-
1
-
-
0036677673
-
Simplifying amino acid alphabets by means of a branch and bound algorithm and substitution matrices
-
Cannata N, Toppo S, Romualdi C and Valle G 2002 Simplifying amino acid alphabets by means of a branch and bound algorithm and substitution matrices; Bioinformatics 18 1102-1108
-
(2002)
Bioinformatics
, vol.18
, pp. 1102-1108
-
-
Cannata, N.1
Toppo, S.2
Romualdi, C.3
Valle, G.4
-
2
-
-
0032725441
-
Folding alphabets
-
Chan S H 1999 Folding alphabets; Nat. Struct. Biol. 6 994-996
-
(1999)
Nat. Struct. Biol
, vol.6
, pp. 994-996
-
-
Chan, S.H.1
-
5
-
-
0037427454
-
What is the minimum number of letters required to fold a protein
-
Fan K and Wang W 2003 What is the minimum number of letters required to fold a protein; J. Mol. Biol. 328 921-926
-
(2003)
J. Mol. Biol
, vol.328
, pp. 921-926
-
-
Fan, K.1
Wang, W.2
-
6
-
-
0020528412
-
What is Conservative Substitution?
-
French S and Robson B 1983 What is Conservative Substitution?; J. Mol. Evol. 19 171-175
-
(1983)
J. Mol. Evol
, vol.19
, pp. 171-175
-
-
French, S.1
Robson, B.2
-
8
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
Henikoff S and Henikoff J G 1992 Amino acid substitution matrices from protein blocks; Proc. Natl. Acad. Sci. USA 89 10915-10919
-
(1992)
Proc. Natl. Acad. Sci. USA
, vol.89
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.G.2
-
9
-
-
0026691182
-
The rapid generation of mutation data matrices from protein sequences
-
Jones D T, Taylor W R and Thornton J M 1992 The rapid generation of mutation data matrices from protein sequences; Comput. Appl. Biosci. 8 275-282
-
(1992)
Comput. Appl. Biosci
, vol.8
, pp. 275-282
-
-
Jones, D.T.1
Taylor, W.R.2
Thornton, J.M.3
-
10
-
-
0036725277
-
Molecular dynamics simulations of biomolecules
-
Karplus M and McCammon J A 2002 Molecular dynamics simulations of biomolecules; Nat. Struct. Biol. 9 646-652
-
(2002)
Nat. Struct. Biol
, vol.9
, pp. 646-652
-
-
Karplus, M.1
McCammon, J.A.2
-
11
-
-
1842477257
-
A new criterion and method for amino acid classification
-
Kosiol C, Goldman N and Buttimore H N 2004 A new criterion and method for amino acid classification; J. Theor. Biol. 228 97-106
-
(2004)
J. Theor. Biol
, vol.228
, pp. 97-106
-
-
Kosiol, C.1
Goldman, N.2
Buttimore, H.N.3
-
13
-
-
0017157584
-
A Simplified representation of protein conformations for rapid simulation of protein folding
-
Levitt M 1976 A Simplified representation of protein conformations for rapid simulation of protein folding; J. Mol. Biol. 104 59-107
-
(1976)
J. Mol. Biol
, vol.104
, pp. 59-107
-
-
Levitt, M.1
-
14
-
-
7044220745
-
Nature of driving force for protein folding: A result from analyzing the statistical potential
-
Li H, Tang C and Wingreen N S 1997 Nature of driving force for protein folding: A result from analyzing the statistical potential; Phys. Rev. Lett. 79 765-768
-
(1997)
Phys. Rev. Lett
, vol.79
, pp. 765-768
-
-
Li, H.1
Tang, C.2
Wingreen, N.S.3
-
15
-
-
0038451355
-
Reduction of protein sequence complexity by residue grouping
-
Li T, Fan K, Wang J and Wang W 2003 Reduction of protein sequence complexity by residue grouping; Protein Eng. 16 323-330
-
(2003)
Protein Eng
, vol.16
, pp. 323-330
-
-
Li, T.1
Fan, K.2
Wang, J.3
Wang, W.4
-
16
-
-
0026785519
-
Contact potential that recognizes the correct folding of globular proteins
-
Mairov V N and Crippen G M 1992 Contact potential that recognizes the correct folding of globular proteins; J. Mol. Biol. 227 876-888
-
(1992)
J. Mol. Biol
, vol.227
, pp. 876-888
-
-
Mairov, V.N.1
Crippen, G.M.2
-
17
-
-
0029919190
-
Residue - Residue potentials with a favorable contact pair term and an unfavorable high packing density term, for simulation and threading
-
