-
1
-
-
84990485097
-
Transport properties of rigid and flexible macromolecules by Brownian dynamics simulation
-
Allison, S. A., and J. A. McCammon. 1984. Transport properties of rigid and flexible macromolecules by Brownian dynamics simulation. Biopolymers. 23:167-187.
-
(1984)
Biopolymers
, vol.23
, pp. 167-187
-
-
Allison, S.A.1
McCammon, J.A.2
-
2
-
-
0026736993
-
Electric dichroism and birefringence decay of short DNA restriction fragments studied by Brownian dynamics simulation
-
Allison, S. A., and P. Nambi. 1992. Electric dichroism and birefringence decay of short DNA restriction fragments studied by Brownian dynamics simulation. Macromolecules. 25:759-768.
-
(1992)
Macromolecules
, vol.25
, pp. 759-768
-
-
Allison, S.A.1
Nambi, P.2
-
3
-
-
0028004021
-
Global structure of a self-cleaving hammerhead RNA
-
Amiri, K. M. A., and P. J. Hagerman. 1994. Global structure of a self-cleaving hammerhead RNA. Biochemistry. 33:13172-13177.
-
(1994)
Biochemistry
, vol.33
, pp. 13172-13177
-
-
Amiri, K.M.A.1
Hagerman, P.J.2
-
4
-
-
0030590218
-
The global conformation of an active hammerhead RNA during the process of self-cleavage
-
Amiri, K. M. A., and P. J. Hagerman. 1996. The global conformation of an active hammerhead RNA during the process of self-cleavage. J. Mol. Biol. 261:125-134.
-
(1996)
J. Mol. Biol.
, vol.261
, pp. 125-134
-
-
Amiri, K.M.A.1
Hagerman, P.J.2
-
5
-
-
0029026682
-
Electrostatic and hydrodynamic orientational steering effects in enzyme substrate association
-
Antosiewicz, J., and J. A. McCammon. 1995. Electrostatic and hydrodynamic orientational steering effects in enzyme substrate association. Biophys. J. 69:57-65.
-
(1995)
Biophys. J.
, vol.69
, pp. 57-65
-
-
Antosiewicz, J.1
McCammon, J.A.2
-
7
-
-
0028184699
-
Kinetics of DNA supercoiling studied by Brownian dynamics simulation
-
Chirico, G., and J. Langowski. 1994. Kinetics of DNA supercoiling studied by Brownian dynamics simulation. Biopolymers. 34:415-433.
-
(1994)
Biopolymers
, vol.34
, pp. 415-433
-
-
Chirico, G.1
Langowski, J.2
-
8
-
-
0020161682
-
Orientation relaxation of DNA restriction fragments and the internal mobility of the double helix
-
Diekmann, S., W. Hillen, B. Morgeneyer, R. D. Wells, and D. Porschke. 1982. Orientation relaxation of DNA restriction fragments and the internal mobility of the double helix. Biophys. Chem. 15:263-270.
-
(1982)
Biophys. Chem.
, vol.15
, pp. 263-270
-
-
Diekmann, S.1
Hillen, W.2
Morgeneyer, B.3
Wells, R.D.4
Porschke, D.5
-
9
-
-
0027751968
-
Conformational distributions of a four-way DNA junction revealed by time-resolved fluorescence resonance energy transfer
-
Eis, P. S., and D. P. Millar. 1993. Conformational distributions of a four-way DNA junction revealed by time-resolved fluorescence resonance energy transfer. Biochemistry. 32:13852-13860.
-
(1993)
Biochemistry
, vol.32
, pp. 13852-13860
-
-
Eis, P.S.1
Millar, D.P.2
-
10
-
-
0000145810
-
Transient electric birefringence study of the persistence length and electric polarizability of restriction fragments in DNA
-
Elias, J. G., and D. Eden. 1981. Transient electric birefringence study of the persistence length and electric polarizability of restriction fragments in DNA. Macromolecules. 14:410-419.
-
(1981)
Macromolecules
, vol.14
, pp. 410-419
-
-
Elias, J.G.1
Eden, D.2
-
11
-
-
33750652614
-
Brownian dynamics with hydrodynamic interactions
-
Ermak, D. L., and J. A. McCammon. 1978. Brownian dynamics with hydrodynamic interactions. J. Chem. Phys. 69:1352-1360.
-
(1978)
J. Chem. Phys.
, vol.69
, pp. 1352-1360
-
-
Ermak, D.L.1
McCammon, J.A.2
-
12
-
-
33845539992
-
Simulation of polymer dynamics. I. General theory
-
Fixman, M. 1978a. Simulation of polymer dynamics. I. General theory. J. Chem. Phys. 69:1527-1537.
