-
2
-
-
0022577219
-
The base substitution fidelity of eucaryotic DNA polymerases
-
Kunkel, T. A. & Alexander, P. S. (1986). The base substitution fidelity of eucaryotic DNA polymerases. J. Biol. Chem. 261, 160-166.
-
(1986)
J. Biol. Chem.
, vol.261
, pp. 160-166
-
-
Kunkel, T.A.1
Alexander, P.S.2
-
3
-
-
0033597779
-
Base substitution specificity of DNA polymerase β depends on interactions in the DNA minor groove
-
Osheroff, W. P., Beard, W. A., Wilson, S. H. & Kunkel, T. A. (1999). Base substitution specificity of DNA polymerase β depends on interactions in the DNA minor groove. J. Biol. Chem. 274, 20749-20752.
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 20749-20752
-
-
Osheroff, W.P.1
Beard, W.A.2
Wilson, S.H.3
Kunkel, T.A.4
-
4
-
-
0035812844
-
Error-prone DNA polymerases: Novel structures and the benefits of infidelity
-
Friedberg, E. C., Fischhaber, P. L. & Kisker, C. (2001). Error-prone DNA polymerases: novel structures and the benefits of infidelity. Cell, 107, 9-12.
-
(2001)
Cell
, vol.107
, pp. 9-12
-
-
Friedberg, E.C.1
Fischhaber, P.L.2
Kisker, C.3
-
5
-
-
0000438948
-
Calculation of the potential of mean force using molecular dynamics with linear constraints: An application to a conformational transition in a solvated dipeptide
-
Elber, R. (1990). Calculation of the potential of mean force using molecular dynamics with linear constraints: an application to a conformational transition in a solvated dipeptide. J. Chem. Phys. 93, 4312-4321.
-
(1990)
J. Chem. Phys.
, vol.93
, pp. 4312-4321
-
-
Elber, R.1
-
6
-
-
0027794972
-
Targeted molecular dynamics simulations of conformational change - Application to the T↔R transition in insulin
-
Schlitter, J., Engels, M., Krüger, P., Jacoby, E. & Wollmer, A. (1993). Targeted molecular dynamics simulations of conformational change - application to the T↔R transition in insulin. Mol. Sim. 10, 291-309.
-
(1993)
Mol. Sim.
, vol.10
, pp. 291-309
-
-
Schlitter, J.1
Engels, M.2
Krüger, P.3
Jacoby, E.4
Wollmer, A.5
-
7
-
-
0028455053
-
Targeted molecular dynamics: A new approach for searching pathways of conformational transitions
-
Schlitter, J., Engels, M. & Krüger, P. (1994). Targeted molecular dynamics: a new approach for searching pathways of conformational transitions. J. Mol. Graph. 12, 84-89.
-
(1994)
J. Mol. Graph.
, vol.12
, pp. 84-89
-
-
Schlitter, J.1
Engels, M.2
Krüger, P.3
-
8
-
-
0035085863
-
Extending the capabilities of targeted molecular dynamics: Simulation of a large conformational transition in plasminogen activator inhibitor 1
-
Krüger, P., Verheyden, S., Declerck, P. J. & Engelborghs, Y. (2001). Extending the capabilities of targeted molecular dynamics: simulation of a large conformational transition in plasminogen activator inhibitor 1. Protein Sci. 10, 798-808.
-
(2001)
Protein Sci.
, vol.10
, pp. 798-808
-
-
Krüger, P.1
Verheyden, S.2
Declerck, P.J.3
Engelborghs, Y.4
-
9
-
-
0035815288
-
Dynamic coupling between the SH2 and SH3 domains of c-Src and Hck underlies their inactivation by C-terminal tyrosine phosphorylation
-
Young, M. A., Gonfloni, S., Superti-Furga, G., Roux, B. & Kuriyan, J. (2001). Dynamic coupling between the SH2 and SH3 domains of c-Src and Hck underlies their inactivation by C-terminal tyrosine phosphorylation. Cell, 105, 115-126.
-
(2001)
Cell
, vol.105
, pp. 115-126
-
-
Young, M.A.1
Gonfloni, S.2
Superti-Furga, G.3
Roux, B.4
Kuriyan, J.5
-
10
-
-
0025783442
-
Fidelity mechanism in DNA replication
-
Echols, H. & Goodman, M. F. (1991). Fidelity mechanism 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
-
11
-
-
0031883128
-
Structural insights into DNA polymerase β fidelity: Hold tight if you want it right
-
Beard, W. A. & Wilson, S. H. (1998). Structural insights into DNA polymerase β fidelity: hold tight if you want it right. Chem. Biol. 5, R7-R13.