Miyazawa S and Jernigan R L 1996 Residue - Residue potentials with a favorable contact pair term and an unfavorable high packing density term, for simulation and threading; J. Mol. Biol. 256 623-644
-
(1996)
J. Mol. Biol
, vol.256
, pp. 623-644
-
-
Miyazawa, S.1
Jernigan, R.L.2
-
18
-
-
0001338954
-
Simplified amino acid alphabets for protein fold recognition and implications for folding
-
Murphy R L, Wallqvist A and Levy M R 2000 Simplified amino acid alphabets for protein fold recognition and implications for folding; Protein Eng. 13 149-152
-
(2000)
Protein Eng
, vol.13
, pp. 149-152
-
-
Murphy, R.L.1
Wallqvist, A.2
Levy, M.R.3
-
19
-
-
0023812695
-
Characterization of a helical protein designed from first principles
-
Regan L and DeGrado W F 1988 Characterization of a helical protein designed from first principles; Science 241 976-978
-
(1988)
Science
, vol.241
, pp. 976-978
-
-
Regan, L.1
DeGrado, W.F.2
-
20
-
-
0030852463
-
Functional rapidly folding proteins from simplified amino acid sequences
-
Riddle S D, Santiago J V, Bray-Hall S T, Doshi N, Grantcharova V P, Yi Q and Baker D 1997 Functional rapidly folding proteins from simplified amino acid sequences; Nat. Struct. Biol. 4 805-809
-
(1997)
Nat. Struct. Biol
, vol.4
, pp. 805-809
-
-
Riddle, S.D.1
Santiago, J.V.2
Bray-Hall, S.T.3
Doshi, N.4
Grantcharova, V.P.5
Yi, Q.6
Baker, D.7
-
21
-
-
0000507749
-
Matrices for detecting distant relationships
-
Schwartz R M and Dayhoff M O 1978 Matrices for detecting distant relationships; Atlas Protein Struct. 5 353-358
-
(1978)
Atlas Protein Struct
, vol.5
, pp. 353-358
-
-
Schwartz, R.M.1
Dayhoff, M.O.2
-
22
-
-
0029000696
-
Knowledge-based potentials for proteins
-
Sippl M J 1995 Knowledge-based potentials for proteins; Curr. Opin. Struct. Biol. 5 229-235
-
(1995)
Curr. Opin. Struct. Biol
, vol.5
, pp. 229-235
-
-
Sippl, M.J.1
-
23
-
-
0022591495
-
The classification of amino acid conservation
-
Taylor R W 1986 The classification of amino acid conservation; J. Theor. Biol. 119 205-218
-
(1986)
J. Theor. Biol
, vol.119
, pp. 205-218
-
-
Taylor, R.W.1
-
24
-
-
0034979318
-
BIOMOLECULAR SIMULATIONS: Recent developments in force fields, simulations of enzyme catalysis, protein-ligand, protein-protein, and protein-nucleic acid noncovalent interactions
-
Wang W, Donini O, Reyes C M and Kollman P A 2001 BIOMOLECULAR SIMULATIONS: Recent developments in force fields, simulations of enzyme catalysis, protein-ligand, protein-protein, and protein-nucleic acid noncovalent interactions; Annu. Rev. Biophys. Biomol. Struct. 20 211-243
-
(2001)
Annu. Rev. Biophys. Biomol. Struct
, vol.20
, pp. 211-243
-
-
Wang, W.1
Donini, O.2
Reyes, C.M.3
Kollman, P.A.4
-
25
-
-
0032726679
-
A computational approach to simplifying the protein folding alphabet
-
Wang J and Wang W 1999 A computational approach to simplifying the protein folding alphabet; Nat. Struct. Biol. 6 1033-1038
-
(1999)
Nat. Struct. Biol
, vol.6
, pp. 1033-1038
-
-
Wang, J.1
Wang, W.2
-
26
-
-
85035296424
-
Grouping of residue based on their contact interactions
-
Wang J and Wang W 2002 Grouping of residue based on their contact interactions; Phys. Rev. E 65 041911-5
-
(2002)
Phys. Rev. E
, vol.65
, pp. 041911-041915
-
-
Wang, J.1
Wang, W.2
-
27
-
-
0035031966
-
A General empirical model of protein evolution derived from multiple protein families using a maximum likelihood approach
-
Whelan S and Goldman N 2001 A General empirical model of protein evolution derived from multiple protein families using a maximum likelihood approach; J. Mol. Evol. 18 691-699
-
(2001)
J. Mol. Evol
, vol.18
, pp. 691-699
-
-
Whelan, S.1
Goldman, N.2
-
28
-
-
0030723486
-
As simple as can be?
-
Wolynes G P 1997 As simple as can be?; Nat. Struct. Biol. 4 871-874
-
(1997)
Nat. Struct. Biol
, vol.4
, pp. 871-874
-
-
Wolynes, G.P.1
|