-
1
-
-
0026588023
-
DNA binding analysis of glucocorticoid receptor specificity mutants
-
I. Alroy, and L.P. Freedman DNA binding analysis of glucocorticoid receptor specificity mutants Nucleic Acids Res. 20 1992 1045 1052
-
(1992)
Nucleic Acids Res.
, vol.20
, pp. 1045-1052
-
-
Alroy, I.1
Freedman, L.P.2
-
3
-
-
84864632927
-
Glucocorticoid receptor-DNA interactions: Binding energetics are the primary determinant of sequence-specific transcriptional activity
-
D.L. Bain, Q. Yang, K.D. Connaghan, J.P. Robblee, M.T. Miura, G.D. Degala, J.R. Lambert, and N.K. Maluf Glucocorticoid receptor-DNA interactions: binding energetics are the primary determinant of sequence-specific transcriptional activity J. Mol. Biol. 422 2012 18 32
-
(2012)
J. Mol. Biol.
, vol.422
, pp. 18-32
-
-
Bain, D.L.1
Yang, Q.2
Connaghan, K.D.3
Robblee, J.P.4
Miura, M.T.5
Degala, G.D.6
Lambert, J.R.7
Maluf, N.K.8
-
4
-
-
79956293316
-
Extensive DNA-binding specificity divergence of a conserved transcription regulator
-
C.R. Baker, B.B. Tuch, and A.D. Johnson Extensive DNA-binding specificity divergence of a conserved transcription regulator Proc. Natl. Acad. Sci. USA 108 2011 7493 7498
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 7493-7498
-
-
Baker, C.R.1
Tuch, B.B.2
Johnson, A.D.3
-
5
-
-
84866992765
-
Protein modularity, cooperative binding, and hybrid regulatory states underlie transcriptional network diversification
-
C.R. Baker, L.N. Booth, T.R. Sorrells, and A.D. Johnson Protein modularity, cooperative binding, and hybrid regulatory states underlie transcriptional network diversification Cell 151 2012 80 95
-
(2012)
Cell
, vol.151
, pp. 80-95
-
-
Baker, C.R.1
Booth, L.N.2
Sorrells, T.R.3
Johnson, A.D.4
-
6
-
-
0030451142
-
Interaction of steroid hormone receptors with the transcription initiation complex
-
M. Beato, and A. Sánchez-Pacheco Interaction of steroid hormone receptors with the transcription initiation complex Endocr. Rev. 17 1996 587 609
-
(1996)
Endocr. Rev.
, vol.17
, pp. 587-609
-
-
Beato, M.1
Sánchez-Pacheco, A.2
-
9
-
-
0030963761
-
Structure and dynamics of the glucocorticoid receptor DNA-binding domain: Comparison of wild type and a mutant with altered specificity
-
H. Berglund, M. Wolf-Watz, T. Lundbäck, S. van den Berg, and T. Härd Structure and dynamics of the glucocorticoid receptor DNA-binding domain: comparison of wild type and a mutant with altered specificity Biochemistry 36 1997 11188 11197
-
(1997)
Biochemistry
, vol.36
, pp. 11188-11197
-
-
Berglund, H.1
Wolf-Watz, M.2
Lundbäck, T.3
Van Den Berg, S.4
Härd, T.5
-
10
-
-
33845864966
-
Robustness-epistasis link shapes the fitness landscape of a randomly drifting protein
-
S. Bershtein, M. Segal, R. Bekerman, N. Tokuriki, and D.S. Tawfik Robustness-epistasis link shapes the fitness landscape of a randomly drifting protein Nature 444 2006 929 932
-
(2006)
Nature
, vol.444
, pp. 929-932
-
-
Bershtein, S.1
Segal, M.2
Bekerman, R.3
Tokuriki, N.4
Tawfik, D.S.5
-
12
-
-
80051991355
-
Evolution of a derived protein-protein interaction between HoxA11 and Foxo1a in mammals caused by changes in intramolecular regulation
-
K.J. Brayer, V.J. Lynch, and G.P. Wagner Evolution of a derived protein-protein interaction between HoxA11 and Foxo1a in mammals caused by changes in intramolecular regulation Proc. Natl. Acad. Sci. USA 108 2011 E414 E420
-
(2011)
Proc. Natl. Acad. Sci. USA
, vol.108
, pp. 414-E420
-
-
Brayer, K.J.1
Lynch, V.J.2
Wagner, G.P.3
-
13
-
-
46149104377
-
Evo-devo and an expanding evolutionary synthesis: A genetic theory of morphological evolution
-
S.B. Carroll Evo-devo and an expanding evolutionary synthesis: a genetic theory of morphological evolution Cell 134 2008 25 36
-
(2008)
Cell
, vol.134
, pp. 25-36
-
-
Carroll, S.B.1
-
14
-
-
0033551821
-
Analysis of estrogen response element binding by genetically selected steroid receptor DNA binding domain mutants exhibiting altered specificity and enhanced affinity
-
S. Chusacultanachai, K.A. Glenn, A.O. Rodriguez, E.K. Read, J.F. Gardner, B.S. Katzenellenbogen, and D.J. Shapiro Analysis of estrogen response element binding by genetically selected steroid receptor DNA binding domain mutants exhibiting altered specificity and enhanced affinity J. Biol. Chem. 274 1999 23591 23598
-
(1999)