-
(1998)
Chem. Biol.
, vol.5
-
-
Beard, W.A.1
Wilson, S.H.2
-
12
-
-
0030930760
-
Crystal structures of human DNA polymerase β complexed with gapped and nicked DNA: Evidence for an induced fit mechanism
-
Sawaya, M. R., Prasad, R., Wilson, S. H., Kraut, J. & Pelletier, H. (1997). Crystal structures of human DNA polymerase β complexed with gapped and nicked DNA: evidence for an induced fit mechanism. Biochemistry, 36, 11205-11215.
-
(1997)
Biochemistry
, vol.36
, pp. 11205-11215
-
-
Sawaya, M.R.1
Prasad, R.2
Wilson, S.H.3
Kraut, J.4
Pelletier, H.5
-
13
-
-
0032535528
-
Crystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymerase I: Structural basis for nucleotide incorporation
-
Li, Y., Korolev, S. & Waksman, G. (1998). Crystal structures of open and closed forms of binary and ternary complexes of the large fragment of Thermus aquaticus DNA polymerase I: structural basis for nucleotide incorporation. EMBO J. 17, 7514-7525.
-
(1998)
EMBO J.
, vol.17
, pp. 7514-7525
-
-
Li, Y.1
Korolev, S.2
Waksman, G.3
-
14
-
-
0033080970
-
An open and closed case for all polymerases
-
Doublié, S., Sawaya, M. R. & Ellenberger, T. (1999). An open and closed case for all polymerases. Structure, 7, R31-R35.
-
(1999)
Structure
, vol.7
-
-
Doublié, S.1
Sawaya, M.R.2
Ellenberger, T.3
-
15
-
-
33749048664
-
Genetical implications of the structure of deoxyribonucleic acid
-
Watson, J. D. & Crick, F. H. C. (1953). Genetical implications of the structure of deoxyribonucleic acid. Nature, 171, 964-967.
-
(1953)
Nature
, vol.171
, pp. 964-967
-
-
Watson, J.D.1
Crick, F.H.C.2
-
17
-
-
0034678016
-
Mimicking the structure and function of DNA: Insight into DNA stability and replication
-
Kool, E. T., Morales, J. C. & Guckian, K. M. (2000). Mimicking the structure and function of DNA: insight into DNA stability and replication. Angew. Chem. Int. Ed. 39, 990-1009.
-
(2000)
Angew. Chem. Int. Ed.
, vol.39
, pp. 990-1009
-
-
Kool, E.T.1
Morales, J.C.2
Guckian, K.M.3
-
18
-
-
0031774216
-
Replication of non-hydrogen bonded bases by DNA polymerases: A mechanism for steric matching
-
Kool, E. T. (1998). Replication of non-hydrogen bonded bases by DNA polymerases: a mechanism for steric matching. Biopolymers, 48, 3-17.
-
(1998)
Biopolymers
, vol.48
, pp. 3-17
-
-
Kool, E.T.1
-
19
-
-
0030924437
-
Hydrogen bonding revisited: Geometric selection as a principal determinant of DNA replication fidelity
-
Goodman, M. F. (1997). Hydrogen bonding revisited: geometric selection as a principal determinant of DNA replication fidelity. Proc. Natl Acad. Sci. USA, 94, 10493-10495.
-
(1997)
Proc. Natl. Acad. Sci. USA
, vol.94
, pp. 10493-10495
-
-
Goodman, M.F.1
-
20
-
-
0032518374
-
A mechanism for all polymerases
-
Steitz, T. A. (1998). A mechanism for all polymerases. Nature, 391, 231-232.
-
(1998)
Nature
, vol.391
, pp. 231-232
-
-
Steitz, T.A.1
-
21
-
-
0032100860
-
Mammalian base excision repair and DNA polymerase β
-
Wilson, S. H. (1998). Mammalian base excision repair and DNA polymerase β. Mutat. Res. 407, 203-215.
-
(1998)
Mutat. Res.
, vol.407
, pp. 203-215
-
-
Wilson, S.H.1
-
22
-
-
0034734386
-
Structural design of a eukaryotic DNA repair polymerase: DNA polymerase β
-
Beard, W. A. & Wilson, S. H. (2000). Structural design of a eukaryotic DNA repair polymerase: DNA poly-merase β. Mutat. Res. 460, 231-244.
-
(2000)
Mutat. Res.
