-
1
-
-
0030855390
-
ESCHER: A new docking procedure applied to the reconstruction of protein tertiary structure
-
Ausiello, G., Cesareni, G., and Helmer-Citterich, M. 1997. ESCHER: A new docking procedure applied to the reconstruction of protein tertiary structure. Proteins 28: 556-567.
-
(1997)
Proteins
, vol.28
, pp. 556-567
-
-
Ausiello, G.1
Cesareni, G.2
Helmer-Citterich, M.3
-
2
-
-
0036468710
-
Folding and binding: From folding towards function
-
Baker, D. and Lim, W.A. 2002. Folding and binding: From folding towards function. Curr. Opin. Struct. Biol. 12: 11-13.
-
(2002)
Curr. Opin. Struct. Biol.
, vol.12
, pp. 11-13
-
-
Baker, D.1
Lim, W.A.2
-
3
-
-
0019872825
-
Helix to helix packing in proteins
-
Chothia, C., Levitt, M., and Richardson, D. 1981. Helix to helix packing in proteins. J. Mol. Biol. 145: 215-250.
-
(1981)
J. Mol. Biol.
, vol.145
, pp. 215-250
-
-
Chothia, C.1
Levitt, M.2
Richardson, D.3
-
4
-
-
0018791941
-
Protein folding: Evaluation of some simple rules for the assembly of helices into tertiary structures with myoglobin as an example
-
Cohen, F.E., Richmond, T.J., and Richards, F.M. 1979. Protein folding: Evaluation of some simple rules for the assembly of helices into tertiary structures with myoglobin as an example. J. Mol. Biol. 132: 275-288.
-
(1979)
J. Mol. Biol.
, vol.132
, pp. 275-288
-
-
Cohen, F.E.1
Richmond, T.J.2
Richards, F.M.3
-
5
-
-
0035342450
-
Residue frequencies and pairing preferences at protein-protein interfaces
-
Glaser, F., Steinberg, D., Vakser, I.A., and Ben-Tal, N. 2001. Residue frequencies and pairing preferences at protein-protein interfaces. Proteins 43: 89-102.
-
(2001)
Proteins
, vol.43
, pp. 89-102
-
-
Glaser, F.1
Steinberg, D.2
Vakser, I.A.3
Ben-Tal, N.4
-
6
-
-
0036606483
-
Principles of docking: An overview of search algorithms and a guide to scoring functions
-
Halperin, I., Ma, B., Wolfson, H., and Nussinov, R. 2002. Principles of docking: An overview of search algorithms and a guide to scoring functions. Proteins 47: 409-443.
-
(2002)
Proteins
, vol.47
, pp. 409-443
-
-
Halperin, I.1
Ma, B.2
Wolfson, H.3
Nussinov, R.4
-
7
-
-
0027092678
-
Selection of a representative set of structures from the Brookhaven Protein Data Bank
-
Hobohm, U. and Sander, C. 1992. Selection of a representative set of structures from the Brookhaven Protein Data Bank. Protein Sci. 1: 409-417.
-
(1992)
Protein Sci.
, vol.1
, pp. 409-417
-
-
Hobohm, U.1
Sander, C.2
-
8
-
-
0028205447
-
Enlarged representative set of protein structures
-
-. 1994. Enlarged representative set of protein structures. Protein Sci. 3: 522-524.
-
(1994)
Protein Sci.
, vol.3
, pp. 522-524
-
-
-
9
-
-
0028607523
-
Cavities and packing at protein interfaces
-
Hubbard, S.J. and Argos, P. 1994. Cavities and packing at protein interfaces. Protein Sci. 3: 2194-2206.
-
(1994)
Protein Sci.
, vol.3
, pp. 2194-2206
-
-
Hubbard, S.J.1
Argos, P.2
-
10
-
-
0020997912
-
Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features
-
Kabsch, W. and Sander, C. 1983. Dictionary of protein secondary structure: Pattern recognition of hydrogen-bonded and geometrical features. Biopolymers 22: 2577-2637.
-
(1983)
Biopolymers
, vol.22
, pp. 2577-2637
-
-
Kabsch, W.1
Sander, C.2
-
11
-
-
0026572775
-
Molecular surface recognition: Determination of geometric fit between proteins and their ligands by correlation techniques
-
Katchalski-Katzir, E., Shariv, I., Eisenstein, M., Friesem, A.A., Aflalo, C., and Vakser, I.A. 1992. Molecular surface recognition: Determination of geometric fit between proteins and their ligands by correlation techniques. Proc. Natl. Acad. Sci. 89: 2195-2199.