J. Biol. Chem.
, vol.274
, pp. 23591-23598
-
-
Chusacultanachai, S.1
Glenn, K.A.2
Rodriguez, A.O.3
Read, E.K.4
Gardner, J.F.5
Katzenellenbogen, B.S.6
Shapiro, D.J.7
-
15
-
-
0842313326
-
Altering the sequence specificity of HaeIII methyltransferase by directed evolution using in vitro compartmentalization
-
H.M. Cohen, D.S. Tawfik, and A.D. Griffiths Altering the sequence specificity of HaeIII methyltransferase by directed evolution using in vitro compartmentalization Protein Eng. Des. Sel. 17 2004 3 11
-
(2004)
Protein Eng. Des. Sel.
, vol.17
, pp. 3-11
-
-
Cohen, H.M.1
Tawfik, D.S.2
Griffiths, A.D.3
-
16
-
-
79951672289
-
Evolution of steroid receptors from an estrogen-sensitive ancestral receptor
-
G.N. Eick, and J.W. Thornton Evolution of steroid receptors from an estrogen-sensitive ancestral receptor Mol. Cell. Endocrinol. 334 2011 31 38
-
(2011)
Mol. Cell. Endocrinol.
, vol.334
, pp. 31-38
-
-
Eick, G.N.1
Thornton, J.W.2
-
17
-
-
84870687980
-
Evolution of minimal specificity and promiscuity in steroid hormone receptors
-
G.N. Eick, J.K. Colucci, M.J. Harms, E.A. Ortlund, and J.W. Thornton Evolution of minimal specificity and promiscuity in steroid hormone receptors PLoS Genet. 8 2012 e1003072
-
(2012)
PLoS Genet.
, vol.8
, pp. 1003072
-
-
Eick, G.N.1
Colucci, J.K.2
Harms, M.J.3
Ortlund, E.A.4
Thornton, J.W.5
-
18
-
-
0035930331
-
Recognition of specific DNA sequences
-
C.W. Garvie, and C. Wolberger Recognition of specific DNA sequences Mol. Cell 8 2001 937 946
-
(2001)
Mol. Cell
, vol.8
, pp. 937-946
-
-
Garvie, C.W.1
Wolberger, C.2
-
19
-
-
84879064073
-
Stability-mediated epistasis constrains the evolution of an influenza protein
-
L.I. Gong, M.A. Suchard, and J.D. Bloom Stability-mediated epistasis constrains the evolution of an influenza protein Elife 2 2013 e00631
-
(2013)
Elife
, vol.2
, pp. 00631
-
-
Gong, L.I.1
Suchard, M.A.2
Bloom, J.D.3
-
20
-
-
0025321937
-
Cooperativity and specificity in the interactions between DNA and the glucocorticoid receptor DNA-binding domain
-
T. Härd, K. Dahlman, J. Carlstedt-Duke, J.A. Gustafsson, and R. Rigler Cooperativity and specificity in the interactions between DNA and the glucocorticoid receptor DNA-binding domain Biochemistry 29 1990 5358 5364
-
(1990)
Biochemistry
, vol.29
, pp. 5358-5364
-
-
Härd, T.1
Dahlman, K.2
Carlstedt-Duke, J.3
Gustafsson, J.A.4
Rigler, R.5
-
21
-
-
77955584075
-
Analyzing protein structure and function using ancestral gene reconstruction
-
M.J. Harms, and J.W. Thornton Analyzing protein structure and function using ancestral gene reconstruction Curr. Opin. Struct. Biol. 20 2010 360 366
-
(2010)
Curr. Opin. Struct. Biol.
