-
1
-
-
0025783442
-
Fidelity mechanisms in DNA replication
-
Echols, H. and Goodman, M. F. (1991) Fidelity mechanisms in DNA replication Annu. Rev. Biochem. 60, 477-511
-
(1991)
Annu. Rev. Biochem.
, vol.60
, pp. 477-511
-
-
Echols, H.1
Goodman, M.F.2
-
2
-
-
0026639873
-
DNA replication fidelity
-
Kunkel, T. A. (1992) DNA replication fidelity J. Biol. Chem. 267, 18251-18254
-
(1992)
J. Biol. Chem.
, vol.267
, pp. 18251-18254
-
-
Kunkel, T.A.1
-
3
-
-
0027267249
-
Biochemical basis of DNA replication fidelity
-
Goodman, M. F., Creighton, S., Bloom, L. B., and Petruska, J. (1993) Biochemical basis of DNA replication fidelity Crit. Rev. Biochem. Mol. Biol. 28, 83-126
-
(1993)
Crit. Rev. Biochem. Mol. Biol.
, vol.28
, pp. 83-126
-
-
Goodman, M.F.1
Creighton, S.2
Bloom, L.B.3
Petruska, J.4
-
5
-
-
0030967829
-
A thymidine triphosphate shape analog lacking Watson-Crick pairing ability is replicated with high sequence selectivity
-
Moran, S., Ren, R. X., and Kool, E. T. (1997) A thymidine triphosphate shape analog lacking Watson-Crick pairing ability is replicated with high sequence selectivity Proc. Natl. Acad. Sci. U. S. A. 94, 10506-10511
-
(1997)
Proc. Natl. Acad. Sci. U. S. A.
, vol.94
, pp. 10506-10511
-
-
Moran, S.1
Ren, R.X.2
Kool, E.T.3
-
6
-
-
0032491819
-
Highly precise shape mimicry by a difluorotoluene deoxynucleoside, a replication-competent substitute for thymidine
-
Guckian, K. M. and Kool, E. T. (1997) Highly precise shape mimicry by a difluorotoluene deoxynucleoside, a replication-competent substitute for thymidine Angew. Chem., Int. Ed. Engl. 36, 2825-2828
-
(1997)
Angew. Chem., Int. Ed. Engl.
, vol.36
, pp. 2825-2828
-
-
Guckian, K.M.1
Kool, E.T.2
-
7
-
-
0031790169
-
Solution structure of a DNA duplex containing a replicable difluorotoluene-adenine pair
-
Guckian, K. M., Krugh, T. R., and Kool, E. T. (1998) Solution structure of a DNA duplex containing a replicable difluorotoluene-adenine pair Nat. Struct. Biol. 5, 954-959
-
(1998)
Nat. Struct. Biol.
, vol.5
, pp. 954-959
-
-
Guckian, K.M.1
Krugh, T.R.2
Kool, E.T.3
-
8
-
-
0031792598
-
Efficient replication between non-hydrogen-bonded nucleoside shape analogs
-
Morales, J. C. and Kool, E. T. (1998) Efficient replication between non-hydrogen-bonded nucleoside shape analogs Nat. Struct. Biol. 5, 950-954
-
(1998)
Nat. Struct. Biol.
, vol.5
, pp. 950-954
-
-
Morales, J.C.1
Kool, E.T.2
-
9
-
-
0034654495
-
Factors contributing to aromatic stacking in water: Evaluation in the context of DNA
-
Guckian, K. M., Schweitzer, B. A., Ren, R. X., Sheils, C. J., Tahmassebi, D. C., and Kool, E. T. (2000) Factors contributing to aromatic stacking in water: evaluation in the context of DNA J. Am. Chem. Soc. 122, 2213-2222
-
(2000)
J. Am. Chem. Soc.
, vol.122
, pp. 2213-2222
-
-
Guckian, K.M.1
Schweitzer, B.A.2
Ren, R.X.3
Sheils, C.J.4
Tahmassebi, D.C.5
Kool, E.T.6
-
11
-
-
0031444926
-
Bi-stranded, multisite replication of a base pair between difluorotoluene and adenine: Confirmation by 'inverse' sequencing
-
Liu, D., Moran, S., and Kool, E. T. (1997) Bi-stranded, multisite replication of a base pair between difluorotoluene and adenine: confirmation by 'inverse' sequencing Chem. Biol. 4, 919-926
-
(1997)
Chem. Biol.