, vol.460
, pp. 231-244
-
-
Beard, W.A.1
Wilson, S.H.2
-
23
-
-
0021984004
-
Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP
-
Ollis, D. L., Brick, P., Hamlin, R., Xuong, N. G. & Steitz, T. A. (1985). Structure of large fragment of Escherichia coli DNA polymerase I complexed with dTMP. Nature, 313, 762-766.
-
(1985)
Nature
, vol.313
, pp. 762-766
-
-
Ollis, D.L.1
Brick, P.2
Hamlin, R.3
Xuong, N.G.4
Steitz, T.A.5
-
24
-
-
0027220197
-
Conformational coupling in DNA polymerase fidelity
-
Johnson, K. A. (1993). Conformational coupling in DNA polymerase fidelity. Annu. Rev. Biochem. 62, 685-713.
-
(1993)
Annu. Rev. Biochem.
, vol.62
, pp. 685-713
-
-
Johnson, K.A.1
-
25
-
-
0030760966
-
DNA polymerase β: Multiple conformational changes in the mechanism of catalysis
-
Zhong, X., Patel, S. S., Werneburg, B. G. & Tsai, M.-D. (1997). DNA polymerase β: multiple conformational changes in the mechanism of catalysis. Biochemistry, 36, 11891-11900.
-
(1997)
Biochemistry
, vol.36
, pp. 11891-11900
-
-
Zhong, X.1
Patel, S.S.2
Werneburg, B.G.3
Tsai, M.-D.4
-
26
-
-
0035793560
-
DNA structure and aspartate 276 influence nucleotide binding to human DNA polymerase β
-
Vande Berg, B. J., Beard, W. A. & Wilson, S. H. (2001). DNA structure and aspartate 276 influence nucleotide binding to human DNA polymerase β. J. Biol. Chem. 276, 3408-3416.
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 3408-3416
-
-
Vande Berg, B.J.1
Beard, W.A.2
Wilson, S.H.3
-
27
-
-
0035826622
-
Insight into the catalytic mechanism of DNA polymerase β: Structures of intermediate complexes
-
Arndt, J. W., Gong, W., Zhong, X., Showalter, A. K., Liu, J., Dunlap, C. A. et al. (2001). Insight into the catalytic mechanism of DNA polymerase β: structures of intermediate complexes. Biochemistry, 40, 5368-5375.
-
(2001)
Biochemistry
, vol.40
, pp. 5368-5375
-
-
Arndt, J.W.1
Gong, W.2
Zhong, X.3
Showalter, A.K.4
Liu, J.5
Dunlap, C.A.6
-
28
-
-
0035815755
-
Y265H mutator mutant of DNA polymerase β
-
Shah, A. M., Li, S.-X., Anderson, K. S. & Sweasy, J. B. (2001). Y265H mutator mutant of DNA polymerase β. J. Biol. Chem. 276, 10824-10831.
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 10824-10831
-
-
Shah, A.M.1
Li, S.-X.2
Anderson, K.S.3
Sweasy, J.B.4
-
29
-
-
0036295231
-
Polymerase β simulations suggest that Arg258 rotation is a slow step rather than large subdomain motion per se
-
Yang, L., Beard, W. A., Wilson, S. H., Broyde, S. & Schlick, T. (2002). Polymerase β simulations suggest that Arg258 rotation is a slow step rather than large subdomain motion per se. J. Mol. Biol. 317, 651-671.
-
(2002)
J. Mol. Biol.
, vol.317
, pp. 651-671
-
-
Yang, L.1
Beard, W.A.2
Wilson, S.H.3
Broyde, S.4
Schlick, T.5
-
30
-
-
0034657550
-
Computer simulations of protein folding by targeted molecular dynamics
-
Ferrara, P., Apostolakis, J. & Caflisch, A. (2000). Computer simulations of protein folding by targeted molecular dynamics. Proteins: Struct. Funct. Genet. 39, 252-260.
-
(2000)
Proteins: Struct. Funct. Genet.
, vol.39
, pp. 252-260
-
-
Ferrara, P.1
Apostolakis, J.2
Caflisch, A.3
-
32
-
-
0028049441
-
Structures of ternary complexes of rat DNA polymerase β, a DNA template-primer, and ddCTP
-
Pelletier, H., Sawaya, M. R., Kumar, A., Wilson, S. H. & Kraut, J. (1994). Structures of ternary complexes of rat DNA polymerase β, a DNA template-primer, and ddCTP. Science, 264, 1891-1903.