, vol.20
, pp. 360-366
-
-
Harms, M.J.1
Thornton, J.W.2
-
22
-
-
84880862788
-
Evolutionary biochemistry: Revealing the historical and physical causes of protein properties
-
M.J. Harms, and J.W. Thornton Evolutionary biochemistry: revealing the historical and physical causes of protein properties Nat. Rev. Genet. 14 2013 559 571
-
(2013)
Nat. Rev. Genet.
, vol.14
, pp. 559-571
-
-
Harms, M.J.1
Thornton, J.W.2
-
23
-
-
84879943516
-
Biophysical mechanisms for large-effect mutations in the evolution of steroid hormone receptors
-
M.J. Harms, G.N. Eick, D. Goswami, J.K. Colucci, P.R. Griffin, E.A. Ortlund, and J.W. Thornton Biophysical mechanisms for large-effect mutations in the evolution of steroid hormone receptors Proc. Natl. Acad. Sci. USA 110 2013 11475 11480
-
(2013)
Proc. Natl. Acad. Sci. USA
, vol.110
, pp. 11475-11480
-
-
Harms, M.J.1
Eick, G.N.2
Goswami, D.3
Colucci, J.K.4
Griffin, P.R.5
Ortlund, E.A.6
Thornton, J.W.7
-
24
-
-
82655181898
-
Structural basis for nuclear hormone receptor DNA binding
-
C. Helsen, S. Kerkhofs, L. Clinckemalie, L. Spans, M. Laurent, S. Boonen, D. Vanderschueren, and F. Claessens Structural basis for nuclear hormone receptor DNA binding Mol. Cell. Endocrinol. 348 2012 411 417
-
(2012)
Mol. Cell. Endocrinol.
, vol.348
, pp. 411-417
-
-
Helsen, C.1
Kerkhofs, S.2
Clinckemalie, L.3
Spans, L.4
Laurent, M.5
Boonen, S.6
Vanderschueren, D.7
Claessens, F.8
-
25
-
-
0023808861
-
The estrogen receptor binds tightly to its responsive element as a ligand-induced homodimer
-
V. Kumar, and P. Chambon The estrogen receptor binds tightly to its responsive element as a ligand-induced homodimer Cell 55 1988 145 156
-
(1988)
Cell
, vol.55
, pp. 145-156
-
-
Kumar, V.1
Chambon, P.2
-
26
-
-
77956530755
-
Evolution of transcription networks - Lessons from yeasts
-
H. Li, and A.D. Johnson Evolution of transcription networks - lessons from yeasts Curr. Biol. 20 2010 R746 R753
-
(2010)
Curr. Biol.
, vol.20
, pp. 746-R753
-
-
Li, H.1
Johnson, A.D.2
-
27
-
-
0025780755
-
Crystallographic analysis of the interaction of the glucocorticoid receptor with DNA
-
B.F. Luisi, W.X. Xu, Z. Otwinowski, L.P. Freedman, K.R. Yamamoto, and P.B. Sigler Crystallographic analysis of the interaction of the glucocorticoid receptor with DNA Nature 352 1991 497 505
-
(1991)
Nature
, vol.352
, pp. 497-505
-
-
Luisi, B.F.1
Xu, W.X.2
Otwinowski, Z.3
Freedman, L.P.4
Yamamoto, K.R.5
Sigler, P.B.6
-
28
-
-
0027241925
-
Thermodynamics of the glucocorticoid receptor-DNA interaction: Binding of wild-type GR DBD to different response elements
-
T. Lundbäck, C. Cairns, J.A. Gustafsson, J. Carlstedt-Duke, and T. Härd Thermodynamics of the glucocorticoid receptor-DNA interaction: binding of wild-type GR DBD to different response elements Biochemistry 32 1993 5074 5082
-
(1993)
Biochemistry
, vol.32
, pp. 5074-5082
-
-
Lundbäck, T.1
Cairns, C.2
Gustafsson, J.A.3
Carlstedt-Duke, J.4
Härd, T.5
-
29
-
-
83555162573
-
Regulatory evolution through divergence of a phosphoswitch in the transcription factor CEBPB
-
V.J. Lynch, G. May, and G.P. Wagner Regulatory evolution through divergence of a phosphoswitch in the transcription factor CEBPB Nature 480 2011 383 386
-
(2011)
Nature
, vol.480
, pp. 383-386
-
-
Lynch, V.J.1
May, G.2
Wagner, G.P.3
-
30
-
-
65249167505
-
DNA binding site sequence directs glucocorticoid receptor structure and activity
-
S.H. Meijsing, M.A. Pufall, A.Y. So, D.L. Bates, L. Chen, and K.R. Yamamoto DNA binding site sequence directs glucocorticoid receptor structure and activity Science 324 2009 407 410
-
(2009)
Science
, vol.324
, pp. 407-410
-
-
Meijsing, S.H.1
Pufall, M.A.2
So, A.Y.3
Bates, D.L.4
Chen, L.5
Yamamoto, K.R.6
-
31
-
-
84871226912
-
Evolutionary transitions to new DNA methyltransferases through target site expansion and shrinkage
-
L. Rockah-Shmuel, and D.S. Tawfik Evolutionary transitions to new DNA methyltransferases through target site expansion and shrinkage Nucleic Acids Res. 40 2012 11627 11637
-
(2012)
Nucleic Acids Res.