-
(1978)
J. Chem. Phys.
, vol.69
, pp. 1527-1537
-
-
Fixman, M.1
-
13
-
-
0007499078
-
Simulation of polymer dynamics. II. Relaxation rates and dynamic viscosity
-
Fixman, M. 1978b. Simulation of polymer dynamics. II. Relaxation rates and dynamic viscosity. J. Chem. Phys. 69:1538-1545.
-
(1978)
J. Chem. Phys.
, vol.69
, pp. 1538-1545
-
-
Fixman, M.1
-
14
-
-
0029065694
-
Determination of the angle between the anticodon and aminoacyl acceptor stems of yeast phenylalanyl tRNA in solution
-
Friederich, M. W., F.-U. Gast, E. Vacano, and P. J. Hagerman. 1995. Determination of the angle between the anticodon and aminoacyl acceptor stems of yeast phenylalanyl tRNA in solution. Proc. Natl. Acad. Sci. USA. 92:4803-4807.
-
(1995)
Proc. Natl. Acad. Sci. USA
, vol.92
, pp. 4803-4807
-
-
Friederich, M.W.1
Gast, F.-U.2
Vacano, E.3
Hagerman, P.J.4
-
15
-
-
0028331914
-
Interhelix geometry of stems I and II of a self-cleaving hammerhead RNA
-
Gast, F.-U., K. M. A. Amiri, and P. J. Hagerman. 1994. Interhelix geometry of stems I and II of a self-cleaving hammerhead RNA. Biochemistry. 33:1788-1796.
-
(1994)
Biochemistry
, vol.33
, pp. 1788-1796
-
-
Gast, F.-U.1
Amiri, K.M.A.2
Hagerman, P.J.3
-
16
-
-
0025906148
-
Electrophoretic and hydrodynamic properties of duplex ribonucleic acid molecules transcribed in vitro: Evidence that A-tracts do not generate curvature in RNA
-
Gast, F.-U., and P. J. Hagerman. 1991. Electrophoretic and hydrodynamic properties of duplex ribonucleic acid molecules transcribed in vitro: evidence that A-tracts do not generate curvature in RNA. Biochemistry. 30:4268-4277.
-
(1991)
Biochemistry
, vol.30
, pp. 4268-4277
-
-
Gast, F.-U.1
Hagerman, P.J.2
-
17
-
-
0006379005
-
Brownian dynamics of the polarization of rodlike polyelectrolytes
-
Grycuk, T., J. Antosiewicz, and D. Porschke. 1994. Brownian dynamics of the polarization of rodlike polyelectrolytes. J. Phys. Chem. 98: 10881-10887.
-
(1994)
J. Phys. Chem.
, vol.98
, pp. 10881-10887
-
-
Grycuk, T.1
Antosiewicz, J.2
Porschke, D.3
-
18
-
-
0030581180
-
Helix rigidity of DNA: The meroduplex as an experimental paradigm
-
Hagerman, K. R., and P. J. Hagerman. 1996. Helix rigidity of DNA: the meroduplex as an experimental paradigm. J. Mol. Biol. 260:207-223.
-
(1996)
J. Mol. Biol.
, vol.260
, pp. 207-223
-
-
Hagerman, K.R.1
Hagerman, P.J.2
-
19
-
-
0019588074
-
Investigation of the flexibility of DNA using transient electric birefringence
-
Hagerman, P. J. 1981. Investigation of the flexibility of DNA using transient electric birefringence. Biopolymers. 20:1503-1535.
-
(1981)
Biopolymers
, vol.20
, pp. 1503-1535
-
-
Hagerman, P.J.1
-
20
-
-
0030272594
-
"Sometimes a great motion": The application of transient electric birefringence to the study of macromolecular structure
-
Hagerman, P. J. 1996. "Sometimes a great motion": the application of transient electric birefringence to the study of macromolecular structure. Curr. Opin. Struct. Biol. 6:643-649.
-
(1996)
Curr. Opin. Struct. Biol.
, vol.6
, pp. 643-649
-
-
Hagerman, P.J.1
-
21
-
-
84985720098
-
Monte Carlo approach to the analysis of the rotational diffusion of wormlike chains
-
Hagerman, P. J., and B. Zimm. 1981. Monte Carlo approach to the analysis of the rotational diffusion of wormlike chains. Biopolymers. 20: 1481-1502.
-
(1981)
Biopolymers
, vol.20
, pp. 1481-1502
-
-
Hagerman, P.J.1
Zimm, B.2
-
22
-
-
0342342791
-
-
International Mathematical and Statistical Libraries, Houston, TX
-
IMSL. 1980. IMSL Library 3 Reference Manual, IMSL LIB3-0005. International Mathematical and Statistical Libraries, Houston, TX.