-
(1994)
Science
, vol.264
, pp. 1891-1903
-
-
Pelletier, H.1
Sawaya, M.R.2
Kumar, A.3
Wilson, S.H.4
Kraut, J.5
-
33
-
-
0037041029
-
Loss of DNA polymerase β stacking interactions with templating purines, but not pyrimidines, alters catalytic efficiency and fidelity
-
Beard, W. A., Shock, D. D., Yang, X.-P., DeLauder, S. F. & Wilson, S. H. (2002). Loss of DNA polymerase β stacking interactions with templating purines, but not pyrimidines, alters catalytic efficiency and fidelity. J. Biol. Chem. 277, 8235-8242.
-
(2002)
J. Biol. Chem.
, vol.277
, pp. 8235-8242
-
-
Beard, W.A.1
Shock, D.D.2
Yang, X.-P.3
DeLauder, S.F.4
Wilson, S.H.5
-
34
-
-
0030897244
-
DNA polymerase β analysis of the contributions of tyrosine-271 and asparagine-279 to substrate specificity and fidelity of DNA replication by pre-steady-state kinetics
-
Kraynov, V. S., Werneburg, B. G., Zhong, X., Lee, H., Ahn, J. & Tsai, M.-D. (1997). DNA polymerase β analysis of the contributions of tyrosine-271 and asparagine-279 to substrate specificity and fidelity of DNA replication by pre-steady-state kinetics. Biochem. J. 323, 103-111.
-
(1997)
Biochem. J.
, vol.323
, pp. 103-111
-
-
Kraynov, V.S.1
Werneburg, B.G.2
Zhong, X.3
Lee, H.4
Ahn, J.5
Tsai, M.-D.6
-
35
-
-
0031053276
-
DNA polymerase β structure-fidelity relationship from pre-steady-state kinetic analyses of all possible correct and incorrect base pairs for wild type and R283A mutant
-
Ahn, J., Werneburg, B. G. & Tsai, M.-D. (1997). DNA polymerase β structure-fidelity relationship from pre-steady-state kinetic analyses of all possible correct and incorrect base pairs for wild type and R283A mutant. Biochemistry, 36, 1100-1107.
-
(1997)
Biochemistry
, vol.36
, pp. 1100-1107
-
-
Ahn, J.1
Werneburg, B.G.2
Tsai, M.-D.3
-
36
-
-
17544370107
-
Enzyme-DNA interactions required for efficient nucleotide incorporation and discrimination in human DNA polymerase β
-
Beard, W. A., Osheroff, W. P., Prasad, R., Sawaya, M. R., Jaju, M., Wood, T. G. et al. (1996). Enzyme-DNA interactions required for efficient nucleotide incorporation and discrimination in human DNA polymerase β. J. Biol. Chem. 271, 12141-12144.
-
(1996)
J. Biol. Chem.
, vol.271
, pp. 12141-12144
-
-
Beard, W.A.1
Osheroff, W.P.2
Prasad, R.3
Sawaya, M.R.4
Jaju, M.5
Wood, T.G.6
-
37
-
-
0034623139
-
Minor groove interactions at the DNA polymerase β active site modulate single-base deletion error rates
-
Osheroff, W. P., Beard, W. A., Yin, S., Wilson, S. H. & Kunkel, T. A. (2000). Minor groove interactions at the DNA polymerase β active site modulate single-base deletion error rates. J. Biol. Chem. 275, 28033-28038.
-
(2000)
J. Biol. Chem.
, vol.275
, pp. 28033-28038
-
-
Osheroff, W.P.1
Beard, W.A.2
Yin, S.3
Wilson, S.H.4
Kunkel, T.A.5
-
39
-
-
0026019625
-
Structural basis for the 3′-5′ exonuclease activity of Escherichia coli DNA polymerase I: A two metal ion mechanism
-
Beese, L. S. & Steitz, T. A. (1991). Structural basis for the 3′-5′ exonuclease activity of Escherichia coli DNA polymerase I: a two metal ion mechanism. EMBO J. 9, 25-33.
-
(1991)
EMBO J.
, vol.9
, pp. 25-33
-
-
Beese, L.S.1
Steitz, T.A.2
-
40
-
-
0027411261
-
DNA- and RNA-dependent DNA polymerases
-
Steitz, T. A. (1993). DNA- and RNA-dependent DNA polymerases. Curr. Opin. Struct. Biol. 3, 31-38.
-
(1993)
Curr. Opin. Struct. Biol.
, vol.3
, pp. 31-38
-
-
Steitz, T.A.1
-
41
-
-
0028606031
-
A unified polymerase mechanism for non-homologous DNA and RNA polymerases
-
Steitz, T. A., Smerdon, S. J., Jäger, J. & Joyce, C. M. (1994). A unified polymerase mechanism for non-homologous DNA and RNA polymerases. Science, 266, 2022-2025.