, vol.40
, pp. 11627-11637
-
-
Rockah-Shmuel, L.1
Tawfik, D.S.2
-
32
-
-
33751551165
-
Structure of the progesterone receptor-deoxyribonucleic acid complex: Novel interactions required for binding to half-site response elements
-
S.C. Roemer, D.C. Donham, L. Sherman, V.H. Pon, D.P. Edwards, and M.E. Churchill Structure of the progesterone receptor-deoxyribonucleic acid complex: novel interactions required for binding to half-site response elements Mol. Endocrinol. 20 2006 3042 3052
-
(2006)
Mol. Endocrinol.
, vol.20
, pp. 3042-3052
-
-
Roemer, S.C.1
Donham, D.C.2
Sherman, L.3
Pon, V.H.4
Edwards, D.P.5
Churchill, M.E.6
-
33
-
-
77950519937
-
Origins of specificity in protein-DNA recognition
-
R. Rohs, X. Jin, S.M. West, R. Joshi, B. Honig, and R.S. Mann Origins of specificity in protein-DNA recognition Annu. Rev. Biochem. 79 2010 233 269
-
(2010)
Annu. Rev. Biochem.
, vol.79
, pp. 233-269
-
-
Rohs, R.1
Jin, X.2
West, S.M.3
Joshi, R.4
Honig, B.5
Mann, R.S.6
-
34
-
-
84893809985
-
A promiscuous intermediate underlies the evolution of LEAFY DNA binding specificity
-
C. Sayou, M. Monniaux, M.H. Nanao, E. Moyroud, S.F. Brockington, E. Thévenon, H. Chahtane, N. Warthmann, M. Melkonian, and Y. Zhang A promiscuous intermediate underlies the evolution of LEAFY DNA binding specificity Science 343 2014 645 648
-
(2014)
Science
, vol.343
, pp. 645-648
-
-
Sayou, C.1
Monniaux, M.2
Nanao, M.H.3
Moyroud, E.4
Brockington, S.F.5
Thévenon, E.6
Chahtane, H.7
Warthmann, N.8
Melkonian, M.9
Zhang, Y.10
-
35
-
-
0025745371
-
Beyond zinc fingers: Steroid hormone receptors have a novel structural motif for DNA recognition
-
J.W. Schwabe, and D. Rhodes Beyond zinc fingers: steroid hormone receptors have a novel structural motif for DNA recognition Trends Biochem. Sci. 16 1991 291 296
-
(1991)
Trends Biochem. Sci.
