-
1
-
-
18744391399
-
Chemical theory and computation special feature: Structural dynamics of the lac repressor-DNA complex revealed by a multiscale simulation
-
Villa E, Balaeff A, Schulten K (2005) Chemical theory and computation special feature: structural dynamics of the lac repressor-DNA complex revealed by a multiscale simulation. Proc Natl Acad Sci U S A 102: 6783-6788.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 6783-6788
-
-
Villa, E.1
Balaeff, A.2
Schulten, K.3
-
2
-
-
0031961672
-
Lactose repressor protein: Functional properties and structure
-
Matthews KS, Nichols JC (1998) Lactose repressor protein: functional properties and structure. Prog Nucleic Acid Res Mol Biol 58: 127-164.
-
(1998)
Prog Nucleic Acid Res Mol Biol
, vol.58
, pp. 127-164
-
-
Matthews, K.S.1
Nichols, J.C.2
-
3
-
-
0025372285
-
lac repressor forms stable loops in vitro with supercoiled wild-type lac DNA containing all three natural lac operators
-
Eismann ER, Müller-Hill B (1990) lac repressor forms stable loops in vitro with supercoiled wild-type lac DNA containing all three natural lac operators. J Mol Biol 213: 763-775.
-
(1990)
J Mol Biol
, vol.213
, pp. 763-775
-
-
Eismann, E.R.1
Müller-Hill, B.2
-
4
-
-
0022729012
-
Synthetic lac operator mediates repression through lac repressor when introduced upstream and downstream from lac promoter
-
Besse M, von Wilcken-Bergmann B, Müller-Hill B (1986) Synthetic lac operator mediates repression through lac repressor when introduced upstream and downstream from lac promoter. EMBO J 5: 1377-1381.
-
(1986)
EMBO J
, vol.5
, pp. 1377-1381
-
-
Besse, M.1
von Wilcken-Bergmann, B.2
Müller-Hill, B.3
-
5
-
-
0022529619
-
Upstream operators enhance repression of the lac promoter
-
Mossing MC, Record MT Jr (1986) Upstream operators enhance repression of the lac promoter. Science 233: 889-892.
-
(1986)
Science
, vol.233
, pp. 889-892
-
-
Mossing, M.C.1
Record Jr, M.T.2
-
6
-
-
0025343547
-
The three operators of the lac operon cooperate in repression
-
Oehler S, Eismann ER, Krämer H, Müller-Hill B (1990) The three operators of the lac operon cooperate in repression. EMBO J 9: 973-979.
-
(1990)
EMBO J
, vol.9
, pp. 973-979
-
-
Oehler, S.1
Eismann, E.R.2
Krämer, H.3
Müller-Hill, B.4
-
7
-
-
0027510369
-
In vivo thermodynamic analysis of repression with and without looping in lac constructs
-
Law SM, Bellomy GR, Schlax PJ, Record MT Jr (1993) In vivo thermodynamic analysis of repression with and without looping in lac constructs. J Mol Biol 230: 161-173.
-
(1993)
J Mol Biol
, vol.230
, pp. 161-173
-
-
Law, S.M.1
Bellomy, G.R.2
Schlax, P.J.3
Record Jr, M.T.4
-
8
-
-
0029160889
-
Transcription regulation by inflexibility of promoter DNA in a looped complex
-
Choy HE, Park SW, Parrack P, Adhya S (1995) Transcription regulation by inflexibility of promoter DNA in a looped complex. Proc Natl Acad Sci U S A 92: 7327-7331.
-
(1995)
Proc Natl Acad Sci U S A
, vol.92
, pp. 7327-7331
-
-
Choy, H.E.1
Park, S.W.2
Parrack, P.3
Adhya, S.4
-
9
-
-
0022521842
-
Cooperative binding of lambda repressors to sites separated by integral turns of the DNA helix
-
Hochschild A, Ptashne M (1986) Cooperative binding of lambda repressors to sites separated by integral turns of the DNA helix. Cell 44: 681-687.
-
(1986)
Cell
, vol.44
, pp. 681-687
-
-
Hochschild, A.1
Ptashne, M.2
-
10
-
-
0025202249
-
DNA looping and unlooping by AraC protein
-
Lobell RB, Schleif RF (1990) DNA looping and unlooping by AraC protein. Science 250: 528-532.