-
(1994)
Science
, vol.266
, pp. 2022-2025
-
-
Steitz, T.A.1
Smerdon, S.J.2
Jäger, J.3
Joyce, C.M.4
-
42
-
-
0027231782
-
Structure of DNA polymerase I Klenow fragment bound to duplex DNA
-
Beese, L. S., Derbyshire, V. & Steitz, T. A. (1993). Structure of DNA polymerase I Klenow fragment bound to duplex DNA. Science, 260, 352-355.
-
(1993)
Science
, vol.260
, pp. 352-355
-
-
Beese, L.S.1
Derbyshire, V.2
Steitz, T.A.3
-
43
-
-
0028983795
-
Crystal structure of Thermus aquaticus DNA polymerase
-
Kim, Y., Eom, S. H., Wang, J., Lee, D. S., Suh, S. W. & Steitz, T. A. (1995). Crystal structure of Thermus aquaticus DNA polymerase. Nature, 376, 612-616.
-
(1995)
Nature
, vol.376
, pp. 612-616
-
-
Kim, Y.1
Eom, S.H.2
Wang, J.3
Lee, D.S.4
Suh, S.W.5
Steitz, T.A.6
-
44
-
-
0029817866
-
Crystal structures of human DNA polymerase β complexed with DNA: Implications for catalytic mechanism, processivity, and fidelity
-
Pelletier, H., Sawaya, M. R., Wolfle, W., Wilson, S. H. & Kraut, J. (1996). Crystal structures of human DNA polymerase β complexed with DNA: implications for catalytic mechanism, processivity, and fidelity. Biochemistry, 35, 12742-12761.
-
(1996)
Biochemistry
, vol.35
, pp. 12742-12761
-
-
Pelletier, H.1
Sawaya, M.R.2
Wolfle, W.3
Wilson, S.H.4
Kraut, J.5
-
45
-
-
0030592095
-
Structure of Taq polymerase with DNA at the polymerase active site
-
Eom, S. H., Wang, J. & Steitz, T. A. (1996). Structure of Taq polymerase with DNA at the polymerase active site. Nature, 382, 278-281.
-
(1996)
Nature
, vol.382
, pp. 278-281
-
-
Eom, S.H.1
Wang, J.2
Steitz, T.A.3
-
46
-
-
0031568308
-
Crystal structure of a thermostable Bacillus DNA polymerase I large fragment at 2.1 Å resolution
-
Kiefer, J. R., Mao, C., Hansen, C. J., Basehore, S. L., Hogrefe, H. H., Braman, J. C. & Beese, L. S. (1997). Crystal structure of a thermostable Bacillus DNA polymerase I large fragment at 2.1 Å resolution. Structure, 5, 95-108.
-
(1997)
Structure
, vol.5
, pp. 95-108
-
-
Kiefer, J.R.1
Mao, C.2
Hansen, C.J.3
Basehore, S.L.4
Hogrefe, H.H.5
Braman, J.C.6
Beese, L.S.7
-
47
-
-
0032518398
-
Crystal structure of a bacteriophage T7 DNA replication complex at 2.2 Å resolution
-
Doublié, S., Tabor, S., Long, A. M., Richardson, C. C. & Ellenberger, T. (1998). Crystal structure of a bacteriophage T7 DNA replication complex at 2.2 Å resolution. Nature, 391, 251-258.
-
(1998)
Nature
, vol.391
, pp. 251-258
-
-
Doublié, S.1
Tabor, S.2
Long, A.M.3
Richardson, C.C.4
Ellenberger, T.5
-
48
-
-
0032518524
-
Visualizing DNA replication in a catalytically active Bacillus DNA polymerase crystal
-
Kiefer, J. R., Mao, C., Braman, J. C. & Beese, L. S. (1998). Visualizing DNA replication in a catalytically active Bacillus DNA polymerase crystal. Nature, 391, 302-305.
-
(1998)
Nature
, vol.391
, pp. 302-305
-
-
Kiefer, J.R.1
Mao, C.2
Braman, J.C.3
Beese, L.S.4
-
49
-
-
0032573488
-
Structure of a covalently trapped catalytic complex of HIV-1 reverse transcriptase: Implications for drug resistance
-
Huang, H., Chopra, R., Verdine, G. L. & Harrison, S. C. (1998). Structure of a covalently trapped catalytic complex of HIV-1 reverse transcriptase: implications for drug resistance. Science, 282, 1669-1675.