, vol.16
, pp. 291-296
-
-
Schwabe, J.W.1
Rhodes, D.2
-
36
-
-
0027365669
-
The crystal structure of the estrogen receptor DNA-binding domain bound to DNA: How receptors discriminate between their response elements
-
J.W. Schwabe, L. Chapman, J.T. Finch, and D. Rhodes The crystal structure of the estrogen receptor DNA-binding domain bound to DNA: how receptors discriminate between their response elements Cell 75 1993 567 578
-
(1993)
Cell
, vol.75
, pp. 567-578
-
-
Schwabe, J.W.1
Chapman, L.2
Finch, J.T.3
Rhodes, D.4
-
37
-
-
0014935646
-
Natural selection and the concept of a protein space
-
J.M. Smith Natural selection and the concept of a protein space Nature 225 1970 563 564
-
(1970)
Nature
, vol.225
, pp. 563-564
-
-
Smith, J.M.1
-
38
-
-
34347324118
-
Determinants of cell- and gene-specific transcriptional regulation by the glucocorticoid receptor
-
A.Y. So, C. Chaivorapol, E.C. Bolton, H. Li, and K.R. Yamamoto Determinants of cell- and gene-specific transcriptional regulation by the glucocorticoid receptor PLoS Genet. 3 2007 e94
-
(2007)
PLoS Genet.
, vol.3
, pp. 94
-
-
So, A.Y.1
Chaivorapol, C.2
Bolton, E.C.3
Li, H.4
Yamamoto, K.R.5
-
39
-
-
59849107271
-
Is genetic evolution predictable?
-
D.L. Stern, and V. Orgogozo Is genetic evolution predictable? Science 323 2009 746 751
-
(2009)
Science
, vol.323
, pp. 746-751
-
-
Stern, D.L.1
Orgogozo, V.2
-
40
-
-
2442537233
-
Gene regulatory network growth by duplication
-
S.A. Teichmann, and M.M. Babu Gene regulatory network growth by duplication Nat. Genet. 36 2004 492 496
-
(2004)
Nat. Genet.
, vol.36
, pp. 492-496
-
-
Teichmann, S.A.1
Babu, M.M.2
-
41
-
-
1942531303
-
Resurrecting ancient genes: Experimental analysis of extinct molecules
-
J.W. Thornton Resurrecting ancient genes: experimental analysis of extinct molecules Nat. Rev. Genet. 5 2004 366 375
-
(2004)
Nat. Rev. Genet.
, vol.5
, pp. 366-375
-
-
Thornton, J.W.1
-
42
-
-
41349098338
-
Evolution of eukaryotic transcription circuits
-
B.B. Tuch, H. Li, and A.D. Johnson Evolution of eukaryotic transcription circuits Science 319 2008 1797 1799
-
(2008)
Science
, vol.319
, pp. 1797-1799
-
-
Tuch, B.B.1
Li, H.2
Johnson, A.D.3
-
43
-
-
0024337858
-
Determinants of target gene specificity for steroid/thyroid hormone receptors
-
K. Umesono, and R.M. Evans Determinants of target gene specificity for steroid/thyroid hormone receptors Cell 57 1989 1139 1146
-
(1989)
Cell
, vol.57
, pp. 1139-1146
-
-
Umesono, K.1
Evans, R.M.2
-
45
-
-
56549087988
-
Neutralism and selectionism: A network-based reconciliation
-
A. Wagner Neutralism and selectionism: a network-based reconciliation Nat. Rev. Genet. 9 2008 965 974
-
(2008)
Nat. Rev. Genet.
, vol.9
, pp. 965-974
-
-
Wagner, A.1
-
46
-
-
84880174882
-
The glucocorticoid receptor dimer interface allosterically transmits sequence-specific DNA signals
-
L.C. Watson, K.M. Kuchenbecker, B.J. Schiller, J.D. Gross, M.A. Pufall, and K.R. Yamamoto The glucocorticoid receptor dimer interface allosterically transmits sequence-specific DNA signals Nat. Struct. Mol. Biol. 20 2013 876 883
-
(2013)
Nat. Struct. Mol. Biol.
, vol.20
, pp. 876-883
-
-
Watson, L.C.1
Kuchenbecker, K.M.2
Schiller, B.J.3
Gross, J.D.4
Pufall, M.A.5
Yamamoto, K.R.6
-
47
-
-
72549085551
-
Genomic actions of estrogen receptor alpha: What are the targets and how are they regulated?