-
(1990)
Science
, vol.250
, pp. 528-532
-
-
Lobell, R.B.1
Schleif, R.F.2
-
11
-
-
0021188333
-
An operator at -280 base pairs that is required for repression of araBAD operon promoter: Addition of DNA helical turns between the operator and promoter cyclically hinders repression
-
Dunn TM, Hahn S, Ogden S, Schleif RF (1984) An operator at -280 base pairs that is required for repression of araBAD operon promoter: addition of DNA helical turns between the operator and promoter cyclically hinders repression. Proc Natl Acad Sci U S A 81: 5017-5020.
-
(1984)
Proc Natl Acad Sci U S A
, vol.81
, pp. 5017-5020
-
-
Dunn, T.M.1
Hahn, S.2
Ogden, S.3
Schleif, R.F.4
-
12
-
-
0009699824
-
In vivo DNA loops in araCBAD: Size limits and helical repeat
-
Lee D, Schleif RF (1989) In vivo DNA loops in araCBAD: size limits and helical repeat. Proc Natl Acad Sci USA 86: 476-480.
-
(1989)
Proc Natl Acad Sci USA
, vol.86
, pp. 476-480
-
-
Lee, D.1
Schleif, R.F.2
-
13
-
-
0022545056
-
DNA loops induced by cooperative binding of lambda repressor
-
Griffith J, Hochschild A, Ptashne M (1986) DNA loops induced by cooperative binding of lambda repressor. Nature 322: 750-752.
-
(1986)
Nature
, vol.322
, pp. 750-752
-
-
Griffith, J.1
Hochschild, A.2
Ptashne, M.3
-
14
-
-
0037169508
-
In vitro repression of the gal promoters by GalR and HU depends on the proper helical phasing of the two operators
-
Lewis DE, Adhya S (2002) In vitro repression of the gal promoters by GalR and HU depends on the proper helical phasing of the two operators. J Biol Chem 277: 2498-2504.
-
(2002)
J Biol Chem
, vol.277
, pp. 2498-2504
-
-
Lewis, D.E.1
Adhya, S.2
-
15
-
-
0023333893
-
Lac repressor forms loops with linear DNA carrying two suitably spaced lac operators
-
Krämer H, Niemöller M, Amouyal M, Revet B, von Wilcken-Bergmann B, et al. (1987) Lac repressor forms loops with linear DNA carrying two suitably spaced lac operators. EMBO J 6: 1481-1491.
-
(1987)
EMBO J
, vol.6
, pp. 1481-1491
-
-
Krämer, H.1
Niemöller, M.2
Amouyal, M.3
Revet, B.4
von Wilcken-Bergmann, B.5
-
16
-
-
0032034820
-
Some repressors of bacterial transcription
-
Muller-Hill B (1998) Some repressors of bacterial transcription. Curr Opin Microbiol 1: 145-151.
-
(1998)
Curr Opin Microbiol
, vol.1
, pp. 145-151
-
-
Muller-Hill, B.1
-
17
-
-
19444387811
-
-
Becker NA, Kahn JD, Maher LJ 3rd (2005) Bacterial repression loops require enhanced DNA flexibility. J Mol Biol 349: 716-730.
-
Becker NA, Kahn JD, Maher LJ 3rd (2005) Bacterial repression loops require enhanced DNA flexibility. J Mol Biol 349: 716-730.
-
-
-
-
18
-
-
0029975889
-
Repression of lac promoter as a function of distance, phase and quality of an auxiliary lac operator
-
Müller J, Oehler S, Müller-Hill B (1996) Repression of lac promoter as a function of distance, phase and quality of an auxiliary lac operator. J Mol Biol 257: 21-29.
-
(1996)
J Mol Biol
, vol.257
, pp. 21-29
-
-
Müller, J.1
Oehler, S.2
Müller-Hill, B.3
-
19
-
-
0029004903
-
Crystal structure of Iac repressor core tetramer and its implications for DNA looping
-
Friedman AM, Fischmann TO, Steitz TA (1995) Crystal structure of Iac repressor core tetramer and its implications for DNA looping. Science 268: 1721-1727.
-
(1995)
Science
, vol.268
, pp. 1721-1727
-
-
Friedman, A.M.1
Fischmann, T.O.2
Steitz, T.A.3
-
20
-
-
0029938053
-
Crystal structure of the lactose operon repressor and its complexes with DNA and inducer
-
Lewis M, Chang G, Horton NC, Kercher MA, Pace HC, et al. (1996) Crystal structure of the lactose operon repressor and its complexes with DNA and inducer. Science 271: 1247-1254.
