-
1
-
-
0023660681
-
Topological unwinding of strong and weak promoters by RNA polymerase. A comparison between the lac wild-type and the UV5 sites of Escherichia coli
-
Amouyal, M. and Buc, H. (1987) Topological unwinding of strong and weak promoters by RNA polymerase. A comparison between the lac wild-type and the UV5 sites of Escherichia coli. J. Mol. Biol., 195, 795-808.
-
(1987)
J. Mol. Biol.
, vol.195
, pp. 795-808
-
-
Amouyal, M.1
Buc, H.2
-
2
-
-
0027742209
-
Conformational changes in E.coli RNA polymerase during promoter recognition
-
Brodolin, K.L., Studitsky, V.M. and Mirzabekov, A.D. (1993) Conformational changes in E.coli RNA polymerase during promoter recognition. Nucleic Acids Res., 21, 5748-5753.
-
(1993)
Nucleic Acids Res.
, vol.21
, pp. 5748-5753
-
-
Brodolin, K.L.1
Studitsky, V.M.2
Mirzabekov, A.D.3
-
3
-
-
0029970157
-
Visualizing protein-nucleic acid interactions on a large scale with the scanning force microscope
-
Bustamante, C. and Rivetti, C. (1996) Visualizing protein-nucleic acid interactions on a large scale with the scanning force microscope. Annu. Rev. Biophys. Biomol. Struct., 25, 395-429.
-
(1996)
Annu. Rev. Biophys. Biomol. Struct.
, vol.25
, pp. 395-429
-
-
Bustamante, C.1
Rivetti, C.2
-
4
-
-
0027274701
-
Scanning force microscopy of nucleic acids and nucleoprotein assemblies
-
Bustamante, C., Keller, D. and Yang, G. (1993) Scanning force microscopy of nucleic acids and nucleoprotein assemblies. Curr. Opin. Struct. Biol., 3, 363-372.
-
(1993)
Curr. Opin. Struct. Biol.
, vol.3
, pp. 363-372
-
-
Bustamante, C.1
Keller, D.2
Yang, G.3
-
5
-
-
0030733963
-
Scanning force microscopy under aqueous solution
-
Bustamante, C., Rivetti, C. and Keller, D.J. (1997) Scanning force microscopy under aqueous solution. Curr. Opin. Struct. Biol., 7, 709-716.
-
(1997)
Curr. Opin. Struct. Biol.
, vol.7
, pp. 709-716
-
-
Bustamante, C.1
Rivetti, C.2
Keller, D.J.3
-
6
-
-
0028789430
-
2+ binding and its structural consequences at the transcripition start site
-
2+ binding and its structural consequences at the transcripition start site. Biochemistry, 34, 15634-15632.
-
(1995)
Biochemistry
, vol.34
, pp. 15634-115632
-
-
Craig, M.L.1
Suh, W.C.2
Record, M.T.3
-
7
-
-
0024342908
-
Three-dimensional structure of Escherichia coli RNA polymerase holoenzyme determined by electron crystallography
-
Darst, S.A., Kubalek, E.W. and Kornberg, R.D. (1989) Three-dimensional structure of Escherichia coli RNA polymerase holoenzyme determined by electron crystallography. Nature, 340, 730-732.
-
(1989)
Nature
, vol.340
, pp. 730-732
-
-
Darst, S.A.1
Kubalek, E.W.2
Kornberg, R.D.3
-
8
-
-
0030825269
-
RAP74 induces promoter contacts by RNA polymerase II upstream and downstream of a DNA bend centered on the TATA box
-
Forget, D., Robert, F., Grondin, G., Burton, Z.F., Greenblatt, J. and Coulombe, B. (1997) RAP74 induces promoter contacts by RNA polymerase II upstream and downstream of a DNA bend centered on the TATA box. Proc. Natl Acad. Sci. USA, 94, 7150-7155.
-
(1997)
Proc. Natl Acad. Sci. USA
, vol.94
, pp. 7150-7155
-
-
Forget, D.1
Robert, F.2
Grondin, G.3
Burton, Z.F.4
Greenblatt, J.5
Coulombe, B.6
-
9
-
-
0018488093
-
An absolute method for the determination of the persistence length of native DNA from electron micrographs
-
Frontali, C., Dore, E., Ferrauto, A., Gratton, E., Bettini, A., Porzzan, M.R. and Valdevit, E. (1979) An absolute method for the determination of the persistence length of native DNA from electron micrographs. Biopolymers, 18, 1353-1373.