-
W.J. Welboren, F.C. Sweep, P.N. Span, and H.G. Stunnenberg Genomic actions of estrogen receptor alpha: what are the targets and how are they regulated? Endocr. Relat. Cancer 16 2009 1073 1089
-
(2009)
Endocr. Relat. Cancer
, vol.16
, pp. 1073-1089
-
-
Welboren, W.J.1
Sweep, F.C.2
Span, P.N.3
Stunnenberg, H.G.4
-
48
-
-
0033019594
-
Conformational dynamics and molecular recognition: Backbone dynamics of the estrogen receptor DNA-binding domain
-
A. Wikström, H. Berglund, C. Hambraeus, S. van den Berg, and T. Härd Conformational dynamics and molecular recognition: backbone dynamics of the estrogen receptor DNA-binding domain J. Mol. Biol. 289 1999 963 979
-
(1999)
J. Mol. Biol.
, vol.289
, pp. 963-979
-
-
Wikström, A.1
Berglund, H.2
Hambraeus, C.3
Van Den Berg, S.4
Härd, T.5
-
49
-
-
33847057226
-
The evolutionary significance of cis-regulatory mutations
-
G.A. Wray The evolutionary significance of cis-regulatory mutations Nat. Rev. Genet. 8 2007 206 216
-
(2007)
Nat. Rev. Genet.
, vol.8
, pp. 206-216
-
-
Wray, G.A.1
-
50
-
-
0025728401
-
DNA binding specificity of mutant glucocorticoid receptor DNA-binding domains
-
J. Zilliacus, K. Dahlman-Wright, A. Wright, J.A. Gustafsson, and J. Carlstedt-Duke DNA binding specificity of mutant glucocorticoid receptor DNA-binding domains J. Biol. Chem. 266 1991 3101 3106
-
(1991)
J. Biol. Chem.
, vol.266
, pp. 3101-3106
-
-
Zilliacus, J.1
Dahlman-Wright, K.2
Wright, A.3
Gustafsson, J.A.4
Carlstedt-Duke, J.5
-
51
-
-
0026498394
-
Determinants for DNA-binding site recognition by the glucocorticoid receptor
-
J. Zilliacus, A.P. Wright, U. Norinder, J.A. Gustafsson, and J. Carlstedt-Duke Determinants for DNA-binding site recognition by the glucocorticoid receptor J. Biol. Chem. 267 1992 24941 24947
-
(1992)
J. Biol. Chem.
, vol.267
, pp. 24941-24947
-
-
Zilliacus, J.1
Wright, A.P.2
Norinder, U.3
Gustafsson, J.A.4
Carlstedt-Duke, J.5
-
52
-
-
76449098262
-
PHENIX: A comprehensive Python-based system for macromolecular structure solution
-
P.D. Adams, P.V. Afonine, G. Bunkoczi, V.B. Chen, I.W. Davis, N. Echols, J.J. Headd, L.W. Hung, G.J. Kapral, R.W. Grosse-Kunstleve, A.J. McCoy, N.W. Moriarty, R. Oeffner, R.J. Read, D.C. Richardson, J.S. Richardson, T.C. Terwilliger, and P.H. Zwart PHENIX: a comprehensive Python-based system for macromolecular structure solution Acta Crystallogr. D. Biol. Crystallogr. 66 2010 213 221
-
(2010)
Acta Crystallogr. D. Biol. Crystallogr.
, vol.66
, pp. 213-221
-
-
Adams, P.D.1
Afonine, P.V.2
Bunkoczi, G.3
Chen, V.B.4
Davis, I.W.5
Echols, N.6
Headd, J.J.7
Hung, L.W.8
Kapral, G.J.9
Grosse-Kunstleve, R.W.10
McCoy, A.J.11
Moriarty, N.W.12
Oeffner, R.13
Read, R.J.14
Richardson, D.C.15
Richardson, J.S.16
Terwilliger, T.C.17
Zwart, P.H.18
-
53
-
-
33745256005
-
Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative
-
M. Anisimova, and O. Gascuel Approximate likelihood-ratio test for branches: A fast, accurate, and powerful alternative Syst. Biol. 55 2006 539 552
-
(2006)
Syst. Biol.