-
(1996)
Science
, vol.271
, pp. 1247-1254
-
-
Lewis, M.1
Chang, G.2
Horton, N.C.3
Kercher, M.A.4
Pace, H.C.5
-
21
-
-
0027295486
-
Modulation of the stability of a lac repressor mediated looped complex by temperature and ions: Allosteric regulation by chloride
-
Brenowitz M, Jamison E (1993) Modulation of the stability of a lac repressor mediated looped complex by temperature and ions: allosteric regulation by chloride. Biochemistry 32: 8693-8701.
-
(1993)
Biochemistry
, vol.32
, pp. 8693-8701
-
-
Brenowitz, M.1
Jamison, E.2
-
22
-
-
0025874018
-
Stability of a lac repressor mediated looped complex
-
Brenowitz M, Pickar A, Jamison E (1991) Stability of a lac repressor mediated "looped complex." Biochemistry 30: 5986-5998.
-
(1991)
Biochemistry
, vol.30
, pp. 5986-5998
-
-
Brenowitz, M.1
Pickar, A.2
Jamison, E.3
-
23
-
-
0028956979
-
Measurement of lactose repressor-mediated loop formation and breakdown in single DNA molecules
-
Finzi L, Gelles J (1995) Measurement of lactose repressor-mediated loop formation and breakdown in single DNA molecules. Science 267: 378-380.
-
(1995)
Science
, vol.267
, pp. 378-380
-
-
Finzi, L.1
Gelles, J.2
-
24
-
-
0033521211
-
Wrapping of flanking non-operator DNA in lac repressor-operator complexes: Implications for DNA looping
-
Tsodikov OV, Saecker RM, Melcher SE, Levandoski MM, Frank DE, et al. (1999) Wrapping of flanking non-operator DNA in lac repressor-operator complexes: implications for DNA looping. J Mol Biol 294: 639-655.
-
(1999)
J Mol Biol
, vol.294
, pp. 639-655
-
-
Tsodikov, O.V.1
Saecker, R.M.2
Melcher, S.E.3
Levandoski, M.M.4
Frank, D.E.5
-
25
-
-
54749124872
-
-
PhD dissertation, Waltham Massachusetts, Brandeis University. 215 p. Available
-
Wong OK (2001) Single-molecule analysis of transcription and transcription regulation [PhD dissertation]. Waltham (Massachusetts): Brandeis University. 215 p. Available: http://proquest.umi.com/pqdweb?did= 728483671&sid=1&Fmt=2&clientId=3269&RQT=309&VName=PQD.
-
(2001)
Single-molecule analysis of transcription and transcription regulation
-
-
Wong, O.K.1
-
26
-
-
0033585029
-
Designed hyperstable Lac repressor-DNA loop topologies suggest alternative loop geometries
-
Mehta RA, Kahn JD (1999) Designed hyperstable Lac repressor-DNA loop topologies suggest alternative loop geometries. J Mol Biol 294: 67-77.
-
(1999)
J Mol Biol
, vol.294
, pp. 67-77
-
-
Mehta, R.A.1
Kahn, J.D.2
-
27
-
-
1642534356
-
Structural basis for cooperative DNA binding by CAP and lac repressor
-
Balaeff A, Mahadevan L, Schulten K (2004) Structural basis for cooperative DNA binding by CAP and lac repressor. Structure 12: 123-132.
-
(2004)
Structure
, vol.12
, pp. 123-132
-
-
Balaeff, A.1
Mahadevan, L.2
Schulten, K.3
-
28
-
-
33745595880
-
Modeling the Lac repressor-operator assembly: The influence of DNA looping on Lac repressor conformation
-
Swigon D, Coleman BD, Olson WK (2006) Modeling the Lac repressor-operator assembly: the influence of DNA looping on Lac repressor conformation. Proc Natl Acad Sci U S A 103: 9879-9884.
-
(2006)
Proc Natl Acad Sci U S A
, vol.103
, pp. 9879-9884
-
-
Swigon, D.1
Coleman, B.D.2
Olson, W.K.3
-
29
-
-
0028801067
-
Action at a distance: DNA-looping and initiation of transcription
-
Rippe K, von Hippel PH, Langowski J (1995) Action at a distance: DNA-looping and initiation of transcription. Trends Biochem Sci 20: 500-506.