-
(1998)
Science
, vol.282
, pp. 1669-1675
-
-
Huang, H.1
Chopra, R.2
Verdine, G.L.3
Harrison, S.C.4
-
50
-
-
0032055511
-
DNA polymerase β effects of gapped DNA substrates on dNTP specificity, fidelity, processivity and conformational changes
-
Ahn, J., Kraynov, V. S., Zhong, X., Werneburg, B. G. & Tsai, M.-D. (1998). DNA polymerase β effects of gapped DNA substrates on dNTP specificity, fidelity, processivity and conformational changes. Biochem. J. 331, 79-87.
-
(1998)
Biochem. J.
, vol.331
, pp. 79-87
-
-
Ahn, J.1
Kraynov, V.S.2
Zhong, X.3
Werneburg, B.G.4
Tsai, M.-D.5
-
51
-
-
0032538456
-
Selective inhibition of HIV-1 reverse transcriptase by an antiviral inhibitor (R)-9-(2-phosphonylmethoxypropyl)adenine
-
Suo, Z. & Johnson, K. A. (1998). Selective inhibition of HIV-1 reverse transcriptase by an antiviral inhibitor (R)-9-(2-phosphonylmethoxypropyl)ade-nine. J. Biol. Chem. 273, 27250-27258.
-
(1998)
J. Biol. Chem.
, vol.273
, pp. 27250-27258
-
-
Suo, Z.1
Johnson, K.A.2
-
52
-
-
0025799903
-
Kinetic mechanism of DNA polymerase I (Klenow fragment): Identification of a second conformational change and evaluation of the internal equilibrium constant
-
Dahlberg, M. E. & Benkovic, S. J. (1991). Kinetic mechanism of DNA polymerase I (Klenow fragment): identification of a second conformational change and evaluation of the internal equilibrium constant. Biochemistry, 30, 4835-4843.
-
(1991)
Biochemistry
, vol.30
, pp. 4835-4843
-
-
Dahlberg, M.E.1
Benkovic, S.J.2
-
53
-
-
0023657032
-
Kinetic mechanism of DNA polymerase I (Klenow)
-
Kuchta, R. D., Mizrahi, V., Benkovic, P. A., Johnson, K. A. & Benkovic, S. J. (1987). Kinetic mechanism of DNA polymerase I (Klenow). Biochemistry, 26, 8410-8417.
-
(1987)
Biochemistry
, vol.26
, pp. 8410-8417
-
-
Kuchta, R.D.1
Mizrahi, V.2
Benkovic, P.A.3
Johnson, K.A.4
Benkovic, S.J.5
-
54
-
-
0026033193
-
Pre-steady-state kinetic analysis of processive DNA replication inducing complete characterization of an exonuclease-deficient mutant
-
Patel, S. S., Wong, I. & Johnson, K. A. (1991). Pre-steady-state kinetic analysis of processive DNA replication inducing complete characterization of an exonuclease-deficient mutant. Biochemistry, 30, 511-525.
-
(1991)
Biochemistry
, vol.30
, pp. 511-525
-
-
Patel, S.S.1
Wong, I.2
Johnson, K.A.3
-
55
-
-
0026026192
-
An induced-fit kinetic mechanism for DNA replication fidelity: Direct measurement by single-turnover kinetics
-
Wong, I., Patel, S. S. & Johnson, K. A. (1991). An induced-fit kinetic mechanism for DNA replication fidelity: direct measurement by single-turnover kinetics. Biochemistry, 30, 526-537.
-
(1991)
Biochemistry
, vol.30
, pp. 526-537
-
-
Wong, I.1
Patel, S.S.2
Johnson, K.A.3
-
56
-
-
0026464542
-
Kinetic characterization of the polymerase and exonuclease activities of the gene 43 protein of bacteriophage T4
-
Capson, T. L., Peliska, J. A., Kaboord, B. F., Frey, M. W., Lively, C., Dahlberg, M. & Benkovic, S. J. (1992). Kinetic characterization of the polymerase and exonuclease activities of the gene 43 protein of bacteriophage T4. Biochemistry, 31, 10984-10994.
-
(1992)
Biochemistry
, vol.31
, pp. 10984-10994
-
-
Capson, T.L.1
Peliska, J.A.2
Kaboord, B.F.3
Frey, M.W.4
Lively, C.5
Dahlberg, M.6
Benkovic, S.J.7
-
57
-
-
0027092323
-
Mechanism and fidelity of HIV reverse transcriptase
-
Kati, W. M., Johnson, K. A., Jerva, L. F. & Anderson, K. S. (1992). Mechanism and fidelity of HIV reverse transcriptase. J. Biol. Chem. 267, 25988-25997.