, vol.55
, pp. 539-552
-
-
Anisimova, M.1
Gascuel, O.2
-
54
-
-
0022825987
-
Calculation of the partial specific volumes of proteins in concentrated salt, sugar, and amino acid solutions
-
T. Arakawa Calculation of the partial specific volumes of proteins in concentrated salt, sugar, and amino acid solutions J. Biochem. 100 1986 1471 1475
-
(1986)
J. Biochem.
, vol.100
, pp. 1471-1475
-
-
Arakawa, T.1
-
55
-
-
33846823909
-
Particle mesh Ewald: An N· log (N) method for Ewald sums in large systems
-
T. Darden, D. York, and L. Pedersen Particle mesh Ewald: An N· log (N) method for Ewald sums in large systems J. Chem. Phys. 98 1993 10089 10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
56
-
-
0242663237
-
A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations
-
Y. Duan, C. Wu, S. Chowdhury, M.C. Lee, G. Xiong, W. Zhang, R. Yang, P. Cieplak, R. Luo, and T. Lee A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations J. Comput. Chem. 24 2003 1999 2012
-
(2003)
J. Comput. Chem.
, vol.24
, pp. 1999-2012
-
-
Duan, Y.1
Wu, C.2
Chowdhury, S.3
Lee, M.C.4
Xiong, G.5
Zhang, W.6
Yang, R.7
Cieplak, P.8
Luo, R.9
Lee, T.10
-
57
-
-
77954566051
-
The R.E.D. Tools: Advances in RESP and ESP charge derivation and force field library building
-
F.Y. Dupradeau, A. Pigache, T. Zaffran, C. Savineau, R. Lelong, N. Grivel, D. Lelong, W. Rosanski, and P. Cieplak The R.E.D. tools: advances in RESP and ESP charge derivation and force field library building Phys. Chem. Chem. Phys. 12 2010 7821 7839
-
(2010)
Phys. Chem. Chem. Phys.
, vol.12
, pp. 7821-7839
-
-
Dupradeau, F.Y.1
Pigache, A.2
Zaffran, T.3
Savineau, C.4
Lelong, R.5
Grivel, N.6
Lelong, D.7
Rosanski, W.8
Cieplak, P.9
-
58
-
-
3042666256
-
MUSCLE: Multiple sequence alignment with high accuracy and high throughput
-
R.C. Edgar MUSCLE: multiple sequence alignment with high accuracy and high throughput Nucleic Acids Res. 32 2004 1792 1797
-
(2004)
Nucleic Acids Res.
, vol.32
, pp. 1792-1797
-
-
Edgar, R.C.1
-
61
-
-
77950806408
-
New algorithms and methods to estimate maximum-likelihood phylogenies: Assessing the performance of PhyML 3.0
-
S. Guindon, J.F. Dufayard, V. Lefort, M. Anisimova, W. Hordijk, and O. Gascuel New algorithms and methods to estimate maximum-likelihood phylogenies: assessing the performance of PhyML 3.0 Syst. Biol. 59 2010 307 321
-
(2010)
Syst. Biol.
, vol.59
, pp. 307-321
-
-
Guindon, S.1
Dufayard, J.F.2
Lefort, V.3
Anisimova, M.4
Hordijk, W.5
Gascuel, O.6
-
62
-
-
77955975654
-
Robustness of ancestral sequence reconstruction to phylogenetic uncertainty
-
V. Hanson-Smith, B. Kolaczkowski, and J.W. Thornton Robustness of ancestral sequence reconstruction to phylogenetic uncertainty Mol. Biol. Evol. 27 2010 1988 1999
-
(2010)
Mol. Biol. Evol.
, vol.27
, pp. 1988-1999
-
-
Hanson-Smith, V.1
Kolaczkowski, B.2
Thornton, J.W.3
-
66
-
-
79960050537
-
ATRX ADD domain links an atypical histone methylation recognition mechanism to human mental-retardation syndrome
-
S. Iwase, B. Xiang, S. Ghosh, T. Ren, P.W. Lewis, J.C. Cochrane, C.D. Allis, D.J. Picketts, D.J. Patel, H. Li, and Y. Shi ATRX ADD domain links an atypical histone methylation recognition mechanism to human mental-retardation syndrome Nat. Struct. Mol. Biol. 18 2011 769 776
-
(2011)
Nat. Struct. Mol. Biol.