-
(1995)
Trends Biochem Sci
, vol.20
, pp. 500-506
-
-
Rippe, K.1
von Hippel, P.H.2
Langowski, J.3
-
30
-
-
2342518189
-
Spontaneous sharp bending of double-stranded DNA
-
Cloutier TE, Widom J (2004) Spontaneous sharp bending of double-stranded DNA. Mol Cell 14: 355-362.
-
(2004)
Mol Cell
, vol.14
, pp. 355-362
-
-
Cloutier, T.E.1
Widom, J.2
-
31
-
-
14844342574
-
DNA twisting flexibility and the formation of sharply looped protein-DNA complexes
-
Cloutier TE, Widom J (2005) DNA twisting flexibility and the formation of sharply looped protein-DNA complexes. Proc Natl Acad Sci U S A 102: 3645-3650.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 3645-3650
-
-
Cloutier, T.E.1
Widom, J.2
-
33
-
-
19544379865
-
Localized single-stranded bubble mechanism for cyclization of short double helix DNA
-
Yan J, Marko JF (2004) Localized single-stranded bubble mechanism for cyclization of short double helix DNA. Phys Rev Lett 93: 108108.
-
(2004)
Phys Rev Lett
, vol.93
, pp. 108108
-
-
Yan, J.1
Marko, J.F.2
-
34
-
-
17244362931
-
Cyclization of short DNA fragments and bending fluctuations of the double helix
-
Du Q, Smith C, Shiffeldrim N, Vologodskaia M, Vologodskii A (2005) Cyclization of short DNA fragments and bending fluctuations of the double helix. Proc Natl Acad Sci U S A 102: 5397-5402.
-
(2005)
Proc Natl Acad Sci U S A
, vol.102
, pp. 5397-5402
-
-
Du, Q.1
Smith, C.2
Shiffeldrim, N.3
Vologodskaia, M.4
Vologodskii, A.5
-
35
-
-
0037306915
-
Fluorescence resonance energy transfer over approximately 130 basepairs in hyperstable lac repressor-DNA loops
-
Edelman LM, Cheong R, Kahn JD (2003) Fluorescence resonance energy transfer over approximately 130 basepairs in hyperstable lac repressor-DNA loops. Biophys J 84: 1131-1145.
-
(2003)
Biophys J
, vol.84
, pp. 1131-1145
-
-
Edelman, L.M.1
Cheong, R.2
Kahn, J.D.3
-
36
-
-
25844459690
-
Single-molecule spectroscopic determination of lac repressor-DNA loop conformation
-
Morgan MA, Okamoto K, Kahn JD, English DS (2005) Single-molecule spectroscopic determination of lac repressor-DNA loop conformation. Biophys J 89: 2588-2596.
-
(2005)
Biophys J
, vol.89
, pp. 2588-2596
-
-
Morgan, M.A.1
Okamoto, K.2
Kahn, J.D.3
English, D.S.4
-
40
-
-
0025867008
-
Transcription by single molecules of RNA polymerase observed by light microscopy
-
Schafer DA, Gelles J, Sheetz MP, Landick R (1991) Transcription by single molecules of RNA polymerase observed by light microscopy. Nature 352: 444-448.
-
(1991)
Nature
, vol.352
, pp. 444-448
-
-
Schafer, D.A.1
Gelles, J.2
Sheetz, M.P.3
Landick, R.4
-
41
-
-
0028143652
-
Tethered particle motion method for studying transcript elongation by a single RNA polymerase molecule
-
Yin H, Landick R, Gelles J (1994) Tethered particle motion method for studying transcript elongation by a single RNA polymerase molecule. Biophys J 67: 2468-2478.
-
(1994)
Biophys J
, vol.67
, pp. 2468-2478
-
-
Yin, H.1
Landick, R.2
Gelles, J.3
-
42
-
-
33746207766
-
Lac repressor hinge flexibility and DNA looping: Single molecule kinetics by tethered particle motion
-
Vanzi F, Broggio C, Sacconi L, Pavone FS (2006) Lac repressor hinge flexibility and DNA looping: single molecule kinetics by tethered particle motion. Nucleic Acids Res 34: 3409-3420.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 3409-3420
-
-
Vanzi, F.1
Broggio, C.2
Sacconi, L.3
Pavone, F.S.4
-
43
-
-
34249651934
-
Integration host factor alters LacI-induced DNA looping
-
Zurla C, Samuely T, Bertoni G, Valle F, Dietler G, et al. (2007) Integration host factor alters LacI-induced DNA looping. Biophys Chem 128: 245-252.