-
(1979)
Biopolymers
, vol.18
, pp. 1353-1373
-
-
Frontali, C.1
Dore, E.2
Ferrauto, A.3
Gratton, E.4
Bettini, A.5
Porzzan, M.R.6
Valdevit, E.7
-
10
-
-
0028957620
-
Applications for atomic force microscopy of DNA
-
Hansma, H.G., Laney, D.E., Bezanilla, M., Sinsheimer, R.L. and Hansma, P.K. (1995) Applications for atomic force microscopy of DNA. Biophys. J., 68, 1672-1677.
-
(1995)
Biophys. J.
, vol.68
, pp. 1672-1677
-
-
Hansma, H.G.1
Laney, D.E.2
Bezanilla, M.3
Sinsheimer, R.L.4
Hansma, P.K.5
-
11
-
-
0011077708
-
Bending and motion of DNA in the atomic force microscope
-
Sarma, R.H. and Sarma, M.H. (eds), Adenine Press, Albany, NY
-
Hansma, H.G., Laney, D.E., Revenko, I., Kim, K. and Cleveland, J.P. (1996) Bending and motion of DNA in the atomic force microscope. In Sarma, R.H. and Sarma, M.H. (eds), Biological Structure and Dynamics. Adenine Press, Albany, NY pp. 249-257.
-
(1996)
Biological Structure and Dynamics
, pp. 249-257
-
-
Hansma, H.G.1
Laney, D.E.2
Revenko, I.3
Kim, K.4
Cleveland, J.P.5
-
12
-
-
0032406321
-
Left-handed conformation of histidine-tagged RNA polymerase complexes imaged by atomic force microscopy
-
Hansma, H.G., Bezanilla, M., Nudler, E., Hansma, P.K., Hoh, J., Kashlev, M., Firouz, N. and Smith, B. (1997) Left-handed conformation of histidine-tagged RNA polymerase complexes imaged by atomic force microscopy. Probe Microsc., 1, 127-143.
-
(1997)
Probe Microsc.
, vol.1
, pp. 127-143
-
-
Hansma, H.G.1
Bezanilla, M.2
Nudler, E.3
Hansma, P.K.4
Hoh, J.5
Kashlev, M.6
Firouz, N.7
Smith, B.8
-
13
-
-
0021111879
-
Compilation and analysis of Escherichia coli promoter DNA sequences
-
Hawley, D.K. and McClure, W.R. (1983) Compilation and analysis of Escherichia coli promoter DNA sequences. Nucleic Acids Res., 11, 2237-2255.
-
(1983)
Nucleic Acids Res.
, vol.11
, pp. 2237-2255
-
-
Hawley, D.K.1
McClure, W.R.2
-
14
-
-
0025000581
-
The structure of DNA in a nucleosome
-
Hayes, J.J., Tullius, T.D. and Wolffe, A.P. (1990) The structure of DNA in a nucleosome. Proc. Natl Acad. Sci. USA, 87, 7405-7409.
-
(1990)
Proc. Natl Acad. Sci. USA
, vol.87
, pp. 7405-7409
-
-
Hayes, J.J.1
Tullius, T.D.2
Wolffe, A.P.3
-
15
-
-
0024278602
-
Spatial arrangement of DNA-dependent RNA polymerase of Escherichia coli and DNA in the specific complex. A neutron smallangle scattering study
-
Heumann, H., Lederer, H., Baer, G., May, R.P., Kjems, J.K. and Crespi, H.L. (1988a) Spatial arrangement of DNA-dependent RNA polymerase of Escherichia coli and DNA in the specific complex. A neutron smallangle scattering study. J. Mol. Biol., 201, 115-125.
-
(1988)
J. Mol. Biol.
, vol.201
, pp. 115-125
-
-
Heumann, H.1
Lederer, H.2
Baer, G.3
May, R.P.4
Kjems, J.K.5
Crespi, H.L.6
-
16
-
-
0024293493
-
DNA-dependent RNA polymerase of Escherichia coli induces bending or an increased flexibility of DNA by specific complex formation
-
Heumann, H., Ricchetti, M. and Werel, W. (1988b) DNA-dependent RNA polymerase of Escherichia coli induces bending or an increased flexibility of DNA by specific complex formation. EMBO J., 7, 4379-4381.