-
(1980)
IMSL Library 3 Reference Manual, IMSL LIB3-0005
-
-
-
24
-
-
0000305475
-
Brownian dynamics simulations of a three-subunit and a ten-subunit worm-like chain: Comparison of results with trumbell theory and with experimental results from DNA
-
Lewis, R. J., S. A. Allison, D. Eden, and R. Pecora. 1988. Brownian dynamics simulations of a three-subunit and a ten-subunit worm-like chain: comparison of results with trumbell theory and with experimental results from DNA. J. Chem. Phys. 89:2490-2503.
-
(1988)
J. Chem. Phys.
, vol.89
, pp. 2490-2503
-
-
Lewis, R.J.1
Allison, S.A.2
Eden, D.3
Pecora, R.4
-
25
-
-
0000588707
-
Transient electric birefringence measurements of the rotational and internal bending modes in monodisperse DNA fragments
-
Lewis, R. J., R. Pecora, and D. Eden. 1986. Transient electric birefringence measurements of the rotational and internal bending modes in monodisperse DNA fragments. Macromolecules. 19:134-139.
-
(1986)
Macromolecules
, vol.19
, pp. 134-139
-
-
Lewis, R.J.1
Pecora, R.2
Eden, D.3
-
26
-
-
0000958642
-
Brownian dynamics simulations of diffusional encounters between triose phosphate isomerase and glyceraldehyde phosphate: Electrostatic steering of glyceraldehyde phosphate
-
Luty, B. A., R. C. Wade, J. D. Madura, and J. A. McCammon. 1993. Brownian dynamics simulations of diffusional encounters between triose phosphate isomerase and glyceraldehyde phosphate: electrostatic steering of glyceraldehyde phosphate. J. Phys. Chem. 97:233-237.
-
(1993)
J. Phys. Chem.
, vol.97
, pp. 233-237
-
-
Luty, B.A.1
Wade, R.C.2
Madura, J.D.3
McCammon, J.A.4
-
27
-
-
0024117839
-
Diffusion coefficients of segmentally flexible macromolecules with two subunits: A study of broken rods
-
Mellado, P., A. Iniesta, F. G. Diaz, and J. Garcia de la Torre. 1988. Diffusion coefficients of segmentally flexible macromolecules with two subunits: a study of broken rods. Biopolymers. 27:1771-1786.
-
(1988)
Biopolymers
, vol.27
, pp. 1771-1786
-
-
Mellado, P.1
Iniesta, A.2
Diaz, F.G.3
Garcia De La Torre, J.4
-
28
-
-
36549102274
-
Brownian dynamics simulation of diffusion-influence biomolecular reactions
-
Northrup, S. H., S. A. Allison, and J. A. McCammon. 1984. Brownian dynamics simulation of diffusion-influence biomolecular reactions. J. Phys. Chem. 80:1517-1524.
-
(1984)
J. Phys. Chem.
, vol.80
, pp. 1517-1524
-
-
Northrup, S.H.1
Allison, S.A.2
McCammon, J.A.3
-
29
-
-
0003474751
-
-
Cambridge University Press, Cambridge, England
-
Press, W. H., W. T. Vetterling, S. A. Teukolsky, and B. P. Flannery. 1992. Numerical Recipes in Fortran: The Art of Scientific Computing. Cambridge University Press, Cambridge, England. 678-683.
-
(1992)
Numerical Recipes in Fortran: The Art of Scientific Computing
, pp. 678-683
-
-
Press, W.H.1
Vetterling, W.T.2
Teukolsky, S.A.3
Flannery, B.P.4
-
30
-
-
36549099033
-
An elastic hinge model for dynamics of stiff chains. III. Viscoelastic and Kerr-effect behavior of bent molecules
-
Roitman, D. B. 1984. an elastic hinge model for dynamics of stiff chains. III. Viscoelastic and Kerr-effect behavior of bent molecules. J. Chem. Phys. 81:6356-6360.
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 6356-6360
-
-
Roitman, D.B.1
-
31
-
-
36549093861
-
An elastic hinge model for dynamics of stiff chains. I. Viscoelastic properties
-
Roitman, D. B., and B. Zimm. 1984a. An elastic hinge model for dynamics of stiff chains. I. Viscoelastic properties. J. Chem. Phys. 81:6340-6347.
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 6340-6347
-
-
Roitman, D.B.1
Zimm, B.2
-
32
-
-
36549093751
-
An elastic hinge model for dynamics of stiff chains. II. Transient electro-optical properties
-
Roitman, D. B., and B. Zimm. 1984b. An elastic hinge model for dynamics of stiff chains. II. Transient electro-optical properties. J. Chem. Phys. 81:6348-6354.