-
(1992)
Proc. Natl. Acad. Sci.
, vol.89
, pp. 2195-2199
-
-
Katchalski-Katzir, E.1
Shariv, I.2
Eisenstein, M.3
Friesem, A.A.4
Aflalo, C.5
Vakser, I.A.6
-
12
-
-
0031678069
-
Empirical solvent-mediated potentials hold for both intra-molecular and inter-molecular inter-residue interactions
-
Keskin, O., Bahar, I., Badretdinov, A.Y., Ptitsyn, O.B., and Jernigan, R.L. 1998. Empirical solvent-mediated potentials hold for both intra-molecular and inter-molecular inter-residue interactions. Protein Sci. 7: 2578-2586.
-
(1998)
Protein Sci.
, vol.7
, pp. 2578-2586
-
-
Keskin, O.1
Bahar, I.2
Badretdinov, A.Y.3
Ptitsyn, O.B.4
Jernigan, R.L.5
-
13
-
-
0024279564
-
General architecture of the α-helical globule
-
Murzin, A.G. and Finkelstein, A.V. 1988. General architecture of the α-helical globule. J. Mol. Biol. 204: 749-769.
-
(1988)
J. Mol. Biol.
, vol.204
, pp. 749-769
-
-
Murzin, A.G.1
Finkelstein, A.V.2
-
14
-
-
0033406885
-
Analysis and prediction of inter-strand packing distances between β-sheets of globular proteins
-
Nagarajaram, H.A., Reddy, B.V.B., and Blundell, T.L. 1999. Analysis and prediction of inter-strand packing distances between β-sheets of globular proteins. Protein Eng. 12: 1055-1062.
-
(1999)
Protein Eng.
, vol.12
, pp. 1055-1062
-
-
Nagarajaram, H.A.1
Reddy, B.V.B.2
Blundell, T.L.3
-
15
-
-
0023512004
-
Internal packing and protein structural classes
-
Cold Spring Harbor Laboratory, Cold Spring Harbor, NY
-
Ponder, J.W. and Richards, F.M. 1987. Internal packing and protein structural classes. In Cold Spring Harbor symposia on quantitative biology, Vol. LII, pp. 421-428. Cold Spring Harbor Laboratory, Cold Spring Harbor, NY.
-
(1987)
Cold Spring Harbor Symposia on Quantitative Biology
, vol.52
, pp. 421-428
-
-
Ponder, J.W.1
Richards, F.M.2
-
16
-
-
0027507711
-
Packing of secondary structure elements in proteins: Analysis and prediction of inter-helix distances
-
Reddy, B.V.B. and Blundell, T.L. 1993. Packing of secondary structure elements in proteins: Analysis and prediction of inter-helix distances. J. Mol. Biol. 233: 464-479.
-
(1993)
J. Mol. Biol.
, vol.233
, pp. 464-479
-
-
Reddy, B.V.B.1
Blundell, T.L.2
-
17
-
-
0033016710
-
Analysis of interactive packing of secondary structural elements in α/β units in proteins
-
Reddy, B.V.B., Nagarajaram, H.A., and Blundell, T.L. 1999. Analysis of interactive packing of secondary structural elements in α/β units in proteins. Protein Sci. 8: 573-586.
-
(1999)
Protein Sci.
, vol.8
, pp. 573-586
-
-
Reddy, B.V.B.1
Nagarajaram, H.A.2
Blundell, T.L.3
-
18
-
-
0017876485
-
Packing of α-helices: Geometrical constraints and contact areas
-
Richmond, T.J. and Richards, F.M. 1978. Packing of α-helices: Geometrical constraints and contact areas. J. Mol. Biol. 119: 537-555.
-
(1978)
J. Mol. Biol.
, vol.119
, pp. 537-555
-
-
Richmond, T.J.1
Richards, F.M.2
-
19
-
-
0034255123
-
Speeding molecular recognition by using the folding funnel: The fly-casting mechanism
-
Shoemaker, B.A., Portman, J.J., and Wolynes, P.G. 2000. Speeding molecular recognition by using the folding funnel: The fly-casting mechanism. Proc. Natl. Acad. Sci. 97: 8868-8873.