-
(1988)
EMBO J.
, vol.7
, pp. 4379-4381
-
-
Heumann, H.1
Ricchetti, M.2
Werel, W.3
-
17
-
-
0018889806
-
Electron microscopic studies of the binding of Escherichia coli RNA polymerase to DNA. I. Characterization of the non-specific interactions of holoenzyme with a restriction fragment of bacteriophage T7 DNA
-
Kadesch, T.R., Williams, R.C. and Chamberlin, M.J. (1980) Electron microscopic studies of the binding of Escherichia coli RNA polymerase to DNA. I. Characterization of the non-specific interactions of holoenzyme with a restriction fragment of bacteriophage T7 DNA. J. Mol. Biol., 136, 65-78.
-
(1980)
J. Mol. Biol.
, vol.136
, pp. 65-78
-
-
Kadesch, T.R.1
Williams, R.C.2
Chamberlin, M.J.3
-
18
-
-
0031028425
-
Escherichia coli RNA polymerase activity observed using atomic force microscopy
-
Kasas, S. et al. (1997) Escherichia coli RNA polymerase activity observed using atomic force microscopy. Biochemistry, 36, 461-468.
-
(1997)
Biochemistry
, vol.36
, pp. 461-468
-
-
Kasas, S.1
-
19
-
-
0027214148
-
Histidine-tagged RNA polymerase: Dissection of the transcription cycle using immobilized enzyme
-
Kashlev, M., Martin, E., Polyakov, A., Severinov, K., Nikiforov, V. and Goldfarb, A. (1993) Histidine-tagged RNA polymerase: dissection of the transcription cycle using immobilized enzyme. Gene, 130, 9-14.
-
(1993)
Gene
, vol.130
, pp. 9-14
-
-
Kashlev, M.1
Martin, E.2
Polyakov, A.3
Severinov, K.4
Nikiforov, V.5
Goldfarb, A.6
-
20
-
-
0030730281
-
Trajectory of DNA in the RNA polymerase II transcription preinitiation complex
-
Kim, T.-K., Lagrange, T., Wang, Y.-H., Griffith, J.D., Reinberg, D. and Ebright, R.H. (1997) Trajectory of DNA in the RNA polymerase II transcription preinitiation complex. Proc. Natl Acad. Sci. USA, 94, 12268-12273.
-
(1997)
Proc. Natl Acad. Sci. USA
, vol.94
, pp. 12268-12273
-
-
Kim, T.-K.1
Lagrange, T.2
Wang, Y.-H.3
Griffith, J.D.4
Reinberg, D.5
Ebright, R.H.6
-
21
-
-
0024456611
-
RNA polymerase and gal repressor bind simultaneously and with DNA bending to the control region of the Escherichia coli galactose operon
-
Kuhnke, G., Theres, C., Fritz, H.J. and Ehring, R. (1989) RNA polymerase and gal repressor bind simultaneously and with DNA bending to the control region of the Escherichia coli galactose operon. EMBO J., 8, 1247-1255.
-
(1989)
EMBO J.
, vol.8
, pp. 1247-1255
-
-
Kuhnke, G.1
Theres, C.2
Fritz, H.J.3
Ehring, R.4
-
24
-
-
0000974864
-
-
Springer-Verlag, New York, NY
-
Leirmo, S. and Record, M.T. (1990) Structural, Thermodynamic and Kinetic Studies of the Interaction of Escherichia coli σ70 RNA Polymerase with Promoter DNA. Springer-Verlag, New York, NY.
-
(1990)
Structural, Thermodynamic and Kinetic Studies of the Interaction of Escherichia coli σ70 RNA Polymerase with Promoter DNA
-
-
Leirmo, S.1
Record, M.T.2
-
25
-
-
0028351709
-
The structure of the RNA polymerase-promoter complex: DNA bending by quantitative electrooptics
-
Meyer-Alme, F.J., Heumann, H. and Porschke, D. (1994) The structure of the RNA polymerase-promoter complex: DNA bending by quantitative electrooptics. J. Mol. Biol., 236, 1-6.
