-
2
-
-
0036468385
-
Prediction of protein-protein interactions by docking methods
-
Smith GR, Sternberg MJ. Prediction of protein-protein interactions by docking methods. Curr Opin Struct Biol 2002;12:28-35.
-
(2002)
Curr Opin Struct Biol
, vol.12
, pp. 28-35
-
-
Smith, G.R.1
Sternberg, M.J.2
-
3
-
-
0031565730
-
Modelling protein docking using shape complementarity, electrostatics and biochemical information
-
Gabb HA, Jackson RM, Sternberg MJ. Modelling protein docking using shape complementarity, electrostatics and biochemical information. J Mol Biol 1997;272:106-120.
-
(1997)
J Mol Biol
, vol.272
, pp. 106-120
-
-
Gabb, H.A.1
Jackson, R.M.2
Sternberg, M.J.3
-
4
-
-
0035040480
-
Protein docking using continuum electrostatics and geometric fit
-
Mandell JG, Roberts VA, Pique ME, Kotlovyi V, Mitchell JC, Nelson E, Tsigelny I, Ten Eyck LF. Protein docking using continuum electrostatics and geometric fit. Protein Eng 2001;14:105-113.
-
(2001)
Protein Eng
, vol.14
, pp. 105-113
-
-
Mandell, J.G.1
Roberts, V.A.2
Pique, M.E.3
Kotlovyi, V.4
Mitchell, J.C.5
Nelson, E.6
Tsigelny, I.7
Ten Eyck, L.F.8
-
5
-
-
0034193510
-
Protein docking using spherical polar Fourier correlations
-
Ritchie DW, Kemp GJ. Protein docking using spherical polar Fourier correlations. Proteins 2000;39:178-194.
-
(2000)
Proteins
, vol.39
, pp. 178-194
-
-
Ritchie, D.W.1
Kemp, G.J.2
-
6
-
-
0031296607
-
Evaluation of GRAMM low-resolution docking methodology on the hemagglutinin-antibody complex
-
Vakser IA. Evaluation of GRAMM low-resolution docking methodology on the hemagglutinin-antibody complex. Proteins 1997; Suppl 1:226-230.
-
(1997)
Proteins
, Issue.SUPPL. 1
, pp. 226-230
-
-
Vakser, I.A.1
-
7
-
-
0034769223
-
Electrostatic contributions to protein-protein interactions: Fast energetic filters for docking and their physical basis
-
Norel R, Sheinerman F, Petrey D, Honig B. Electrostatic contributions to protein-protein interactions: fast energetic filters for docking and their physical basis. Protein Sci 2001;10:2147-2161.
-
(2001)
Protein Sci
, vol.10
, pp. 2147-2161
-
-
Norel, R.1
Sheinerman, F.2
Petrey, D.3
Honig, B.4
-
8
-
-
0034212826
-
BiGGER: A new (soft) docking algorithm for predicting protein interactions
-
Palma PN, Krippahl L, Wampler JE, Moura JJ. BiGGER: a new (soft) docking algorithm for predicting protein interactions. Proteins 2000;39:372-384.
-
(2000)
Proteins
, vol.39
, pp. 372-384
-
-
Palma, P.N.1
Krippahl, L.2
Wampler, J.E.3
Moura, J.J.4
-
9
-
-
0034332970
-
DARWIN: A program for docking flexible molecules
-
Taylor JS, Burnett RM. DARWIN: a program for docking flexible molecules. Proteins 2000;41:173-191.
-
(2000)
Proteins
, vol.41
, pp. 173-191
-
-
Taylor, J.S.1
Burnett, R.M.2
-
10
-
-
0037093643
-
Docking unbound proteins using shape complementarity, desolvation, and electrostatics
-
Chen R, Weng Z. Docking unbound proteins using shape complementarity, desolvation, and electrostatics. Proteins 2002;47:281-294.
-
(2002)
Proteins
, vol.47
, pp. 281-294
-
-
Chen, R.1
Weng, Z.2
-
11
-
-
0035845563
-
Protein docking along smooth association pathways
-
Camacho CJ, Vajda S. Protein docking along smooth association pathways. Proc Natl Acad Sci USA 2001;98:10636-10641.
