-
2
-
-
0026342532
-
Information-Theoretical Entropy as a Measure of Sequence Variability
-
10.1002/prot.340110408 1758884
-
Shenkin P Erman B Mastrandrea L Information-Theoretical Entropy as a Measure of Sequence Variability Proteins Struct Funct Genet 1991, 11:297-313 10.1002/prot.340110408 1758884
-
(1991)
Proteins Struct Funct Genet
, vol.11
, pp. 297-313
-
-
Shenkin, P.1
Erman, B.2
Mastrandrea, L.3
-
3
-
-
0002218484
-
Rate4Site: An algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues
-
10.1093/bioinformatics/18.8.1116 12169533
-
Pupko T Bell RE Mayrose I Glaser F Ben-Tal N Rate4Site: An algorithmic tool for the identification of functional regions in proteins by surface mapping of evolutionary determinants within their homologues Bioinformatics 2002, 18:S71-S77 10.1093/bioinformatics/18.8.1116 12169533
-
(2002)
Bioinformatics
, vol.18
-
-
Pupko, T.1
Bell, R.E.2
Mayrose, I.3
Glaser, F.4
Ben-Tal, N.5
-
4
-
-
0036681416
-
Scoring Residue Conservation
-
10.1002/prot.10146 12112692
-
Valdar W Scoring Residue Conservation Proteins Struct Funct Genet 2002, 48:227-241 http://www.ebi.ac.uk/thornton-srv/databases/cgi-bin/valdar/ scorecons_server.pl 10.1002/prot.10146 12112692
-
(2002)
Proteins Struct Funct Genet
, vol.48
, pp. 227-241
-
-
Valdar, W.1
-
5
-
-
1042264059
-
Searching for functional sites in protein structures
-
10.1016/j.cbpa.2003.11.001
-
Jones S Thornton J Searching for functional sites in protein structures Curr Opin Chem Biol 2003, 8:3-7 10.1016/j.cbpa.2003.11.001
-
(2003)
Curr Opin Chem Biol
, vol.8
, pp. 3-7
-
-
Jones, S.1
Thornton, J.2
-
6
-
-
0029913807
-
An Evolutionary Trace Method Defines Binding Surfaces Common to Protein Families
-
10.1006/jmbi.1996.0167 8609628
-
Lichtarge O Bourne H Cohen F An Evolutionary Trace Method Defines Binding Surfaces Common to Protein Families J Mol Biol 1996, 257:342-358 10.1006/jmbi.1996.0167 8609628
-
(1996)
J Mol Biol
, vol.257
, pp. 342-358
-
-
Lichtarge, O.1
Bourne, H.2
Cohen, F.3
-
7
-
-
32144442848
-
Prediction of functional specificity determinants from protein sequences using log-likelihood ratios
-
10.1093/bioinformatics/bti766 16278237
-
Pei J Cai W Kinch L Grishin N Prediction of functional specificity determinants from protein sequences using log-likelihood ratios Bioinformatics 2006, 22:164-171 10.1093/bioinformatics/bti766 16278237
-
(2006)
Bioinformatics
, vol.22
, pp. 164-171
-
-
Pei, J.1
Cai, W.2
Kinch, L.3
Grishin, N.4
-
8
-
-
84886764324
-
Predicting specificity-determining residues in two large eukaryotic transcription factor families
-
Donald J Shakhnovich E Predicting specificity-determining residues in two large eukaryotic transcription factor families Nucl Acids Res 1996, 93:11628-11633
-
(1996)
Nucl Acids Res
, vol.93
, pp. 11628-11633
-
-
Donald, J.1
Shakhnovich, E.2
-
9
-
-
18144424851
-
Sequence signatures and the probabilistic identification of proteins in the Myc-Max-Mad network
-
1088358 15851686 10.1073/pnas.0408964102
-
Atchley W Fernandes A Sequence signatures and the probabilistic identification of proteins in the Myc-Max-Mad network Proc Natl Acad Sci USA 2005, 102:6401-6406 1088358 15851686 10.1073/pnas.0408964102
-
(2005)
Proc Natl Acad Sci USA
