SCOPUS 정보 검색 플랫폼

Journal of Chemical Physics

Volumn 135, Issue 6, 2011, Pages

Sequence correlations shape protein promiscuity

(3) Lukatsky, David B a Afek, Ariel a Shakhnovich, Eugene I b

a BEN GURION UNIVERSITY OF THE NEGEV (Israel)

b HARVARD UNIVERSITY (United States)

Author keywords

[No Author keywords available]

Indexed keywords

AMINO ACIDS;

AMINO ACID COMPOSITIONS; ANALYTICAL RESULTS; MICROSCOPIC INTERACTION; NON-SPECIFIC BINDING; PROTEIN SEQUENCES; SEQUENCE CORRELATION; SEQUENCE PATTERNS;

PROTEINS;

PROTEIN; PROTEOME;

AMINO ACID SEQUENCE; ARTICLE; CHEMISTRY; EUKARYOTE; PROTEIN BINDING;

AMINO ACID SEQUENCE; EUKARYOTA; PROTEIN BINDING; PROTEINS; PROTEOME;

EID: 80051909756 PISSN: 00219606 EISSN: None Source Type: Journal
DOI: 10.1063/1.3624332 Document Type: Article

Times cited : (10)

References (34)

1
- 77953623874
- 10.1146/annurev-biochem-030409-143718
- O. Khersonsky and D. S. Tawfik, Annu. Rev. Biochem. 79, 471 (2010). 10.1146/annurev-biochem-030409-143718
- (2010) Annu. Rev. Biochem. , vol.79 , pp. 471
- Khersonsky, O.¹ Tawfik, D.S.²

2
- 59849106371
- 10.1038/nbt1519
- I. Nobeli, A. D. Favia, and J. M. Thornton, Nat. Biotechnol. 27, 157 (2009). 10.1038/nbt1519
- (2009) Nat. Biotechnol. , vol.27 , pp. 157
- Nobeli, I.¹ Favia, A.D.² Thornton, J.M.³

3
- 49449110197
- 10.1038/msb.2008.48
- J. Zhang, S. Maslov, and E. I. Shakhnovich, Mol. Syst. Biol. 4, 210 (2008). 10.1038/msb.2008.48
- (2008) Mol. Syst. Biol. , vol.4 , pp. 210
- Zhang, J.¹ Maslov, S.² Shakhnovich, E.I.³

4
- 33750238153
- Stratus not altocumulus: A new view of the yeast protein interaction network
- DOI 10.1371/journal.pbio.0040317
- N. N. Batada, T. Reguly, A. Breitkreutz, L. Boucher, B. J. Breitkreutz, L. D. Hurst, and M. Tyers, PLoS Biol. 4, e317 (2006). 10.1371/journal.pbio. 0040317 (Pubitemid 44610092)
- (2006) PLoS Biology , vol.4 , Issue.10 , pp. 1720-1731
- Batada, N.N.¹ Reguly, T.² Breitkreutz, A.³ Boucher, L.⁴ Breitkreutz, B.-J.⁵ Hurst, L.D.⁶ Tyers, M.⁷

5
- 13444283630
- Interaction network containing conserved and essential protein complexes in Escherichia coli
- DOI 10.1038/nature03239
- G. Butland, J. M. Peregrin-Alvarez, J. Li, W. Yang, X. Yang, V. Canadien, A. Starostine, D. Richards, B. Beattie, N. Krogan, M. Davey, J. Parkinson, J. Greenblatt, and A. Emili, Nature (London) 433, 531 (2005). 10.1038/nature03239 (Pubitemid 40204311)
- (2005) Nature , vol.433 , Issue.7025 , pp. 531-537
- Butland, G.¹ Peregrin-Alvarez, J.M.² Li, J.³ Yang, W.⁴ Yang, X.⁵ Canadien, V.⁶ Starostine, A.⁷ Richards, D.⁸ Beattie, B.⁹ Krogan, N.¹⁰ Davey, M.¹¹ Parkinson, J.¹² Greenblatt, J.¹³ Emili, A.¹⁴