-
(1994)
J. Mol. Biol.
, vol.236
, pp. 1-6
-
-
Meyer-Alme, F.J.1
Heumann, H.2
Porschke, D.3
-
26
-
-
0028877383
-
Role of curved DNA in binding of Escherichia coli RNA polymerase to promoters
-
Nickerson, C.A. and Achberger, E.C. (1995) Role of curved DNA in binding of Escherichia coli RNA polymerase to promoters. J. Bacteriol., 177, 5756-5761.
-
(1995)
J. Bacteriol.
, vol.177
, pp. 5756-5761
-
-
Nickerson, C.A.1
Achberger, E.C.2
-
27
-
-
0019878041
-
Effect of several metal ions on misincorporation during transcription
-
Niyogi, S.K. and Feldman, R.P. (1981) Effect of several metal ions on misincorporation during transcription. Nucleic Acids Res., 9, 2615-2627.
-
(1981)
Nucleic Acids Res.
, vol.9
, pp. 2615-2627
-
-
Niyogi, S.K.1
Feldman, R.P.2
-
28
-
-
0028875725
-
Three-dimensional structure of E.coli core RNA polymerase: Promoter binding and elongation conformation of the enzyme
-
Polyakov, A., Severinova, E. and Darst, S.A. (1995) Three-dimensional structure of E.coli core RNA polymerase: promoter binding and elongation conformation of the enzyme. Cell, 83, 365-373.
-
(1995)
Cell
, vol.83
, pp. 365-373
-
-
Polyakov, A.1
Severinova, E.2
Darst, S.A.3
-
29
-
-
0027244844
-
Evidence of DNA bending in transcription complexes imaged by scanning force microscopy
-
Rees, W.A., Keller, R.W., Vesenka, J.P., Yang, G. and Bustamante, C. (1993) Evidence of DNA bending in transcription complexes imaged by scanning force microscopy. Science, 260, 1646-1649.
-
(1993)
Science
, vol.260
, pp. 1646-1649
-
-
Rees, W.A.1
Keller, R.W.2
Vesenka, J.P.3
Yang, G.4
Bustamante, C.5
-
30
-
-
0030748519
-
Transcriptional activation via DNA-looping: Visualization of intermediates in the activation pathway of E.coli RNA polymerase-σ54 holoenzyme by scanning force microscopy
-
Rippe, K., Guthold, M., von Hippel, P.H. and Bustamante, C. (1997) Transcriptional activation via DNA-looping: visualization of intermediates in the activation pathway of E.coli RNA polymerase-σ54 holoenzyme by scanning force microscopy. J. Mol. Biol., 270, 125-138.
-
(1997)
J. Mol. Biol.
, vol.270
, pp. 125-138
-
-
Rippe, K.1
Guthold, M.2
Von Hippel, P.H.3
Bustamante, C.4
-
31
-
-
0030596081
-
Scanning force microscopy of DNA deposited on mica: Equilibration versus kinetic trapping studied by polymer chain analysis
-
Rivetti, C., Guthold, M. and Bustamante, C. (1996) Scanning force microscopy of DNA deposited on mica: equilibration versus kinetic trapping studied by polymer chain analysis. J. Mol. Biol., 264, 919-932.
-
(1996)
J. Mol. Biol.
, vol.264
, pp. 919-932
-
-
Rivetti, C.1
Guthold, M.2
Bustamante, C.3
-
32
-
-
0032479186
-
Polymer chain statistics and conformational analysis of DNA molecules with bends or sections of different flexibility
-
Rivetti, C., Walker, C. and Bustamante, C. (1998) Polymer chain statistics and conformational analysis of DNA molecules with bends or sections of different flexibility. J. Mol. Biol., 280, 41-59.
-
(1998)
J. Mol. Biol.
, vol.280
, pp. 41-59
-
-
Rivetti, C.1
Walker, C.2
Bustamante, C.3
-
33
-
-
0032161845
-
Wrapping of promoter DNA around the RNA polymerase II initiation complex induced by TFIIF
-
Robert, F., Douziech, M., Forget, D., Egly, J.M., Greenblatt, J., Burton, Z.F. and Coulombe, B. (1998) Wrapping of promoter DNA around the RNA polymerase II initiation complex induced by TFIIF. Mol. Cell, 2, 341-351.
-
(1998)
Mol. Cell
, vol.2
, pp. 341-351
-
-
Robert, F.1
Douziech, M.2
Forget, D.3
Egly, J.M.4
Greenblatt, J.5
Burton, Z.F.6
Coulombe, B.7
-
34
-
-
0021840415
-
PR promoter interaction. Assignment of the kinetic steps corresponding to protein conformational change and DNA opening
-
PR promoter interaction. Assignment of the kinetic steps corresponding to protein conformational change and DNA opening. J. Mol. Biol., 184, 441-453.