, vol.4
, pp. 919-926
-
-
Liu, D.1
Moran, S.2
Kool, E.T.3
-
12
-
-
0030991442
-
Difluorotoluene, a nonpolar isostere for thymine, codes specifically and efficiently for adenine in DNA replication
-
Moran, S., Ren, R. X., Rumney, S., and Kool, E. T. (1997) Difluorotoluene, a nonpolar isostere for thymine, codes specifically and efficiently for adenine in DNA replication J. Am. Chem. Soc. 119, 2056-2057
-
(1997)
J. Am. Chem. Soc.
, vol.119
, pp. 2056-2057
-
-
Moran, S.1
Ren, R.X.2
Rumney, S.3
Kool, E.T.4
-
13
-
-
47249133752
-
Base pair hydrogen bonds are essential for proofreading selectivity by the human mitochondrial DNA polymerase
-
Lee, H. R., Helquist, S. A., Kool, E. T., and Johnson, K. A. (2008) Base pair hydrogen bonds are essential for proofreading selectivity by the human mitochondrial DNA polymerase J. Biol. Chem. 283, 14411-14416
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 14411-14416
-
-
Lee, H.R.1
Helquist, S.A.2
Kool, E.T.3
Johnson, K.A.4
-
14
-
-
11944258509
-
Hydrophobic, non-hydrogen-bonding bases and base pairs in DNA
-
Schweitzer, B. A. and Kool, E. T. (1995) Hydrophobic, non-hydrogen-bonding bases and base pairs in DNA J. Am. Chem. Soc. 117, 1863-1872
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 1863-1872
-
-
Schweitzer, B.A.1
Kool, E.T.2
-
15
-
-
69849102641
-
Pairing geometry of the hydrophobic thymine analogue 2,4-difluorotoluene in duplex DNA as analyzed by X-ray crystallography
-
Pallan, P. S. and Egli, M. (2009) Pairing geometry of the hydrophobic thymine analogue 2,4-difluorotoluene in duplex DNA as analyzed by X-ray crystallography J. Am. Chem. Soc. 131, 12548-12549
-
(2009)
J. Am. Chem. Soc.
, vol.131
, pp. 12548-12549
-
-
Pallan, P.S.1
Egli, M.2
-
16
-
-
37549025441
-
Structure and activity of Y-class DNA polymerase DPO4 from Sulfolobus solfataricus with templates containing the hydrophobic thymine analog 2,4-difluorotoluene
-
Irimia, A., Eoff, R. L., Pallan, P. S., Guengerich, F. P., and Egli, M. (2007) Structure and activity of Y-class DNA polymerase DPO4 from Sulfolobus solfataricus with templates containing the hydrophobic thymine analog 2,4-difluorotoluene J. Biol. Chem. 282, 36421-36433
-
(2007)
J. Biol. Chem.
, vol.282
, pp. 36421-36433
-
-
Irimia, A.1
Eoff, R.L.2
Pallan, P.S.3
Guengerich, F.P.4
Egli, M.5
-
17
-
-
47249092776
-
Importance of hydrogen bonding for efficiency and specificity of the human mitochondrial DNA polymerase
-
Lee, H. R., Helquist, S. A., Kool, E. T., and Johnson, K. A. (2008) Importance of hydrogen bonding for efficiency and specificity of the human mitochondrial DNA polymerase J. Biol. Chem. 283, 14402-14410
-
(2008)