, vol.102
, pp. 6401-6406
-
-
Atchley, W.1
Fernandes, A.2
-
10
-
-
1242339659
-
A Family of Evolution-Entropy Hybrid Methods for Ranking Protein residues by Importance
-
10.1016/j.jmb.2003.12.078 15037084
-
Mihalek I Reš I Lichtarge O A Family of Evolution-Entropy Hybrid Methods for Ranking Protein residues by Importance J Mol Biol 2004, 336:1265-1282 10.1016/j.jmb.2003.12.078 15037084
-
(2004)
J Mol Biol
, vol.336
, pp. 1265-1282
-
-
Mihalek, I.1
Reš, I.2
Lichtarge, O.3
-
12
-
-
0037470597
-
Automatic Methods for Predicting Functionally Important Residues
-
10.1016/S0022-2836(02)01451-1 12589769
-
del Sol Mesa A Pazos F Valencia A Automatic Methods for Predicting Functionally Important Residues J Mol Biol 2003, 326:1289-1302 10.1016/ S0022-2836(02)01451-1 12589769
-
(2003)
J Mol Biol
, vol.326
, pp. 1289-1302
-
-
del Sol Mesa, A.1
Pazos, F.2
Valencia, A.3
-
13
-
-
0026458378
-
Amino acid substitution matrices from protein blocks
-
1438297 10.1073/pnas.89.22.10915
-
Henikoff S Henikoff J Amino acid substitution matrices from protein blocks Proc Natl Acad Sci USA 1992, 89:10915-10919 50453 1438297 10.1073/ pnas.89.22.10915
-
(1992)
Proc Natl Acad Sci USA
, vol.89
, pp. 10915-10919
-
-
Henikoff, S.1
Henikoff, J.2
-
15
-
-
0742286995
-
A transition probability model for amino acid substitutions from blocks
-
10.1089/106652703322756195 14980022
-
Veerassamy S Smith A Tillier E A transition probability model for amino acid substitutions from blocks J Comput Biol 2003 ,10:997-1010 10.1089/ 106652703322756195 14980022
-
(2003)
J Comput Biol
, vol.10
, pp. 997-1010
-
-
Veerassamy, S.1
Smith, A.2
Tillier, E.3
-
16
-
-
0037474541
-
Structural Characterisation and Functional Significance of Transient Protein-Protein Interactions
-
10.1016/S0022-2836(02)01281-0 12527304
-
Nooren I Thornton JM Structural Characterisation and Functional Significance of Transient Protein-Protein Interactions J Mol Biol 2003, 325:991-1018 10.1016/S0022-2836(02)01281-0 12527304
-
(2003)
J Mol Biol
, vol.325
, pp. 991-1018
-
-
Nooren, I.1
Thornton, J.M.2
-
17
-
-
34247555940
-
On itinerant waters and detectability of protein-protein interfaces through comparative analysis of homologues
-
10.1016/j.jmb.2007.03.057 17434530
-
Mihalek I Reš I Lichtarge O On itinerant waters and detectability of protein-protein interfaces through comparative analysis of homologues J Mol Biol 2007, 369:584-595 10.1016/j.jmb.2007.03.057 17434530
-
(2007)
J Mol Biol
, vol.369
, pp. 584-595
-
-
Mihalek, I.1
Reš, I.2
Lichtarge, O.3
-
18
-
-
0028961335
-
SCOP: A structural classification of proteins database for the investigation of sequences and structures
-
10.1006/jmbi.1995.0159 7723011
-
Murzin AG Brenner SE Hubbard T Chothia C SCOP: A structural classification of proteins database for the investigation of sequences and structures J Mol Biol 1995, 247:536-540 10.1006/jmbi.1995.0159 7723011
-
(1995)
J Mol Biol
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
-
19
-
-
0026030641
-
Database of homology derived protein structures and the structural meaning of sequence alignment
-
10.1002/prot.340090107 2017436
-
Sander C Schneider R Database of homology derived protein structures and the structural meaning of sequence alignment Proteins 1991, 9:56-68 10.1002/prot.340090107 2017436