-
(1985)
J. Mol. Biol.
, vol.184
, pp. 441-453
-
-
Roe, J.H.1
Burgess, R.R.2
Record M.T., Jr.3
-
35
-
-
0027761839
-
A third recognition element in bacterial promoters: DNA binding by the a subunit of RNA polymerase
-
Ross, W., Gosink, K.K., Salomon, J., Igarashi, K., Zou, C., Ishihama, A., Severinov, K. and Gourse, R.L. (1993) A third recognition element in bacterial promoters: DNA binding by the a subunit of RNA polymerase. Science, 262, 1407-1412.
-
(1993)
Science
, vol.262
, pp. 1407-1412
-
-
Ross, W.1
Gosink, K.K.2
Salomon, J.3
Igarashi, K.4
Zou, C.5
Ishihama, A.6
Severinov, K.7
Gourse, R.L.8
-
36
-
-
0025369026
-
Topography of intermediates in transcription initiation of E.coli
-
Schickor, P., Metzger, W., Werel, W., Lederer, H. and Heumann, H. (1990) Topography of intermediates in transcription initiation of E.coli. EMBO J., 9, 2215-2220.
-
(1990)
EMBO J.
, vol.9
, pp. 2215-2220
-
-
Schickor, P.1
Metzger, W.2
Werel, W.3
Lederer, H.4
Heumann, H.5
-
37
-
-
0028960228
-
Inhibition of transcription initiation by lac repressor
-
Schlax, P.J., Capp, M.W. and Record, M.T. (1995) Inhibition of transcription initiation by lac repressor. J. Mol. Biol., 245, 331-350.
-
(1995)
J. Mol. Biol.
, vol.245
, pp. 331-350
-
-
Schlax, P.J.1
Capp, M.W.2
Record, M.T.3
-
39
-
-
0027398001
-
PR transcription start site
-
PR transcription start site. Science, 259, 358-361.
-
(1993)
Science
, vol.259
, pp. 358-361
-
-
Shu, W.C.1
Record, M.T.2
-
40
-
-
0023771741
-
Empirical estimation of protein-induced DNA bending angles: Applications to lambda site-specific recombination complexes
-
Thompson, J.F. and Landy, A. (1988) Empirical estimation of protein-induced DNA bending angles: applications to lambda site-specific recombination complexes. Nucleic Acids Res., 16, 9687-9705.
-
(1988)
Nucleic Acids Res.
, vol.16
, pp. 9687-9705
-
-
Thompson, J.F.1
Landy, A.2
-
42
-
-
0021154435
-
Protein-nucleic acid interactions in transcription
-
von Hippel, P.H., Bear, D.G., Morgan, W.D. and McSwiggen, J.A. (1984) Protein-nucleic acid interactions in transcription. Annu. Rev. Biochem., 53, 389-446.
-
(1984)
Annu. Rev. Biochem.
, vol.53
, pp. 389-446
-
-
Von Hippel, P.H.1
Bear, D.G.2
Morgan, W.D.3
McSwiggen, J.A.4
-
43
-
-
0023759723
-
The helical repeat of double-stranded DNA varies as a function of catenation and supercoiling
-
Wasserman, S.A., White, J.H. and Cozzarelli, N.R. (1988) The helical repeat of double-stranded DNA varies as a function of catenation and supercoiling. Nature, 334, 448-450.
-
(1988)
Nature
, vol.334
, pp. 448-450
-
-
Wasserman, S.A.1
White, J.H.2
Cozzarelli, N.R.3
-
44
-
-
0346570577
-
Electron microscope studies of transient complexes formed between Escherichia coli RNA polymerase holoenzyme and T7 DNA
-
Williams, R.C. and Chamberlin, M.J. (1977) Electron microscope studies of transient complexes formed between Escherichia coli RNA polymerase holoenzyme and T7 DNA. Proc. Natl Acad. Sci. USA, 74, 3740-3744.
-
(1977)
Proc. Natl Acad. Sci. USA
, vol.74
, pp. 3740-3744
-
-
Williams, R.C.1
Chamberlin, M.J.2
|