-
(2007)
Biophys Chem
, vol.128
, pp. 245-252
-
-
Zurla, C.1
Samuely, T.2
Bertoni, G.3
Valle, F.4
Dietler, G.5
-
44
-
-
33645322437
-
Novel tethered particle motion analysis of CI protein-mediated DNA looping in the regulation of bacteriophage lambda
-
Zurla C, Franzini A, Galli G, Dunlap DD, Lewis DEA, et al. (2006) Novel tethered particle motion analysis of CI protein-mediated DNA looping in the regulation of bacteriophage lambda. J Phys Condens Matter 18: S225-S234.
-
(2006)
J Phys Condens Matter
, vol.18
-
-
Zurla, C.1
Franzini, A.2
Galli, G.3
Dunlap, D.D.4
Lewis, D.E.A.5
-
45
-
-
33749359386
-
Viewing single lambda site-specific recombination events from start to finish
-
Mumm JP, Landy A, Gelles J (2006) Viewing single lambda site-specific recombination events from start to finish. EMBO J 25: 4886-4595.
-
(2006)
EMBO J
, vol.25
, pp. 4886-4595
-
-
Mumm, J.P.1
Landy, A.2
Gelles, J.3
-
46
-
-
34147143884
-
DNA looping kinetics analyzed using diffusive hidden Markov model
-
Beausang JF, Zurla C, Manzo C, Dunlap D, Finzi L, et al. (2007) DNA looping kinetics analyzed using diffusive hidden Markov model. Biophys J 92: L64-L66.
-
(2007)
Biophys J
, vol.92
-
-
Beausang, J.F.1
Zurla, C.2
Manzo, C.3
Dunlap, D.4
Finzi, L.5
-
47
-
-
0141482089
-
Supercoiling and denaturation in Gal repressor/heat unstable nucleoid protein (HU)-mediated DNA looping
-
Lia G, Bensimon D, Croquette V, Allemand JF, Dunlap D, et al. (2003) Supercoiling and denaturation in Gal repressor/heat unstable nucleoid protein (HU)-mediated DNA looping. Proc Natl Acad Sci U S A 100: 11373-11377.
-
(2003)
Proc Natl Acad Sci U S A
, vol.100
, pp. 11373-11377
-
-
Lia, G.1
Bensimon, D.2
Croquette, V.3
Allemand, J.F.4
Dunlap, D.5
-
48
-
-
33750007449
-
IS911 transpososome assembly as analysed by tethered particle motion
-
Pouget N, Turlan C, Destainville N, Salome L, Chandler M (2006) IS911 transpososome assembly as analysed by tethered particle motion. Nucleic Acids Res 34: 4313-4323.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 4313-4323
-
-
Pouget, N.1
Turlan, C.2
Destainville, N.3
Salome, L.4
Chandler, M.5
-
49
-
-
31544452261
-
Real-time observation of DNA looping dynamics of type IIE restriction enzymes NaeI and NarI
-
van den Broek B, Vanzi F, Normanno D, Pavone FS, Wuite GJL (2006) Real-time observation of DNA looping dynamics of type IIE restriction enzymes NaeI and NarI. Nucleic Acids Res 34: 167-174.
-
(2006)
Nucleic Acids Res
, vol.34
, pp. 167-174
-
-
van den Broek, B.1
Vanzi, F.2
Normanno, D.3
Pavone, F.S.4
Wuite, G.J.L.5
-
50
-
-
0030903145
-
DNA looping by Ku and the DNA-dependent protein kinase
-
Cary RB, Peterson SR, Wang J, Bear DG, Bradbury EM, et al. (1997) DNA looping by Ku and the DNA-dependent protein kinase. Proc Natl Acad Sci U S A 94: 4267-4272.
-
(1997)
Proc Natl Acad Sci U S A
, vol.94
, pp. 4267-4272
-
-
Cary, R.B.1
Peterson, S.R.2
Wang, J.3
Bear, D.G.4
Bradbury, E.M.5
-
53
-
-
11144246103
-
Atomic force microscopic analysis of the binding of the Schizosaccharomyces pombe origin recognition complex and the spOrc4 protein with origin DNA
-
Gaczynska M, Osmulski PA, Jiang Y, Lee JK, Bermudez V, et al. (2004) Atomic force microscopic analysis of the binding of the Schizosaccharomyces pombe origin recognition complex and the spOrc4 protein with origin DNA. Proc Natl Acad Sci U S A 101: 17952-17957.