-
(1991)
Proteins
, vol.9
, pp. 56-68
-
-
Sander, C.1
Schneider, R.2
-
20
-
-
0030801002
-
Gapped BLAST and PSI-BLAST: A new generation of protein database search programs
-
146917 9254694 10.1093/nar/25.17.3389
-
Altschul S Madden T Schaffer A Zhang J Zhang Z Miller W Lipman D Gapped BLAST and PSI-BLAST: A new generation of protein database search programs Nucl Acids Res 1997, 25:3389-3402 146917 9254694 10.1093/nar/ 25.17.3389
-
(1997)
Nucl Acids Res
, vol.25
, pp. 3389-3402
-
-
Altschul, S.1
Madden, T.2
Schaffer, A.3
Zhang, J.4
Zhang, Z.5
Miller, W.6
Lipman, D.7
-
21
-
-
33846057724
-
NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins
-
1716718 17130148 10.1093/nar/gkl842
-
Pruitt K Tatusova T Maglott D NCBI reference sequences (RefSeq): A curated non-redundant sequence database of genomes, transcripts and proteins Nucl Acids Res 2007, 35:D61-D65 1716718 17130148 10.1093/nar/ gkl842
-
(2007)
Nucl Acids Res
, vol.35
-
-
Pruitt, K.1
Tatusova, T.2
Maglott, D.3
-
22
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
390337 15034147 10.1093/nar/gkh340
-
Edgar R MUSCLE: Multiple sequence alignment with high accuracy and high throughput Nucl Acids Res 2004, 32:1792-97 390337 15034147 10.1093/nar/ gkh340
-
(2004)
Nucl Acids Res
, vol.32
, pp. 1792-1797
-
-
Edgar, R.1
-
23
-
-
35748932852
-
-
R Development Core Team Vienna, Austria [ISBN 3-900051-07-0]
-
R Development Core Team R: A Language and Environment for Statistical Computing R Foundation for Statistical Computing, Vienna, Austria 2007 http://www.R-project.org [ISBN 3-900051-07-0]
-
(2007)
R: A Language and Environment for Statistical Computing
-
-
-
24
-
-
0035178383
-
Protein-protein interfaces: Analysis of amino acid conservation in homodimers
-
10.1002/1097-0134(20010101)42:1<108::AID-PROT110>3.0.CO;2-O
-
Valdar W Thornton J Protein-protein interfaces: Analysis of amino acid conservation in homodimers Proteins Structure Function and Genetics 2001, 42:108-124 10.1002/ 1097-0134(20010101)42:1<108::AID-PROT110>3.0.CO;2-O
-
(2001)
Proteins Structure Function and Genetics
, vol.42
, pp. 108-124
-
-
Valdar, W.1
Thornton, J.2
-
25
-
-
32144437402
-
A structure and evolution guided Monte Carlo sequence selection strategy for multiple alignment-based analysis of proteins
-
10.1093/bioinformatics/bti791 16303797
-
Mihalek I Reš I Lichtarge O A structure and evolution guided Monte Carlo sequence selection strategy for multiple alignment-based analysis of proteins Bioinformatics 2006, 22:149-156 10.1093/ bioinformatics/bti791 16303797
-
(2006)
Bioinformatics
, vol.22
, pp. 149-156
-
-
Mihalek, I.1
Reš, I.2
Lichtarge, O.3
-
26
-
-
84886766988
-
-
Lichtarge Lab http://mammoth.bcm.tmc.edu
-
Lichtarge Lab
-
-
-
27
-
-
0033954256
-
The Protein Data Bank
-
102472 10592235 10.1093/nar/28.1.235
-
Berman H Westbrook J Feng Z Gilliland G Bhat T Weissig H Shindyalov I Bourne P The Protein Data Bank Nucl Acids Res 2000, 28:235-242 102472 10592235 10.1093/nar/28.1.235
-
(2000)
Nucl Acids Res
, vol.28
, pp. 235-242
-
-
Berman, H.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.5
Weissig, H.6
Shindyalov, I.7
Bourne, P.8
|