-
1
-
-
0030030147
-
Orientational steering in enzyme-substrate association: Ionic strength dependence of hydrodynamic torque effects
-
Antosiewicz, J., J. M. Briggs, and J. A. McCammon. 1996. Orientational steering in enzyme-substrate association: ionic strength dependence of hydrodynamic torque effects. Eur. Biophys. J. 24:137-141.
-
(1996)
Eur. Biophys. J.
, vol.24
, pp. 137-141
-
-
Antosiewicz, J.1
Briggs, J.M.2
McCammon, J.A.3
-
2
-
-
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
-
3
-
-
0036301164
-
X-ray structure determination of the cytochrome-c(2):reaction center electron transfer complex from Rhodobacter sphaeroides
-
Axelrod, H. L., E. C. Abresch, M. Y. Okamura, A. P. Yeh, D. C. Rees, and G. Feher. 2002. X-ray structure determination of the cytochrome-c(2):reaction center electron transfer complex from Rhodobacter sphaeroides. J. Mol. Biol. 319:501-515.
-
(2002)
J. Mol. Biol.
, vol.319
, pp. 501-515
-
-
Axelrod, H.L.1
Abresch, E.C.2
Okamura, M.Y.3
Yeh, A.P.4
Rees, D.C.5
Feher, G.6
-
4
-
-
0035964342
-
Electrostatics of nanosystems: Application to microtubules and the ribosome
-
Baker, N. A., D. Sept, S. Joseph, M. J. Holst, and J. A. McCammon. 2001. Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA. 98:10037-10041.
-
(2001)
Proc. Natl. Acad. Sci. USA
, vol.98
, pp. 10037-10041
-
-
Baker, N.A.1
Sept, D.2
Joseph, S.3
Holst, M.J.4
McCammon, J.A.5
-
5
-
-
0030982183
-
Copper A of cytochrome c oxidase, a novel long-embattled, biological electron-transfer site
-
Beinert, H. 1997. Copper A of cytochrome c oxidase, a novel long-embattled, biological electron-transfer site. Eur. J. Biochem. 245:521-532.
-
(1997)
Eur. J. Biochem.
, vol.245
, pp. 521-532
-
-
Beinert, H.1
-
7
-
-
0025007598
-
High-resolution three-dimensional structure of horse heart cytochrome c
-
Bushnell, G. W., G. V. Louie, and G. D. Brayer. 1990. High-resolution three-dimensional structure of horse heart cytochrome c. J. Mol. Biol. 214:585-595.
-
(1990)
J. Mol. Biol.
, vol.214
, pp. 585-595
-
-
Bushnell, G.W.1
Louie, G.V.2
Brayer, G.D.3
-
8
-
-
0036468396
-
Protein-protein association kinetics and protein docking
-
Camacho, C. J., and S. Vajda. 2002. Protein-protein association kinetics and protein docking. Curr. Opin. Struct. Biol. 12:36-40.
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 36-40
-
-
Camacho, C.J.1
Vajda, S.2
-
9
-
-
0032981961
-
Free energy landscapes of encounter complexes in protein-protein association
-
Camacho, C. J., Z. Weng, S. Vajda, and C. DeLisi. 1999. Free energy landscapes of encounter complexes in protein-protein association. Biophys. J. 76:1166-1178.
-
(1999)
Biophys. J.
, vol.76
, pp. 1166-1178
-
-
Camacho, C.J.1
Weng, Z.2
Vajda, S.3
DeLisi, C.4
-
10
-
-
0031757878
-
Dynamics of protein-protein docking: Cytochrome c and cytochrome c peroxidase revisited
-
Castro, G., C. A. Boswell, and S. H. Northrup. 1998. Dynamics of protein-protein docking: cytochrome c and cytochrome c peroxidase revisited. J. Biomol. Struct. Dyn. 16:413-424.
-
(1998)
J. Biomol. Struct. Dyn.
, vol.16
, pp. 413-424
-
-
Castro, G.1
Boswell, C.A.2
Northrup, S.H.3
-
11
-
-
0026124585
-
Electrostatic and diffusion of molecules in solution: Simulations with the University of Houston Brownian Dynamics Program
-
Davis, M. E., J. D. Madura, B. A. Luty, and J. A. McCammon. 1991. Electrostatic and diffusion of molecules in solution: simulations with the University of Houston Brownian Dynamics Program. Comput. Phys. Comm. 62:187-197.