-
(2001)
Proc Natl Acad Sci USA
, vol.98
, pp. 10636-10641
-
-
Camacho, C.J.1
Vajda, S.2
-
12
-
-
0034663658
-
Scoring docked conformations generated by rigid-body protein-protein docking
-
Camacho CJ, Gatchell DW, Kimura SR, Vajda S. Scoring docked conformations generated by rigid-body protein-protein docking. Proteins 2000;40:525-537.
-
(2000)
Proteins
, vol.40
, pp. 525-537
-
-
Camacho, C.J.1
Gatchell, D.W.2
Kimura, S.R.3
Vajda, S.4
-
13
-
-
0029933286
-
Prediction of protein complexes using empirical free energy functions
-
Weng Z, Vajda S, Delisi C. Prediction of protein complexes using empirical free energy functions. Protein Sci 1996;5:614-626.
-
(1996)
Protein Sci
, vol.5
, pp. 614-626
-
-
Weng, Z.1
Vajda, S.2
Delisi, C.3
-
14
-
-
0029019869
-
A continuum model for protein-protein interactions: Application to the docking problem
-
Jackson RM, Sternberg MJE. A continuum model for protein-protein interactions: application to the docking problem. J Mol Biol 1995;250:258-275.
-
(1995)
J Mol Biol
, vol.250
, pp. 258-275
-
-
Jackson, R.M.1
Sternberg, M.J.E.2
-
15
-
-
0032512619
-
Rapid refinement of protein interfaces incorporating solvation: Application to the docking problem
-
Jackson RM, Gabb HA, Sternberg MJ. Rapid refinement of protein interfaces incorporating solvation: application to the docking problem. J Mol Biol 1998;276:265-285.
-
(1998)
J Mol Biol
, vol.276
, pp. 265-285
-
-
Jackson, R.M.1
Gabb, H.A.2
Sternberg, M.J.3
-
16
-
-
0027530108
-
Protein docking algorithms: Simulating molecular recognition
-
Cherfils J, Janin J. Protein docking algorithms: simulating molecular recognition. Curr Opin Struct Biol 1993;3:265-269.
-
(1993)
Curr Opin Struct Biol
, vol.3
, pp. 265-269
-
-
Cherfils, J.1
Janin, J.2
-
17
-
-
0029421048
-
Protein-protein recognition
-
Janin J. Protein-protein recognition. Prog Biophys Mol Biol 1995;64:145-166.
-
(1995)
Prog Biophys Mol Biol
, vol.64
, pp. 145-166
-
-
Janin, J.1
-
18
-
-
0030090466
-
Predicting the structure of protein complexes: A step in the right direction
-
Shoichet BK, Kuntz ID. Predicting the structure of protein complexes: a step in the right direction. Chem Biol 1996;3:151-156.
-
(1996)
Chem Biol
, vol.3
, pp. 151-156
-
-
Shoichet, B.K.1
Kuntz, I.D.2
-
20
-
-
0036606483
-
Principles of docking: An overview of search algorithms and a guide to scoring functions
-
Halperin I, Ma B, Wolfson H, Nussinov R. Principles of docking: an overview of search algorithms and a guide to scoring functions. Proteins 2002;47:409-443.
-
(2002)
Proteins
, vol.47
, pp. 409-443
-
-
Halperin, I.1
Ma, B.2
Wolfson, H.3
Nussinov, R.4
-
21
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization, and dynamics calculations
-
Brooks BR, Bruccoleri RE, Olafson BD, States DJ, Swaminathan S, Karplus M. CHARMM: a program for macromolecular energy, minimization, and dynamics calculations. J Comput Chem 1983;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
-
23
-
-
0038185277
-
A novel shape complementarity scoring function for protein-protein docking
-
Chen R, Weng Z. A novel shape complementarity scoring function for protein-protein docking. Proteins 2003;51:397-408.