-
(2000)
Proc. Natl. Acad. Sci.
, vol.97
, pp. 8868-8873
-
-
Shoemaker, B.A.1
Portman, J.J.2
Wolynes, P.G.3
-
20
-
-
0034916879
-
How common is the funnel-like energy landscape in protein-protein interactions?
-
Tovchigrechko, A. and Vakser, I.A. 2001. How common is the funnel-like energy landscape in protein-protein interactions? Protein Sci. 10: 1572-1583.
-
(2001)
Protein Sci.
, vol.10
, pp. 1572-1583
-
-
Tovchigrechko, A.1
Vakser, I.A.2
-
21
-
-
0029988383
-
Protein-protein interfaces: Architectures and interactions in protein-protein interfaces and in protein cores: Their similarities and differences
-
Tsai, C.-J., Lin, S.L., Wolfson, H.J., and Nussinov, R. 1996. Protein-protein interfaces: Architectures and interactions in protein-protein interfaces and in protein cores: Their similarities and differences. Crit. Rev. Biochem. Mol. Biol. 31: 127-152.
-
(1996)
Crit. Rev. Biochem. Mol. Biol.
, vol.31
, pp. 127-152
-
-
Tsai, C.-J.1
Lin, S.L.2
Wolfson, H.J.3
Nussinov, R.4
-
22
-
-
0030968991
-
Empirical potentials and functions for protein folding and binding
-
Vajda, S., Sippl, M., and Novotny, J. 1997. Empirical potentials and functions for protein folding and binding. Curr. Opin. Struct. Biol. 7: 222-228.
-
(1997)
Curr. Opin. Struct. Biol.
, vol.7
, pp. 222-228
-
-
Vajda, S.1
Sippl, M.2
Novotny, J.3
-
23
-
-
0028984540
-
Protein docking for low-resolution structures
-
Vakser, I.A. 1995. Protein docking for low-resolution structures. Protein Eng. 8: 371-377.
-
(1995)
Protein Eng.
, vol.8
, pp. 371-377
-
-
Vakser, I.A.1
-
24
-
-
0031296607
-
Evaluation of GRAMM low-resolution docking methodology on the hemagglutinin-antibody complex
-
-. 1997. Evaluation of GRAMM low-resolution docking methodology on the hemagglutinin-antibody complex. Proteins 1(Suppl): 226-230.
-
(1997)
Proteins
, vol.1
, Issue.SUPPL.
, pp. 226-230
-
-
-
25
-
-
0028575449
-
Hydrophobic docking: A proposed enhancement to molecular recognition techniques
-
Vakser, I.A. and Aflalo, C. 1994. Hydrophobic docking: A proposed enhancement to molecular recognition techniques. Proteins 20: 320-329.
-
(1994)
Proteins
, vol.20
, pp. 320-329
-
-
Vakser, I.A.1
Aflalo, C.2
-
26
-
-
0034800005
-
Strategies for modeling the interactions of the transmembrane helices of G protein-coupled receptors by geometric complementarity using the GRAMM computer algorithm
-
Vakser, I.A. and Jiang, S. 2002. Strategies for modeling the interactions of the transmembrane helices of G protein-coupled receptors by geometric complementarity using the GRAMM computer algorithm. Methods Enzymol. 343: 313-328.
-
(2002)
Methods Enzymol.
, vol.343
, pp. 313-328
-
-
Vakser, I.A.1
Jiang, S.2
-
27
-
-
0029867179
-
Principles of helix-helix packing in proteins: The helical lattice superposition model
-
Walther, D., Eisenhaber, F., and Argos, P. 1996. Principles of helix-helix packing in proteins: The helical lattice superposition model. J. Mol. Biol. 255: 536-553.
-
(1996)
J. Mol. Biol.
, vol.255
, pp. 536-553
-
-
Walther, D.1
Eisenhaber, F.2
Argos, P.3
-
28
-
-
0033769667
-
Constraint-based assembly of tertiary protein structures from secondary structure elements
-
Yue, K. and Dill, K.A. 2000. Constraint-based assembly of tertiary protein structures from secondary structure elements. Protein Sci. 9: 1935-1946.
-
(2000)
Protein Sci.
, vol.9
, pp. 1935-1946
-
-
Yue, K.1
Dill, K.A.2
|