-
(1991)
Comput. Phys. Comm.
, vol.62
, pp. 187-197
-
-
Davis, M.E.1
Madura, J.D.2
Luty, B.A.3
McCammon, J.A.4
-
13
-
-
0344500752
-
Computer simulation of protein-protein association kinetics: Acetylcholinesterase-fasciculin
-
Elcock, A. H., R. R. Gabdoulline, R. C. Wade, and J. A. McCammon. 1999. Computer simulation of protein-protein association kinetics: acetylcholinesterase-fasciculin. J. Mol. Biol. 291:149-162.
-
(1999)
J. Mol. Biol.
, vol.291
, pp. 149-162
-
-
Elcock, A.H.1
Gabdoulline, R.R.2
Wade, R.C.3
McCammon, J.A.4
-
14
-
-
0025781740
-
Reduction of horse heart ferricytochrome c by bovine liver ferrocytochrome b5
-
Eltis, L. D., R. E. Herbert, P. D. Barker, A. G. Mauk, and S. H. Northrup. 1991. Reduction of horse heart ferricytochrome c by bovine liver ferrocytochrome b5. Biochemistry. 30:3663-3674.
-
(1991)
Biochemistry
, vol.30
, pp. 3663-3674
-
-
Eltis, L.D.1
Herbert, R.E.2
Barker, P.D.3
Mauk, A.G.4
Northrup, S.H.5
-
15
-
-
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
-
16
-
-
0036533518
-
Protein-protein docking of electron transfer complexes: Cytochrome c oxidase and cytochrome c
-
Flöck, D., and V. Helms. 2002. Protein-protein docking of electron transfer complexes: cytochrome c oxidase and cytochrome c. Proteins. 47:75-85.
-
(2002)
Proteins
, vol.47
, pp. 75-85
-
-
Flöck, D.1
Helms, V.2
-
17
-
-
33748501925
-
Effective charges for macromolecules in solvent
-
Gabdoulline, R. R., and R. C. Wade. 1996. Effective charges for macromolecules in solvent. J. Phys. Chem. 100:3868-3878.
-
(1996)
J. Phys. Chem.
, vol.100
, pp. 3868-3878
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
18
-
-
0030891436
-
Simulation of diffusional association of barnase and barstar
-
Gabdoulline, R. R., and R. C. Wade. 1997. Simulation of diffusional association of barnase and barstar. Biophys. J. 72:1917-1929.
-
(1997)
Biophys. J.
, vol.72
, pp. 1917-1929
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
19
-
-
0031714012
-
Brownian dynamics simulation of protein-protein diffusional encounter
-
Gabdoulline, R. R., and R. C. Wade. 1998. Brownian dynamics simulation of protein-protein diffusional encounter. Methods. 14:329-341.
-
(1998)
Methods
, vol.14
, pp. 329-341
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
20
-
-
0033167137
-
On the protein-protein diffusional encounter complex
-
Gabdoulline, R. R., and R. C. Wade. 1999. On the protein-protein diffusional encounter complex. J Mol. Recognit. 12:226-234.
-
(1999)
J Mol. Recognit.
, vol.12
, pp. 226-234
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
21
-
-
0035830963
-
Protein-protein association: Investigation of factors influencing association rates by Brownian Dynamics simulation
-
Gabdoulline, R. R., and R. C. Wade. 2001. Protein-protein association: investigation of factors influencing association rates by Brownian Dynamics simulation. J. Mol. Biol. 306:1139-1155.
-
(2001)
J. Mol. Biol.
, vol.306
, pp. 1139-1155
-
-
Gabdoulline, R.R.1
Wade, R.C.2
-
23
-
-
1842497695
-
Diffusional dynamics of cytochrome c molecules in the presence of a charged surface
-
Gorba, C., and V. Helms. 2003. Diffusional dynamics of cytochrome c molecules in the presence of a charged surface. Soft Materials. 1:413-424.
-
(2003)
Soft Materials
, vol.1
, pp. 413-424
-
-
Gorba, C.1
Helms, V.2
-
24
-
-
0034695429
-
Structure of the soluble domain c(552) from Paracoccus denitrificans in the oxidized and reduced states
-
Harrenga, A., B. Reincke, H. Ruterjans, B. Ludwig, and H. Michel. 2000. Structure of the soluble domain c(552) from Paracoccus denitrificans in the oxidized and reduced states. J. Mol. Biol. 295:667-678.