-
(1992)
J. Biol. Chem.
, vol.267
, pp. 25988-25997
-
-
Kati, W.M.1
Johnson, K.A.2
Jerva, L.F.3
Anderson, K.S.4
-
58
-
-
0030711505
-
RNA dependent DNA replication fidelity of HIV-1 reverse transcriptase: Evidence of discrimination between DNA and RNA substrates
-
Kerr, S. G. & Anderson, K. S. (1997). RNA dependent DNA replication fidelity of HIV-1 reverse transcrip-tase: evidence of discrimination between DNA and RNA substrates. Biochemistry, 36, 14056-14063.
-
(1997)
Biochemistry
, vol.36
, pp. 14056-14063
-
-
Kerr, S.G.1
Anderson, K.S.2
-
59
-
-
0034979126
-
Hydrogen bonding, base stacking, and steric effects in DNA replication
-
Kool, E. T. (2001). Hydrogen bonding, base stacking, and steric effects in DNA replication. Annu. Rev. Biophys. Biomol. Struct. 30, 1-22.
-
(2001)
Annu. Rev. Biophys. Biomol. Struct.
, vol.30
, pp. 1-22
-
-
Kool, E.T.1
-
60
-
-
0025163907
-
Base mispair extension kinetics. Comparison of DNA polymerase α and reverse transcriptase
-
Mendelman, L. V., Petruska, J. & Goodman, M. F. (1990). Base mispair extension kinetics. Comparison of DNA polymerase α and reverse transcriptase. J. Biol. Chem. 265, 2338-2346.
-
(1990)
J. Biol. Chem.
, vol.265
, pp. 2338-2346
-
-
Mendelman, L.V.1
Petruska, J.2
Goodman, M.F.3
-
61
-
-
0037034035
-
An exonucleolytic activity of human apurinic/apyrimidinic endonuclease on 3′ mispaired DNA
-
Chou, K. M. & Chou, Y. C. (2002). An exonucleolytic activity of human apurinic/apyrimidinic endonuclease on 3′ mispaired DNA. Nature, 415, 655-659.
-
(2002)
Nature
, vol.415
, pp. 655-659
-
-
Chou, K.M.1
Chou, Y.C.2
-
62
-
-
0027267249
-
Biochemical basis of DNA replication fidelity
-
Goodman, M. F., Creighton, S., Bloom, L. B. & 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
-
63
-
-
0033544858
-
The E249K mutator mutant of DNA polymerase β extends mispaired termini
-
Kosa, J. L. & Sweasy, J. B. (1999). The E249K mutator mutant of DNA polymerase β extends mispaired termini. J. Biol. Chem. 274, 35866-35872.
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 35866-35872
-
-
Kosa, J.L.1
Sweasy, J.B.2
-
64
-
-
0033954256
-
The protein data bank
-
Berman, H. M., Westbrook, J., Feng, Z., Gilliland, G., Bhat, T. N., Weissig, H. et al. (2000). The Protein Data Bank. Nucl. Acids Res. 28, 235-242.
-
(2000)
Nucl. Acids Res.
, vol.28
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
-
65
-
-
0024250301
-
Polar hydrogen positions in proteins: Empirical energy placement and neutron diffraction comparison
-
Brünger, A. T. & Karplus, M. (1988). Polar hydrogen positions in proteins: empirical energy placement and neutron diffraction comparison. Proteins: Struct. Funct. Genet. 4, 148-156.
-
(1988)
Proteins: Struct. Funct. Genet.
, vol.4
, pp. 148-156
-
-
Brünger, A.T.1
Karplus, M.2
-
66
-
-
0022964504
-
Focusing of electric fields in the active site of Cu-Zn superoxide dismutase: Effects of ion strength and amino-acid modification
-
Klapper, I., Hagstrom, R., Fine, R., Sharp, K. & Honig, B. (1986). Focusing of electric fields in the active site of Cu-Zn superoxide dismutase: effects of ion strength and amino-acid modification. Proteins: Struct. Funct. Genet. 1, 47-59.
-
(1986)
Proteins: Struct. Funct. Genet.
, vol.1
, pp. 47-59
-
-
Klapper, I.1
Hagstrom, R.2
Fine, R.3
Sharp, K.4
Honig, B.5
-
67
-
-
84988087911
-
Calculating the electrostatic potential of molecules in solution: Method and error assessment
-
Gilson, M. K., Sharp, K. & Honig, B. H. (1987). Calculating the electrostatic potential of molecules in solution: method and error assessment. J. Comput. Chem. 9, 327-335.