J. Biol. Chem.
, vol.283
, pp. 14402-14410
-
-
Lee, H.R.1
Helquist, S.A.2
Kool, E.T.3
Johnson, K.A.4
-
18
-
-
31044454139
-
DNA polymerase catalysis in the absence of Watson-Crick hydrogen bonds: Analysis by single-turnover kinetcs
-
Potapova, O., Chan, C., Delucia, A. M., Helquist, S. A., Kool, E. T., Grindley, D. F., and Joyce, C. M. (2006) DNA polymerase catalysis in the absence of Watson-Crick hydrogen bonds: analysis by single-turnover kinetcs Biochemistry 45, 890-898
-
(2006)
Biochemistry
, vol.45
, pp. 890-898
-
-
Potapova, O.1
Chan, C.2
Delucia, A.M.3
Helquist, S.A.4
Kool, E.T.5
Grindley, D.F.6
Joyce, C.M.7
-
19
-
-
0027217643
-
Compilation, alignment, and phylogenetic relationships of DNA polymerases
-
Braithwaite, D. K. and Ito, J. (1993) Compilation, alignment, and phylogenetic relationships of DNA polymerases Nucleic Acids Res. 21, 787-802
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 787-802
-
-
Braithwaite, D.K.1
Ito, J.2
-
20
-
-
67651218926
-
RB69 DNA polymerase mutants with expanded nascent base-pair-binding pockets are highly efficient but have reduced base selectivity
-
Zhang, H., Beckman, J., Wang, J., and Konigsberg, W. (2009) RB69 DNA polymerase mutants with expanded nascent base-pair-binding pockets are highly efficient but have reduced base selectivity Biochemistry 48, 6940-6950
-
(2009)
Biochemistry
, vol.48
, pp. 6940-6950
-
-
Zhang, H.1
Beckman, J.2
Wang, J.3
Konigsberg, W.4
-
21
-
-
0035997351
-
Active site tightness and substrate fit in DNA replication
-
Kool, E. T. (2002) Active site tightness and substrate fit in DNA replication Annu. Rev. Biochem. 71, 191-219
-
(2002)
Annu. Rev. Biochem.
, vol.71
, pp. 191-219
-
-
Kool, E.T.1
-
22
-
-
79959915790
-
Hydrogen-bonding capability of a templating difluorotoluene nucleotide residue in an RB69 DNA polymerase ternary complex
-
Xia, S., Konigsberg, W. H., and Wang, J. (2011) Hydrogen-bonding capability of a templating difluorotoluene nucleotide residue in an RB69 DNA polymerase ternary complex J. Am. Chem. Soc. 133, 10003-10005
-
(2011)
J. Am. Chem. Soc.
, vol.133
, pp. 10003-10005
-
-
Xia, S.1
Konigsberg, W.H.2
Wang, J.3
-
23
-
-
79952077426
-
Insight into base selectivity from the 1.8 A resolution structure of an RB69 DNA polymerase ternary complex
-
Wang, M., Xia, S., Blaha, G., Steitz, T. A., Konigsberg, W. H., and Wang, J. (2010) Insight into base selectivity from the 1.8 A resolution structure of an RB69 DNA polymerase ternary complex Biochemistry 50, 581-590
-
(2010)
Biochemistry
, vol.50
, pp. 581-590
-
-
Wang, M.1
Xia, S.2
Blaha, G.3
Steitz, T.A.4
Konigsberg, W.H.5
Wang, J.6
-
24
-
-
80054973131
-
Structural insights into complete metal ion coordination from ternary complexes of B family RB69 DNA polymerase
-
Xia, S., Wang, M., Blaha, G., Konigsberg, W. H., and Wang, J. (2011) Structural insights into complete metal ion coordination from ternary complexes of B family RB69 DNA polymerase Biochemistry 50, 9114-9124
-
(2011)
Biochemistry
, vol.50
, pp. 9114-9124
-
-
Xia, S.1
Wang, M.2
Blaha, G.3
Konigsberg, W.H.4
Wang, J.5
-
25
-
-
79951677675
-
Variation in mutation rates caused by RB69pol fidelity mutants can be rationalized on the basis of their kinetic behavior and crystal structures
-
Xia, S., Wang, M., Lee, H. R., Sinha, A., Blaha, G., Christian, T., Wang, J., and Konigsberg, W. (2011) Variation in mutation rates caused by RB69pol fidelity mutants can be rationalized on the basis of their kinetic behavior and crystal structures J. Mol. Biol. 406, 558-570
-
(2011)
J. Mol. Biol.
, vol.406
, pp. 558-570
-
-
Xia, S.1
Wang, M.2
Lee, H.R.3
Sinha, A.4
Blaha, G.5
Christian, T.6
Wang, J.7
Konigsberg, W.8
-
26
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
Otwinowski, Z. and Minor, W. (1997) Processing of X-ray diffraction data collected in oscillation mode Methods Enzymol. 307-326
-
(1997)
Methods Enzymol.