, vol.18
, pp. 769-776
-
-
Iwase, S.1
Xiang, B.2
Ghosh, S.3
Ren, T.4
Lewis, P.W.5
Cochrane, J.C.6
Allis, C.D.7
Picketts, D.J.8
Patel, D.J.9
Li, H.10
Shi, Y.11
-
67
-
-
0000243829
-
PROCHECK: A program to check the stereochemical quality of protein structures
-
R.A. Laskowski, M.W. MacArthur, D.S. Moss, and J.M. Thornton PROCHECK: a program to check the stereochemical quality of protein structures J. Appl. Cryst. 26 1993 283 291
-
(1993)
J. Appl. Cryst.
, vol.26
, pp. 283-291
-
-
Laskowski, R.A.1
Macarthur, M.W.2
Moss, D.S.3
Thornton, J.M.4
-
68
-
-
77953305723
-
Systematic derivation of AMBER force field parameters applicable to zinc-containing systems
-
F. Lin, and R. Wang Systematic derivation of AMBER force field parameters applicable to zinc-containing systems J. Chem. Theory Comput. 6 2010 1852 1870
-
(2010)
J. Chem. Theory Comput.
, vol.6
, pp. 1852-1870
-
-
Lin, F.1
Wang, R.2
-
69
-
-
0031059866
-
Processing of X-ray diffraction data collected in oscillation mode
-
Z. Otwinowski, and W. Minor Processing of X-ray diffraction data collected in oscillation mode Methods Enzymol. 276 1997 307 326
-
(1997)
Methods Enzymol.
, vol.276
, pp. 307-326
-
-
Otwinowski, Z.1
Minor, W.2
-
70
-
-
0002343673
-
Measuring the conformational stability of a protein
-
T.E. Creighton, Oxford University Press New York
-
C.N. Pace, and J.M. Scholtz Measuring the conformational stability of a protein T.E. Creighton, Protein Structure: A Practical Approach 1997 Oxford University Press New York 299 321
-
(1997)
Protein Structure: A Practical Approach
, pp. 299-321
-
-
Pace, C.N.1
Scholtz, J.M.2
-
71
-
-
0031214792
-
High-level expression of soluble protein in Escherichia coli using a His6-tag and maltose-binding-protein double-affinity fusion system
-
K.D. Pryor, and B. Leiting High-level expression of soluble protein in Escherichia coli using a His6-tag and maltose-binding-protein double-affinity fusion system Protein Expr. Purif. 10 1997 309 319
-
(1997)
Protein Expr. Purif.
, vol.10
, pp. 309-319
-
-
Pryor, K.D.1
Leiting, B.2
-
72
-
-
84893169025
-
General atomic and molecular electronic structure system
-
M.W. Schmidt, K.K. Baldridge, J.A. Boatz, S.T. Elbert, M.S. Gordon, J.H. Jensen, and S. Koseki General atomic and molecular electronic structure system J. Comput. Chem. 14 1993 1347 1363
-
(1993)
J. Comput. Chem.
, vol.14
, pp. 1347-1363
-
-
Schmidt, M.W.1
Baldridge, K.K.2
Boatz, J.A.3
Elbert, S.T.4
Gordon, M.S.5
Jensen, J.H.6
Koseki, S.7
-
73
-
-
34250855167
-
Basis set exchange: A community database for computational sciences
-
K.L. Schuchardt, B.T. Didier, T. Elsethagen, L. Sun, V. Gurumoorthi, J. Chase, J. Li, and T.L. Windus Basis set exchange: a community database for computational sciences J. Chem. Inf. Model. 47 2007 1045 1052
-
(2007)
J. Chem. Inf. Model.
, vol.47
, pp. 1045-1052
-
-
Schuchardt, K.L.1
Didier, B.T.2
Elsethagen, T.3
Sun, L.4
Gurumoorthi, V.5
Chase, J.6
Li, J.7
Windus, T.L.8
-
74
-
-
0034713757
-
Comparison of transcriptional synergy of estrogen receptors alpha and beta from multiple tandem estrogen response elements
-
V.V. Tyulmenkov, S.C. Jernigan, and C.M. Klinge Comparison of transcriptional synergy of estrogen receptors alpha and beta from multiple tandem estrogen response elements Mol. Cell. Endocrinol. 165 2000 151 161
-
(2000)
Mol. Cell. Endocrinol.
, vol.165
, pp. 151-161
-
-
Tyulmenkov, V.V.1
Jernigan, S.C.2
Klinge, C.M.3
-
75
-
-
0028820333
-
A new method of inference of ancestral nucleotide and amino acid sequences
-
Z. Yang, S. Kumar, and M. Nei A new method of inference of ancestral nucleotide and amino acid sequences Genetics 141 1995 1641 1650
-
(1995)
Genetics
, vol.141
, pp. 1641-1650
-
-
Yang, Z.1
Kumar, S.2
Nei, M.3
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