-
(2000)
J. Mol. Biol.
, vol.295
, pp. 667-678
-
-
Harrenga, A.1
Reincke, B.2
Ruterjans, H.3
Ludwig, B.4
Michel, H.5
-
25
-
-
0031010107
-
The kinetics of protein-protein recognition
-
Janin, J. 1997. The kinetics of protein-protein recognition. Proteins. 28:153-161.
-
(1997)
Proteins
, vol.28
, pp. 153-161
-
-
Janin, J.1
-
26
-
-
0031880698
-
The coupling of electron transfer and proton translocation: Electrostatic calculations on Paracoccus denitrificans cytochrome c oxidase
-
Kannt, A., C. R. Lancaster, and H. Michel. 1998. The coupling of electron transfer and proton translocation: electrostatic calculations on Paracoccus denitrificans cytochrome c oxidase. Biophys. J. 74:708-721.
-
(1998)
Biophys. J.
, vol.74
, pp. 708-721
-
-
Kannt, A.1
Lancaster, C.R.2
Michel, H.3
-
27
-
-
0020490571
-
The asymmetric distribution of charges on the surface of horse cytochrome c
-
Koppenol, W. H., and E. Margoliash. 1982. The asymmetric distribution of charges on the surface of horse cytochrome c. J. Biol. Chem. 257:4426-4437.
-
(1982)
J. Biol. Chem.
, vol.257
, pp. 4426-4437
-
-
Koppenol, W.H.1
Margoliash, E.2
-
28
-
-
85050521214
-
Biological applications of electrostatics calculations and Brownian dynamics simulations
-
Madura, J. D., J. M. Briggs, R. Wade, B. A. Luty, A. Ilin, J. Antosiewicz, M. K. Gilson, B. Bagheri, L. Ridgway Scott, and J. A. McCammon. 1994. Biological applications of electrostatics calculations and Brownian dynamics simulations. Rev. Comput. Chem. 5:229-267.
-
(1994)
Rev. Comput. Chem.
, vol.5
, pp. 229-267
-
-
Madura, J.D.1
Briggs, J.M.2
Wade, R.3
Luty, B.A.4
Ilin, A.5
Antosiewicz, J.6
Gilson, M.K.7
Bagheri, B.8
Ridgway Scott, L.9
McCammon, J.A.10
-
29
-
-
0344875555
-
Different interaction modes of two cytochrome c oxidase soluble CuA fragments with their substrates
-
Maneg, O., B. Ludwig, and R. Malatesta. 2003. Different interaction modes of two cytochrome c oxidase soluble CuA fragments with their substrates. J. Biol. Chem. 278:46734-46740.
-
(2003)
J. Biol. Chem.
, vol.278
, pp. 46734-46740
-
-
Maneg, O.1
Ludwig, B.2
Malatesta, R.3
-
30
-
-
0027251833
-
Area/lipid of bilayers from NMR
-
Nagle, J. F. 1993. Area/lipid of bilayers from NMR. Biophys. J. 64:1476-1481.
-
(1993)
Biophys. J.
, vol.64
, pp. 1476-1481
-
-
Nagle, J.F.1
-
31
-
-
36549102274
-
Brownian dynamics simulation of diffusion-influenced bimolecular reactions
-
Northrup, S. H., S. A. Allison, and J. A. McCammon. 1983. Brownian dynamics simulation of diffusion-influenced bimolecular reactions. J. Chem. Phys. 80:1517-1524.
-
(1983)
J. Chem. Phys.
, vol.80
, pp. 1517-1524
-
-
Northrup, S.H.1
Allison, S.A.2
McCammon, J.A.3
-
32
-
-
0024040620
-
Brownian dynamics of cytochrome c and cytochrome c peroxidase association
-
Northrup, S. H., J. O. Boles, and J. C. Reynolds. 1988. Brownian dynamics of cytochrome c and cytochrome c peroxidase association. Science. 241:67-70.
-
(1988)
Science
, vol.241
, pp. 67-70
-
-
Northrup, S.H.1
Boles, J.O.2
Reynolds, J.C.3
-
33
-
-
33845282908
-
Electrostatic effects in the Brownian dynamics of association and orientation of heme proteins
-
Northrup, S. H., J. O. Boles, and J. C. L. Reynolds. 1987. Electrostatic effects in the Brownian dynamics of association and orientation of heme proteins. J. Phys. Chem. 91:5991-5998.
