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Items: 1 to 20 of 99

1.

Prechemistry nucleotide selection checkpoints in the reaction pathway of DNA polymerase I and roles of glu710 and tyr766.

Bermek O, Grindley ND, Joyce CM.

Biochemistry. 2013 Sep 10;52(36):6258-74. doi: 10.1021/bi400837k. Epub 2013 Aug 27.

2.

Fingers-closing and other rapid conformational changes in DNA polymerase I (Klenow fragment) and their role in nucleotide selectivity.

Joyce CM, Potapova O, Delucia AM, Huang X, Basu VP, Grindley ND.

Biochemistry. 2008 Jun 10;47(23):6103-16. doi: 10.1021/bi7021848. Epub 2008 May 13.

PMID:
18473481
3.

Distinct complexes of DNA polymerase I (Klenow fragment) for base and sugar discrimination during nucleotide substrate selection.

Garalde DR, Simon CA, Dahl JM, Wang H, Akeson M, Lieberman KR.

J Biol Chem. 2011 Apr 22;286(16):14480-92. doi: 10.1074/jbc.M111.218750. Epub 2011 Feb 28.

4.

Single-molecule Förster resonance energy transfer reveals an innate fidelity checkpoint in DNA polymerase I.

Berezhna SY, Gill JP, Lamichhane R, Millar DP.

J Am Chem Soc. 2012 Jul 11;134(27):11261-8. doi: 10.1021/ja3038273. Epub 2012 Jun 29.

5.

Conformational landscapes of DNA polymerase I and mutator derivatives establish fidelity checkpoints for nucleotide insertion.

Hohlbein J, Aigrain L, Craggs TD, Bermek O, Potapova O, Shoolizadeh P, Grindley ND, Joyce CM, Kapanidis AN.

Nat Commun. 2013;4:2131. doi: 10.1038/ncomms3131.

6.

Conformational transitions in DNA polymerase I revealed by single-molecule FRET.

Santoso Y, Joyce CM, Potapova O, Le Reste L, Hohlbein J, Torella JP, Grindley ND, Kapanidis AN.

Proc Natl Acad Sci U S A. 2010 Jan 12;107(2):715-20. doi: 10.1073/pnas.0910909107. Epub 2009 Dec 18.

7.
8.

Discrimination against purine-pyrimidine mispairs in the polymerase active site of DNA polymerase I: a structural explanation.

Minnick DT, Liu L, Grindley ND, Kunkel TA, Joyce CM.

Proc Natl Acad Sci U S A. 2002 Feb 5;99(3):1194-9.

9.

How E. coli DNA polymerase I (Klenow fragment) distinguishes between deoxy- and dideoxynucleotides.

Astatke M, Grindley ND, Joyce CM.

J Mol Biol. 1998 Apr 24;278(1):147-65.

PMID:
9571040
10.

Side chains that influence fidelity at the polymerase active site of Escherichia coli DNA polymerase I (Klenow fragment).

Minnick DT, Bebenek K, Osheroff WP, Turner RM Jr, Astatke M, Liu L, Kunkel TA, Joyce CM.

J Biol Chem. 1999 Jan 29;274(5):3067-75.

11.

Single-molecule microscopy reveals new insights into nucleotide selection by DNA polymerase I.

Markiewicz RP, Vrtis KB, Rueda D, Romano LJ.

Nucleic Acids Res. 2012 Sep;40(16):7975-84. doi: 10.1093/nar/gks523. Epub 2012 Jun 4.

12.

The properties of steric gate mutants reveal different constraints within the active sites of Y-family and A-family DNA polymerases.

DeLucia AM, Chaudhuri S, Potapova O, Grindley ND, Joyce CM.

J Biol Chem. 2006 Sep 15;281(37):27286-91. Epub 2006 Jul 10.

13.

Fluorescence resonance energy transfer studies of DNA polymerase β: the critical role of fingers domain movements and a novel non-covalent step during nucleotide selection.

Towle-Weicksel JB, Dalal S, Sohl CD, Doublié S, Anderson KS, Sweasy JB.

J Biol Chem. 2014 Jun 6;289(23):16541-50. doi: 10.1074/jbc.M114.561878. Epub 2014 Apr 24.

14.

dNTP-dependent conformational transitions in the fingers subdomain of Klentaq1 DNA polymerase: insights into the role of the "nucleotide-binding" state.

Rothwell PJ, Allen WJ, Sisamakis E, Kalinin S, Felekyan S, Widengren J, Waksman G, Seidel CA.

J Biol Chem. 2013 May 10;288(19):13575-91. doi: 10.1074/jbc.M112.432690. Epub 2013 Mar 22.

15.

Conformational changes during normal and error-prone incorporation of nucleotides by a Y-family DNA polymerase detected by 2-aminopurine fluorescence.

DeLucia AM, Grindley ND, Joyce CM.

Biochemistry. 2007 Sep 25;46(38):10790-803. Epub 2007 Aug 29.

PMID:
17725324
17.

Distinct roles of the active-site Mg2+ ligands, Asp882 and Asp705, of DNA polymerase I (Klenow fragment) during the prechemistry conformational transitions.

Bermek O, Grindley ND, Joyce CM.

J Biol Chem. 2011 Feb 4;286(5):3755-66. doi: 10.1074/jbc.M110.167593. Epub 2010 Nov 16.

19.

Influence of 5'-nearest neighbors on the insertion kinetics of the fluorescent nucleotide analog 2-aminopurine by Klenow fragment.

Bloom LB, Otto MR, Beechem JM, Goodman MF.

Biochemistry. 1993 Oct 19;32(41):11247-58.

PMID:
8218190
20.

Real-time single-molecule studies of the motions of DNA polymerase fingers illuminate DNA synthesis mechanisms.

Evans GW, Hohlbein J, Craggs T, Aigrain L, Kapanidis AN.

Nucleic Acids Res. 2015 Jul 13;43(12):5998-6008. doi: 10.1093/nar/gkv547. Epub 2015 May 26.

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