-
(2004)
Proc Natl Acad Sci U S A
, vol.101
, pp. 17952-17957
-
-
Gaczynska, M.1
Osmulski, P.A.2
Jiang, Y.3
Lee, J.K.4
Bermudez, V.5
-
54
-
-
25844463677
-
DNA looping-mediated repression by histone-like protein H-NS: Specific requirement of Esigma70 as a cofactor for looping
-
Shin M, Song M, Rhee JH, Hong Y, Kim YJ, et al. (2005) DNA looping-mediated repression by histone-like protein H-NS: specific requirement of Esigma70 as a cofactor for looping. Genes Dev 19: 2388-2398.
-
(2005)
Genes Dev
, vol.19
, pp. 2388-2398
-
-
Shin, M.1
Song, M.2
Rhee, J.H.3
Hong, Y.4
Kim, Y.J.5
-
55
-
-
0033575742
-
Wrapping of DNA around the E. coli RNA polymerase open promoter complex
-
Rivetti C, Guthold M, Bustamante C (1999) Wrapping of DNA around the E. coli RNA polymerase open promoter complex. EMBO J 18: 4464-4475.
-
(1999)
EMBO J
, vol.18
, pp. 4464-4475
-
-
Rivetti, C.1
Guthold, M.2
Bustamante, C.3
-
56
-
-
0030748519
-
Transcriptional activation via DNA-looping: Visualization of intermediates in the activation pathway of E. coli RNA polymerase-sigma 54 holoenzyme by scanning force microscopy
-
Rippe K, Guthold M, von Hippel PH, Bustamante C (1997) Transcriptional activation via DNA-looping: visualization of intermediates in the activation pathway of E. coli RNA polymerase-sigma 54 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
-
57
-
-
0036061088
-
Fast simulation of atomic-force-microscope imaging of atomic and polygonal surfaces using graphics hardware
-
20-25 January, San Jose, California, United States. Available:, Accessed 25 August 2008
-
Varadhan G, Robinett W, Erie D, Taylor R (2002) Fast simulation of atomic-force-microscope imaging of atomic and polygonal surfaces using graphics hardware. In: Proceedings of SPIE Conference on Visualization and Data Analysis; 20-25 January 2002; San Jose, California, United States. Available: http://www.cs.unc.edu/Research/nano/documentarchive/publications/ 2002varadhan_fastSimulation_SPIE. Accessed 25 August 2008.
-
(2002)
Proceedings of SPIE Conference on Visualization and Data Analysis
-
-
Varadhan, G.1
Robinett, W.2
Erie, D.3
Taylor, R.4
-
58
-
-
33646168041
-
Stepwise bending of DNA by a single TATA-box binding protein
-
Tolic-Norrelykke SF, Rasmussen MB, Pavone FS, Berg-Sorensen K, Oddershede LB (2006) Stepwise bending of DNA by a single TATA-box binding protein. Biophys J 90: 3694-3703.
-
(2006)
Biophys J
, vol.90
, pp. 3694-3703
-
-
Tolic-Norrelykke, S.F.1
Rasmussen, M.B.2
Pavone, F.S.3
Berg-Sorensen, K.4
Oddershede, L.B.5
-
59
-
-
43349099320
-
Single-molecule manipulation reveals supercoiling-dependent modulation of lac repressor-mediated DNA looping
-
Normanno D, Vanzi F, Pavone FS (2008) Single-molecule manipulation reveals supercoiling-dependent modulation of lac repressor-mediated DNA looping. Nucl Acids Res 36: 2505-2513.
-
(2008)
Nucl Acids Res
, vol.36
, pp. 2505-2513
-
-
Normanno, D.1
Vanzi, F.2
Pavone, F.S.3
-
60
-
-
3543060486
-
DNA trajectory in the Gal repressosome
-
Semsey S, Tolstorukov MY, Virnik K, Zhurkin VB, Adhya S (2004) DNA trajectory in the Gal repressosome. Genes Dev 18: 1898-1907.