-
(2003)
Proteins
, vol.51
, pp. 397-408
-
-
Chen, R.1
Weng, Z.2
-
24
-
-
0031552370
-
Determination of atomic desolvation energies from the structures of crystallized proteins
-
Zhang C, Vasmatzis G, Cornette JL, DeLisi C. Determination of atomic desolvation energies from the structures of crystallized proteins. J Mol Biol 1997;267:707-726.
-
(1997)
J Mol Biol
, vol.267
, pp. 707-726
-
-
Zhang, C.1
Vasmatzis, G.2
Cornette, J.L.3
DeLisi, C.4
-
25
-
-
0015222647
-
The interpretation of protein structures: Estimation of static accessibility
-
Lee B, Richards FM. The interpretation of protein structures: estimation of static accessibility. J Mol Biol 1971;55:379-400.
-
(1971)
J Mol Biol
, vol.55
, pp. 379-400
-
-
Lee, B.1
Richards, F.M.2
-
26
-
-
0034732988
-
Three-dimensional structures of the free and antigen-bound Fab from monoclonal antilysozyme antibody HyHEL-63(,)
-
Li Y, Li H, Smith-Gill SJ, Mariuzza RA. Three-dimensional structures of the free and antigen-bound Fab from monoclonal antilysozyme antibody HyHEL-63(,). Biochemistry 2000;39:6296-6309.
-
(2000)
Biochemistry
, vol.39
, pp. 6296-6309
-
-
Li, Y.1
Li, H.2
Smith-Gill, S.J.3
Mariuzza, R.A.4
-
27
-
-
0031572847
-
The crystal structure of HIV-1 Nef protein bound to the Fyn kinase SH3 domain suggests a role for this complex in altered T cell receptor signaling
-
Arold S, Franken P, Strub MP, Hoh F, Benichou S, Benarous R, Dumas C. The crystal structure of HIV-1 Nef protein bound to the Fyn kinase SH3 domain suggests a role for this complex in altered T cell receptor signaling. Structure 1997;5:1361-1372.
-
(1997)
Structure
, vol.5
, pp. 1361-1372
-
-
Arold, S.1
Franken, P.2
Strub, M.P.3
Hoh, F.4
Benichou, S.5
Benarous, R.6
Dumas, C.7
-
28
-
-
0027260709
-
Binding constants for a physiologic electron-transfer protein complex between methylamine dehydrogenase and amicyanin. Effects of ionic strength and bound copper on binding
-
Davidson VL, Graichen ME, Jones LH. Binding constants for a physiologic electron-transfer protein complex between methylamine dehydrogenase and amicyanin. Effects of ionic strength and bound copper on binding. Biochim Biophys Acta 1993;1144:39-45.
-
(1993)
Biochim Biophys Acta
, vol.1144
, pp. 39-45
-
-
Davidson, V.L.1
Graichen, M.E.2
Jones, L.H.3
-
29
-
-
0026340012
-
Effects of surface amino acid replacements in cytochrome c peroxidase on complex formation with cytochrome c
-
Corin AF, McLendon G, Zhang Q, Hake RA, Falvo J, Lu KS, Ciccarelli RB, Holzschu D. Effects of surface amino acid replacements in cytochrome c peroxidase on complex formation with cytochrome c. Biochemistry 1991;30:11585-11595.
-
(1991)
Biochemistry
, vol.30
, pp. 11585-11595
-
-
Corin, A.F.1
McLendon, G.2
Zhang, Q.3
Hake, R.A.4
Falvo, J.5
Lu, K.S.6
Ciccarelli, R.B.7
Holzschu, D.8
-
30
-
-
0021842726
-
Allosteric regulation of glycerol kinase by enzyme IIIglc of the phosphotransferase system in Escherichia coli and Salmonella typhimurium
-
Novotny MJ, Frederickson WL, Waygood EB, Saier MH Jr. Allosteric regulation of glycerol kinase by enzyme IIIglc of the phosphotransferase system in Escherichia coli and Salmonella typhimurium. J Bacteriol 1985;162:810-816.
-
(1985)
J Bacteriol
, vol.162
, pp. 810-816
-
-
Novotny, M.J.1
Frederickson, W.L.2
Waygood, E.B.3
Saier M.H., Jr.4
|