-
(1987)
J. Comput. Chem.
, vol.9
, pp. 327-335
-
-
Gilson, M.K.1
Sharp, K.2
Honig, B.H.3
-
68
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization, and dynamics calculations
-
Brooks, B. R., Bruccoleri, R. E., Olafson, B. D., States, D. J., Swaminathan, S. & Karplus, M. (1983). CHARMM: a program for macromolecular energy, minimization, and dynamics calculations. J. Comput. Chem. 4, 187-217.
-
(1983)
J. Comput. Chem.
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swaminathan, S.5
Karplus, M.6
-
69
-
-
0000214231
-
Allatom empirical force field for nucleic acids: II. Application to molecular dynamics simulations of DNA and RNA in solution
-
MacKarell, A. D., Jr. & Banavali, N. K. (2000). Allatom empirical force field for nucleic acids: II. Application to molecular dynamics simulations of DNA and RNA in solution. J. Comput. Chem. 21, 105-120.
-
(2000)
J. Comput. Chem.
, vol.21
, pp. 105-120
-
-
MacKarell A.D., Jr.1
Banavali, N.K.2
-
70
-
-
85050535270
-
Optimization methods in computational chemistry
-
Lipkowitz, K. B. & Boyd, D. B., eds, VCH Publishers, New York, NY
-
Schlick, T. (1992). Optimization methods in computational chemistry. In Reviews in Computational Chemistry (Lipkowitz, K. B. & Boyd, D. B., eds), vol. 3, pp. 1-71, VCH Publishers, New York, NY.
-
(1992)
Reviews in Computational Chemistry
, vol.3
, pp. 1-71
-
-
Schlick, T.1
-
71
-
-
0030918284
-
Biomolecular dynamics at long timesteps: Bridging the time-scale gap between simulation and experimentation
-
Schlick, T., Barth, E. & Mandziuk, M. (1997). Biomolecular dynamics at long timesteps: bridging the time-scale gap between simulation and experimentation. Annu. Rev. Biophys. Biomol. Struct. 26, 181-222.
-
(1997)
Annu. Rev. Biophys. Biomol. Struct.
, vol.26
, pp. 181-222
-
-
Schlick, T.1
Barth, E.2
Mandziuk, M.3
-
72
-
-
0000219318
-
Overcoming stability limitation in biomolecular dynamics. I. Combining force splitting via extrapolation with Langevin dynamics in LN
-
Barth, E. & Schlick, T. (1998). Overcoming stability limitation in biomolecular dynamics. I. Combining force splitting via extrapolation with Langevin dynamics in LN. J. Chem. Phys. 109, 1617-1632.
-
(1998)
J. Chem. Phys.
, vol.109
, pp. 1617-1632
-
-
Barth, E.1
Schlick, T.2
-
73
-
-
0008985494
-
Extrapolation versus impulse in multiple-timestepping schemes. II. Linear analysis and applications to Newtonian and Langevin dynamics
-
Barth, E. & Schlick, T. (1998). Extrapolation versus impulse in multiple-timestepping schemes. II. Linear analysis and applications to Newtonian and Langevin dynamics. J. Chem. Phys. 109, 1633-1642.
-
(1998)
J. Chem. Phys.
, vol.109
, pp. 1633-1642
-
-
Barth, E.1
Schlick, T.2
-
74
-
-
0034892788
-
Time-trimming tricks for dynamic simulations: Splitting force updates to reduce computational work
-
Schlick, T. (2001). Time-trimming tricks for dynamic simulations: splitting force updates to reduce computational work. Structure, 9, R45-R53.
-
(2001)
Structure
, vol.9
-
-
Schlick, T.1
-
75
-
-
0030711616
-
Molecular switch in signal transduction: Reaction paths of the conformational changes in ras p21
-
Ma, J. & Karplus, M. (1997). Molecular switch in signal transduction: reaction paths of the conformational changes in ras p21. Proc. Natl Acad. Sci. USA, 94, 11905-11910.
-
(1997)
Proc. Natl. Acad. Sci. USA
, vol.94
, pp. 11905-11910
-
-
Ma, J.1
Karplus, M.2
-
76
-
-
0026244229
-
MOLSCRIPT: A program to produce both detailed and schematic plots of protein structures
-
Kraulis, P. J. (1991). MOLSCRIPT: a program to produce both detailed and schematic plots of protein structures. J. Appl. Crystallog. 24, 946-950.
-
(1991)
J. Appl. Crystallog.
, vol.24
, pp. 946-950
-
-
Kraulis, P.J.1
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