-
(1987)
J. Phys. Chem.
, vol.91
, pp. 5991-5998
-
-
Northrup, S.H.1
Boles, J.O.2
Reynolds, J.C.L.3
-
34
-
-
0026607545
-
Kinetics of protein-protein association explained by Brownian dynamics computer simulation
-
Northrup, S. H., and H. P. Erickson. 1992. Kinetics of protein-protein association explained by Brownian dynamics computer simulation. Proc. Natl. Acad. Sci. USA. 89:3338-3342.
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 3338-3342
-
-
Northrup, S.H.1
Erickson, H.P.2
-
35
-
-
0030886203
-
Structure at 2.7 Å resolution of the Paracoccus denitrificans two-subunit cytochrome c oxidase complexed with an antibody F-V fragment
-
Ostermeier, C., A. Harrenga, U. Ermler, and H. Michel. 1997. Structure at 2.7 Å resolution of the Paracoccus denitrificans two-subunit cytochrome c oxidase complexed with an antibody F-V fragment. Proc. Natl. Acad. Sci. USA. 94:10547-10553.
-
(1997)
Proc. Natl. Acad. Sci. USA
, vol.94
, pp. 10547-10553
-
-
Ostermeier, C.1
Harrenga, A.2
Ermler, U.3
Michel, H.4
-
36
-
-
0037013360
-
A Brownian dynamics study of the initial stages of hen egg-white lysozyme adsorption at a solid interface
-
Ravichandran, S., J. D. Madura, and J. Talbot. 2001. A Brownian dynamics study of the initial stages of hen egg-white lysozyme adsorption at a solid interface. J. Phys. Chem. 105:3610-3613.
-
(2001)
J. Phys. Chem.
, vol.105
, pp. 3610-3613
-
-
Ravichandran, S.1
Madura, J.D.2
Talbot, J.3
-
37
-
-
0035204346
-
Electrostatic analysis and Brownian dynamics simulation of the association of plastocyanin and cytochrome f
-
De Rienzo, F., R. R. Gabdoulline, M. C. Menziani, P. G. De Benedetti, and R. C. Wade. 2001. Electrostatic analysis and Brownian dynamics simulation of the association of plastocyanin and cytochrome f. Biophys. J. 81:3090-3104.
-
(2001)
Biophys. J.
, vol.81
, pp. 3090-3104
-
-
De Rienzo, F.1
Gabdoulline, R.R.2
Menziani, M.C.3
De Benedetti, P.G.4
Wade, R.C.5
-
38
-
-
0037056045
-
Respiratory chain supercomplexes of mitochondria and bacteria
-
Schägger, H. 2002. Respiratory chain supercomplexes of mitochondria and bacteria. Biochim. Biophys. Acta. 1555:154-159.
-
(2002)
Biochim. Biophys. Acta
, vol.1555
, pp. 154-159
-
-
Schägger, H.1
-
39
-
-
0035851099
-
The ratio of oxidative phosphorylation complexes I-V in bovine heart mitochondria and the composition of respiratory chain supercomplexes
-
Schägger, H., and K. Pfeiffer. 2001. The ratio of oxidative phosphorylation complexes I-V in bovine heart mitochondria and the composition of respiratory chain supercomplexes. J. Biol. Chem. 276:37861-37867.
-
(2001)
J. Biol. Chem.
, vol.276
, pp. 37861-37867
-
-
Schägger, H.1
Pfeiffer, K.2
-
40
-
-
0036468995
-
Kinetic studies of protein-protein interactions
-
Schreiber, G. 2002. Kinetic studies of protein-protein interactions. Curr. Opin. Struct. Biol. 12:41-47.
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 41-47
-
-
Schreiber, G.1
-
41
-
-
0033605858
-
Predicting the rate enhancement of protein complex formation from the electrostatic energy of interaction
-
Selzer, T., and G. Schreiber. 1999. Predicting the rate enhancement of protein complex formation from the electrostatic energy of interaction. J. Mol. Biol. 287:409-419.