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 6348-6354
-
-
Roitman, D.B.1
Zimm, B.2
-
34
-
-
84933517499
-
Variational treatment of hydrodynamic interactions in polymers
-
Rotne, J., and S. Prager. 1969. Variational treatment of hydrodynamic interactions in polymers. J. Chem. Phys. 50:4831-4837.
-
(1969)
J. Chem. Phys.
, vol.50
, pp. 4831-4837
-
-
Rotne, J.1
Prager, S.2
-
36
-
-
0023364022
-
Computer simulation of a substrate to an active site of an enzyme
-
Sharp, K., R. Fine, and B. Honig. 1987. Computer simulation of a substrate to an active site of an enzyme. Science. 236:1460-1463.
-
(1987)
Science
, vol.236
, pp. 1460-1463
-
-
Sharp, K.1
Fine, R.2
Honig, B.3
-
37
-
-
0027982008
-
Geometry of the central branch of the 5S ribosomal RNA of Sulfolobus acidocaldarius
-
Shen, Z., and P. J. Hagerman. 1994. Geometry of the central branch of the 5S ribosomal RNA of Sulfolobus acidocaldarius. J. Mol. Biol. 241: 415-430.
-
(1994)
J. Mol. Biol.
, vol.241
, pp. 415-430
-
-
Shen, Z.1
Hagerman, P.J.2
-
38
-
-
0019543558
-
Electric birefringence of restriction enzyme fragments of DNA: Optical factor and electric polarizability as a function of molecular weight
-
Stellwagen, N. C. 1981. Electric birefringence of restriction enzyme fragments of DNA: optical factor and electric polarizability as a function of molecular weight. Biopolymers. 29:399-434.
-
(1981)
Biopolymers
, vol.29
, pp. 399-434
-
-
Stellwagen, N.C.1
-
39
-
-
0030971343
-
Analysis of birefringence decay profiles for nucleic acid helices possessing bends or regions of increased flexibility: The τ-ratio approach
-
Vacano, E., and P. J. Hagerman. 1997. Analysis of birefringence decay profiles for nucleic acid helices possessing bends or regions of increased flexibility: the τ-ratio approach. Biophys. J. 73:306-317.
-
(1997)
Biophys. J.
, vol.73
, pp. 306-317
-
-
Vacano, E.1
Hagerman, P.J.2
-
40
-
-
0001550609
-
Transient electric birefringence of dilute rigid-body suspensions at low field strength
-
Wegener, W. A. 1986. Transient electric birefringence of dilute rigid-body suspensions at low field strength. J. Chem. Phys. 84:5989-6004.
-
(1986)
J. Chem. Phys.
, vol.84
, pp. 5989-6004
-
-
Wegener, W.A.1
-
41
-
-
0000741446
-
Time-dependent birefringence, linear dichroism, and optical rotation resulting from rigid body rotational diffusion
-
Wegener, W. A., R. M. Dowben, and V. J. Koester. 1979. Time-dependent birefringence, linear dichroism, and optical rotation resulting from rigid body rotational diffusion. J. Chem. Phys. 70:622-632.
-
(1979)
J. Chem. Phys.
, vol.70
, pp. 622-632
-
-
Wegener, W.A.1
Dowben, R.M.2
Koester, V.J.3
-
42
-
-
0028969693
-
Bulge-induced bends in RNA: Quantification by transient electric birefringence
-
Zacharias, M., and P. J. Hagerman. 1995a. Bulge-induced bends in RNA: quantification by transient electric birefringence. J. Mol. Biol. 247: 486-500.
-
(1995)
J. Mol. Biol.
, vol.247
, pp. 486-500
-
-
Zacharias, M.1
Hagerman, P.J.2
-
43
-
-
0029032837
-
The bend in RNA created by the trans-activation response element bulge of human immunodeficiency virus is straightened by arginine and by Tat-derived peptide
-
Zacharias, M., and P. J. Hagerman. 1995b. The bend in RNA created by the trans-activation response element bulge of human immunodeficiency virus is straightened by arginine and by Tat-derived peptide. Proc. Natl. Acad. Sci. USA. 92:6052-6056.
-
(1995)
Proc. Natl. Acad. Sci. USA
, vol.92
, pp. 6052-6056
-
-
Zacharias, M.1
Hagerman, P.J.2
-
44
-
-
0029913806
-
The influence of symmetric internal loops on the flexibility of RNA
-
Zacharias, M., and P. J. Hagerman. 1996. The influence of symmetric internal loops on the flexibility of RNA. J. Mol. Biol. 257:276-289.
-
(1996)
J. Mol. Biol.
, vol.257
, pp. 276-289
-
-
Zacharias, M.1
Hagerman, P.J.2
|