the α-hemolysin…”
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Analysis of Mutations at Residues A2451 and G2447 of 23S rRNA in the Peptidyltransferase Active Site of the 50S Ribosomal Subunit by Thompson, Jill, Kim, Daniel F., O'Connor, Michael, Lieberman, Kate R., Bayfield, Mark A., Gregory, Steven T., Green, Rachel, Noller, Harry F., Dahlberg, Albert E.

“…On the basis of the recent atomic-resolution x-ray structure of the 50S ribosomal subunit, residues A2451 and G2447 of 23S rRNA were proposed to participate…”
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The 23 S rRNA environment of ribosomal protein L9 in the 50 S ribosomal subunit by Lieberman, Kate R, Firpo, Matthew A, Herr, Alan J, Nguyenle, Thuylinh, Atkins, John F, Gesteland, Raymond F, Noller, Harry F

“…Ribosomal protein L9 consists of two globular α/β domains separated by a nine-turn α-helix. We examined the rRNA environment of L9 by chemical footprinting and…”
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Dynamics of Translocation and Substrate Binding in Individual Complexes Formed with Active Site Mutants of Φ29 DNA Polymerase by Dahl, Joseph M., Wang, Hongyun, Lázaro, José M., Salas, Margarita, Lieberman, Kate R.

“…The Φ29 DNA polymerase (DNAP) is a processive B-family replicative DNAP. Fluctuations between the pre-translocation and post-translocation states can be…”
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Automated forward and reverse ratcheting of DNA in a nanopore at 5-Aa precision by Cherf, Gerald M, Lieberman, Kate R, Rashid, Hytham, Lam, Christopher E, Karplus, Kevin, Akeson, Mark

“…An emerging DNA sequencing technique uses protein or solid-state pores to analyze individual strands as they are driven in single-file order past a nanoscale…”
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Automated Forward and Reverse Ratcheting of DNA in a Nanopore at Five Angstrom Precision1 by Cherf, Gerald M., Lieberman, Kate R., Rashid, Hytham, Lam, Christopher E., Karplus, Kevin, Akeson, Mark

“…Single-molecule techniques have been developed for commercial DNA sequencing 1 , 2 . One emerging strategy uses a nanopore to analyze DNA molecules as they are…”
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Dynamics of translocation and substrate binding in individual complexes formed with active site mutants of {phi}29 DNA polymerase by Dahl, Joseph M, Wang, Hongyun, Lázaro, José M, Salas, Margarita, Lieberman, Kate R

“…The Φ29 DNA polymerase (DNAP) is a processive B-family replicative DNAP. Fluctuations between the pre-translocation and post-translocation states can be…”
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