-
(1999)
J. Mol. Biol.
, vol.287
, pp. 409-419
-
-
Selzer, T.1
Schreiber, G.2
-
42
-
-
0035889692
-
New insight into the mechanism of protein-protein association
-
Selzer, T., and G. Schreiber. 2001. New insight into the mechanism of protein-protein association. Proteins. 45:190-198.
-
(2001)
Proteins
, vol.45
, pp. 190-198
-
-
Selzer, T.1
Schreiber, G.2
-
44
-
-
0000267310
-
Towards a mathematical theory of the coagulation kinetics of colloidal solutions
-
Smoluchowski, M. V. 1918. Towards a mathematical theory of the coagulation kinetics of colloidal solutions. Z. Phys. Chem. 92:129-168.
-
(1918)
Z. Phys. Chem.
, vol.92
, pp. 129-168
-
-
Smoluchowski, M.V.1
-
45
-
-
0027515072
-
Molecular dynamics simulations of a lipid bilayer and of hexadecane: An investigation of membrane fluidity
-
Venable, R. M., Y. Zhang, B. J. Hardy, and R. W. Pastor. 1993. Molecular dynamics simulations of a lipid bilayer and of hexadecane: an investigation of membrane fluidity. Science. 262:223-226.
-
(1993)
Science
, vol.262
, pp. 223-226
-
-
Venable, R.M.1
Zhang, Y.2
Hardy, B.J.3
Pastor, R.W.4
-
46
-
-
0038183818
-
Interaction of cytochrome c with cytochrome c oxidase: An NMR study on two soluble fragments derived from Paracoccus denitrificans
-
Wienk, H., O. Maneg, C. Lücke, P. Pristovšek, F. Löhr, B. Ludwig, and H. Rüterjans. 2003. Interaction of cytochrome c with cytochrome c oxidase: an NMR study on two soluble fragments derived from Paracoccus denitrificans. Biochemistry. 42:6005-6012.
-
(2003)
Biochemistry
, vol.42
, pp. 6005-6012
-
-
Wienk, H.1
Maneg, O.2
Lücke, C.3
Pristovšek, P.4
Löhr, F.5
Ludwig, B.6
Rüterjans, H.7
-
47
-
-
0032518436
-
Cytochrome-c-binding site on cytochrome oxidase in Paracoccus denitrificans
-
Witt, H., F. Malatesta, F. Nicoletti, M. Brunori, and B. Ludwig. 1998a. Cytochrome-c-binding site on cytochrome oxidase in Paracoccus denitrificans. Eur. J. Biochem. 251:367-373.
-
(1998)
Eur. J. Biochem.
, vol.251
, pp. 367-373
-
-
Witt, H.1
Malatesta, F.2
Nicoletti, F.3
Brunori, M.4
Ludwig, B.5
-
48
-
-
0032570589
-
Tryptophan 121 of subunit II is the electron entry site to cytochrome-c oxidase in Paracoccus denitrificans
-
Witt, H., F. Malatesta, F. Nicoletti, M. Brunori, and B. Ludwig. 1998b. Tryptophan 121 of subunit II is the electron entry site to cytochrome-c oxidase in Paracoccus denitrificans. J. Biol. Chem. 273:5132-5136.
-
(1998)
J. Biol. Chem.
, vol.273
, pp. 5132-5136
-
-
Witt, H.1
Malatesta, F.2
Nicoletti, F.3
Brunori, M.4
Ludwig, B.5
-
49
-
-
0028020035
-
Molecular dynamics simulation of the gramicidin channel in a phospholipid bilayer
-
Woolf, T. B., and B. Roux. 1994. Molecular dynamics simulation of the gramicidin channel in a phospholipid bilayer. Proc. Natl. Acad. Sci. USA. 91:11631-11635.
-
(1994)
Proc. Natl. Acad. Sci. USA
, vol.91
, pp. 11631-11635
-
-
Woolf, T.B.1
Roux, B.2
-
50
-
-
0030038849
-
Structure, energetics, and dynamics of lipid-protein interactions: A molecular dynamics study of the gramicidin A channel in a DMPC bilayer
-
Woolf, T. B., and B. Roux. 1996. Structure, energetics, and dynamics of lipid-protein interactions: a molecular dynamics study of the gramicidin A channel in a DMPC bilayer. Proteins. 24:92-114.
-
(1996)
Proteins
, vol.24
, pp. 92-114
-
-
Woolf, T.B.1
Roux, B.2
|