-
(2004)
Genes Dev
, vol.18
, pp. 1898-1907
-
-
Semsey, S.1
Tolstorukov, M.Y.2
Virnik, K.3
Zhurkin, V.B.4
Adhya, S.5
-
61
-
-
0019993652
-
Escherichia coli lac repressor is elongated with its operator DNA binding domains located at both ends
-
McKay DB, Pickover CA, Steitz TA (1982) Escherichia coli lac repressor is elongated with its operator DNA binding domains located at both ends. J Mol Biol 156: 175-183.
-
(1982)
J Mol Biol
, vol.156
, pp. 175-183
-
-
McKay, D.B.1
Pickover, C.A.2
Steitz, T.A.3
-
62
-
-
0016374552
-
The lac repressor protein: Molecular shape, subunit structure, and proposed model for operator interaction based on structural studies of microcrystals
-
Steitz TA, Richmond TJ, Wise D, Engelman D (1974) The lac repressor protein: molecular shape, subunit structure, and proposed model for operator interaction based on structural studies of microcrystals. Proc Natl Acad Sci U S A 71: 593-597.
-
(1974)
Proc Natl Acad Sci U S A
, vol.71
, pp. 593-597
-
-
Steitz, T.A.1
Richmond, T.J.2
Wise, D.3
Engelman, D.4
-
63
-
-
0031002095
-
Conformation of Lac repressor tetramer in solution, bound and unbound to operator DNA
-
Ruben GC, Roos TB (1997) Conformation of Lac repressor tetramer in solution, bound and unbound to operator DNA. Microsc Res Tech 36: 400-416.
-
(1997)
Microsc Res Tech
, vol.36
, pp. 400-416
-
-
Ruben, G.C.1
Roos, T.B.2
-
65
-
-
34547642985
-
Effects of nucleoid proteins on DNA repression loop formation in Escherichia coli
-
Becker NA, Kahn JD, Maher LJ III (2007) Effects of nucleoid proteins on DNA repression loop formation in Escherichia coli. Nucl Acids Res 35: 3988-4000.
-
(2007)
Nucl Acids Res
, vol.35
, pp. 3988-4000
-
-
Becker, N.A.1
Kahn, J.D.2
Maher III, L.J.3
-
66
-
-
0013556017
-
Interaction of spatially separated protein-DNA complexes for control of gene expression: Operator conversions
-
Haber R, Adhya S (1988) Interaction of spatially separated protein-DNA complexes for control of gene expression: operator conversions. Proc Natl Acad Sci USA 85: 9683-9687.
-
(1988)
Proc Natl Acad Sci USA
, vol.85
, pp. 9683-9687
-
-
Haber, R.1
Adhya, S.2
-
67
-
-
0023684064
-
A general method of in vitro preparation and specific mutagenesis of DNA fragments: Study of protein and DNA interactions
-
Higuchi R, Krummel B, Saiki RK (1988) A general method of in vitro preparation and specific mutagenesis of DNA fragments: study of protein and DNA interactions. Nucl Acids Res 16: 7351-7367.
-
(1988)
Nucl Acids Res
, vol.16
, pp. 7351-7367
-
-
Higuchi, R.1
Krummel, B.2
Saiki, R.K.3
-
68
-
-
33644676435
-
Volume-exclusion effects in tethered-particle experiments: Bead size matters
-
Segall DE, Nelson PC, Phillips R (2006) Volume-exclusion effects in tethered-particle experiments: bead size matters. Phys Rev Lett 96: 088306.
-
(2006)
Phys Rev Lett
, vol.96
, pp. 088306
-
-
Segall, D.E.1
Nelson, P.C.2
Phillips, R.3
-
69
-
-
0019522622
-
On the stochastic properties of single ion channels
-
Colquhoun D, Hawkes AG (1981) On the stochastic properties of single ion channels. Proc R Soc Lond 211: 205-235.
-
(1981)
Proc R Soc Lond
, vol.211
, pp. 205-235
-
-
Colquhoun, D.1
Hawkes, A.G.2
-
71
-
-
0001774017
-
Fitting and statistical analysis of single-channel records
-
Sakmann B, Neher E, editors, New York: Plenum Press. pp
-
Colquhoun D, Sigworth FJ (1983) Fitting and statistical analysis of single-channel records. In: Sakmann B, Neher E, editors. Single channel recording. New York: Plenum Press. pp 191-263.