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
27
-
-
0037418665
-
Structural basis for GroEL-assisted protein folding from the crystal structure of (GroEL-KMgATP)14 at 2.0 A resolution
-
Wang, J. and Boisvert, D. C. (2003) Structural basis for GroEL-assisted protein folding from the crystal structure of (GroEL-KMgATP)14 at 2.0 A resolution J. Mol. Biol. 327, 843-855
-
(2003)
J. Mol. Biol.
, vol.327
, pp. 843-855
-
-
Wang, J.1
Boisvert, D.C.2
-
28
-
-
77956495754
-
Inclusion of weak high-resolution X-ray data for improvement of a group II intron structure
-
Wang, J. (2010) Inclusion of weak high-resolution X-ray data for improvement of a group II intron structure Acta Crystallogr. D66, 998-1000
-
(2010)
Acta Crystallogr.
, vol.66
, pp. 998-1000
-
-
Wang, J.1
-
29
-
-
34447508216
-
Phaser crystallographic software
-
McCoy, A. J., Grosse-Kunstleve, R. W., Adams, P. D., Winn, M. D., Storoni, L. C., and Read, R. J. (2007) Phaser crystallographic software J. Appl. Crystallogr. 40, 658-674
-
(2007)
J. Appl. Crystallogr.
, vol.40
, pp. 658-674
-
-
McCoy, A.J.1
Grosse-Kunstleve, R.W.2
Adams, P.D.3
Winn, M.D.4
Storoni, L.C.5
Read, R.J.6
-
30
-
-
13244281317
-
Coot: Model-building tools for molecular graphics
-
Emsley, P. and Cowtan, K. (2004) Coot: model-building tools for molecular graphics Acta Crystallogr. D60, 2126-2132
-
(2004)
Acta Crystallogr.
, vol.60
, pp. 2126-2132
-
-
Emsley, P.1
Cowtan, K.2
-
31
-
-
0030924992
-
Refinement of macromolecular structures by the maximum-likelihood method
-
Murshudov, G. N., Vagin, A. A., and Dodson, E. J. (1997) Refinement of macromolecular structures by the maximum-likelihood method Acta Crystallogr. D53, 240-255
-
(1997)
Acta Crystallogr.
, vol.53
, pp. 240-255
-
-
Murshudov, G.N.1
Vagin, A.A.2
Dodson, E.J.3
-
33
-
-
84863141188
-
-
The PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC.
-
The PyMOL Molecular Graphics System, Version 1.2r3pre, Schrödinger, LLC.
-
-
-
-
34
-
-
0035369086
-
Structure of the replicating complex of a pol α family polymerase
-
Franklin, M. C., Wang, J., and Steitz, T. A. (2001) Structure of the replicating complex of a pol α family polymerase Cell 105, 657-667
-
(2001)
Cell
, vol.105
, pp. 657-667
-
-
Franklin, M.C.1
Wang, J.2
Steitz, T.A.3
-
35
-
-
41849113508
-
Solution structure of a DNA duplex containing a guanine-difluorotoluene pair: A wobble pair without hydrogen bonding?
-
Pfaff, D. A., Clarke, K. M., Parr, T. A., Cole, J. M., Geierstanger, B. H., Tahmassebi, D. C., and Dwyer, T. J. (2008) Solution structure of a DNA duplex containing a guanine-difluorotoluene pair: a wobble pair without hydrogen bonding? J. Am. Chem. Soc. 130, 4869-4878
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 4869-4878
-
-
Pfaff, D.A.1
Clarke, K.M.2
Parr, T.A.3
Cole, J.M.4
Geierstanger, B.H.5
Tahmassebi, D.C.6
Dwyer, T.J.7
|