-
(1983)
Single channel recording
, pp. 191-263
-
-
Colquhoun, D.1
Sigworth, F.J.2
-
72
-
-
0030061670
-
Estimating single-channel kinetic parameters from idealized patch-clamp data containing missed events
-
Qin F, Auerbach A, Sachs F (1996) Estimating single-channel kinetic parameters from idealized patch-clamp data containing missed events. Biophys J 70: 264-280.
-
(1996)
Biophys J
, vol.70
, pp. 264-280
-
-
Qin, F.1
Auerbach, A.2
Sachs, F.3
-
73
-
-
0030956174
-
Maximum likelihood estimation of aggregated Markov processes
-
Qin F, Auerbach A, Sachs F (1997) Maximum likelihood estimation of aggregated Markov processes. Proc R Soc Lond B Biol Sci 264: 375-383.
-
(1997)
Proc R Soc Lond B Biol Sci
, vol.264
, pp. 375-383
-
-
Qin, F.1
Auerbach, A.2
Sachs, F.3
-
74
-
-
54749147756
-
-
QuB Software Suite , University of New York. Available:, Accessed 2 April 2004
-
QuB Software Suite (2004) Research Foundation State University of New York. Available: http://www.qub.buffalo.edu/index.html. Accessed 2 April 2004.
-
(2004)
Research Foundation State
-
-
-
76
-
-
0021268779
-
The locus of sequence-directed and protein-induced DNA bending
-
Wu HM, Crothers DM (1984) The locus of sequence-directed and protein-induced DNA bending. Nature 308: 509-513.
-
(1984)
Nature
, vol.308
, pp. 509-513
-
-
Wu, H.M.1
Crothers, D.M.2
-
77
-
-
0023218540
-
DNA bend direction by phase sensitive detection
-
Zinkel SS, Crothers DM (1987) DNA bend direction by phase sensitive detection. Nature 328: 178-181.
-
(1987)
Nature
, vol.328
, pp. 178-181
-
-
Zinkel, S.S.1
Crothers, D.M.2
-
78
-
-
0019377791
-
Double helical DNA: Conformations, physical properties, and interactions with ligands
-
Record MT Jr, Mazur SJ, Melancon P, Roe JH, Shaner SL, et al. (1981) Double helical DNA: conformations, physical properties, and interactions with ligands. Annu Rev Biochem 50: 997-1024.
-
(1981)
Annu Rev Biochem
, vol.50
, pp. 997-1024
-
-
Record Jr, M.T.1
Mazur, S.J.2
Melancon, P.3
Roe, J.H.4
Shaner, S.L.5
-
79
-
-
0030596081
-
Scanning force microscopy of DNA deposited onto mica: Equilibration versus kinetic trapping studied by statistical polymer chain analysis
-
Rivetti C, Guthold M, Bustamante C (1996) Scanning force microscopy of DNA deposited onto mica: equilibration versus kinetic trapping studied by statistical 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
-
80
-
-
0022596727
-
Solvation energy in protein folding and binding
-
Eisenberg D, McLachlan AD (1986) Solvation energy in protein folding and binding. Nature 319: 199-203.
-
(1986)
Nature
, vol.319
, pp. 199-203
-
-
Eisenberg, D.1
McLachlan, A.D.2
-
81
-
-
0041305824
-
Structural transitions and elasticity from torque measurements on DNA
-
Bryant Z, Stone MD, Gore J, Smith SB, Cozzarelli NR, et al. (2003) Structural transitions and elasticity from torque measurements on DNA. Nature 424: 338-341.
-
(2003)
Nature
, vol.424
, pp. 338-341
-
-
Bryant, Z.1
Stone, M.D.2
Gore, J.3
Smith, S.B.4
Cozzarelli, N.R.5
-
82
-
-
0346569510
-
Possible ideal lac operator: Escherichia coli lac operator-like sequences from eukaryotic genomes lack the central G.C pair
-
Simons A, Tils D, von Wilcken-Bergmann B, Müller-Hill B (1984) Possible ideal lac operator: Escherichia coli lac operator-like sequences from eukaryotic genomes lack the central G.C pair. Proc Natl Acad Sci U S A 81: 1624-1628.
-
(1984)
Proc Natl Acad Sci U S A
, vol.81
, pp. 1624-1628
-
-
Simons, A.1
Tils, D.2
von Wilcken-Bergmann, B.3
Müller-Hill, B.4
|