6
- 66049143558
- 10.1371/journal.pbio.1000096
- P. Hu, S. C. Janga, M. Babu, J. J. Diaz-Mejia, G. Butland, W. Yang, O. Pogoutse, X. Guo, S. Phanse, P. Wong, S. Chandran, C. Christopoulos, A. Nazarians-Armavil, N. K. Nasseri, G. Musso, M. Ali, N. Nazemof, V. Eroukova, A. Golshani, A. Paccanaro, J. F. Greenblatt, G. Moreno-Hagelsieb, and A. Emili, PLoS Biol. 7, e96 (2009). 10.1371/journal.pbio.1000096
- (2009) PLoS Biol. , vol.7 , pp. 96
- Hu, P.¹ Janga, S.C.² Babu, M.³ Diaz-Mejia, J.J.⁴ Butland, G.⁵ Yang, W.⁶ Pogoutse, O.⁷ Guo, X.⁸ Phanse, S.⁹ Wong, P.¹⁰ Chandran, S.¹¹ Christopoulos, C.¹² Nazarians-Armavil, A.¹³ Nasseri, N.K.¹⁴ Musso, G.¹⁵ Ali, M.¹⁶ Nazemof, N.¹⁷ Eroukova, V.¹⁸ Golshani, A.¹⁹ Paccanaro, A.²⁰ more..

7
- 27144530248
- Towards a proteome-scale map of the human protein-protein interaction network
- DOI 10.1038/nature04209, PII N04209
- J. F. Rual, K. Venkatesan, T. Hao, T. Hirozane-Kishikawa, A. Dricot, N. Li, G. F. Berriz, F. D. Gibbons, M. Dreze, N. Ayivi-Guedehoussou, N. Klitgord, C. Simon, M. Boxem, S. Milstein, J. Rosenberg, D. S. Goldberg, L. V. Zhang, S. L. Wong, G. Franklin, S. Li, J. S. Albala, J. Lim, C. Fraughton, E. Llamosas, S. Cevik, C. Bex, P. Lamesch, R. S. Sikorski, J. Vandenhaute, H. Y. Zoghbi, A. Smolyar, S. Bosak, R. Sequerra, L. Doucette-Stamm, M. E. Cusick, D. E. Hill, F. P. Roth, and M. Vidal, Nature (London) 437, 1173 (2005). 10.1038/nature04209 (Pubitemid 41509356)
- (2005) Nature , vol.437 , Issue.7062 , pp. 1173-1178
- Rual, J.-F.¹ Venkatesan, K.² Hao, T.³ Hirozane-Kishikawa, T.⁴ Dricot, A.⁵ Li, N.⁶ Berriz, G.F.⁷ Gibbons, F.D.⁸ Dreze, M.⁹ Ayivi-Guedehoussou, N.¹⁰ Klitgord, N.¹¹ Simon, C.¹² Boxem, M.¹³ Milstein, S.¹⁴ Rosenberg, J.¹⁵ Goldberg, D.S.¹⁶ Zhang, L.V.¹⁷ Wong, S.L.¹⁸ Franklin, G.¹⁹ Li, S.²⁰ more..

8
- 25144498379
- A human protein-protein interaction network: A resource for annotating the proteome
- DOI 10.1016/j.cell.2005.08.029, PII S0092867405008664
- U. Stelzl, U. Worm, M. Lalowski, C. Haenig, F. H. Brembeck, H. Goehler, M. Stroedicke, M. Zenkner, A. Schoenherr, S. Koeppen, J. Timm, S. Mintzlaff, C. Abraham, N. Bock, S. Kietzmann, A. Goedde, E. Toksoz, A. Droege, S. Krobitsch, B. Korn, W. Birchmeier, H. Lehrach, and E. E. Wanker, Cell 122, 957 (2005). 10.1016/j.cell.2005.08.029 (Pubitemid 41345212)
- (2005) Cell , vol.122 , Issue.6 , pp. 957-968
- Stelzl, U.¹ Worm, U.² Lalowski, M.³ Haenig, C.⁴ Brembeck, F.H.⁵ Goehler, H.⁶ Stroedicke, M.⁷ Zenkner, M.⁸ Schoenherr, A.⁹ Koeppen, S.¹⁰ Timm, J.¹¹ Mintzlaff, S.¹² Abraham, C.¹³ Bock, N.¹⁴ Kietzmann, S.¹⁵ Goedde, A.¹⁶ Toksoz, E.¹⁷ Droege, A.¹⁸ Krobitsch, S.¹⁹ Korn, B.²⁰ more..

9
- 35448996158
- Robust protein-protein interactions in crowded cellular environments
- DOI 10.1073/pnas.0702766104
- E. J. Deeds, O. Ashenberg, J. Gerardin, and E. I. Shakhnovich, Proc. Natl. Acad. Sci. U.S.A. 104, 14952 (2007). 10.1073/pnas.0702766104 (Pubitemid 47628407)
- (2007) Proceedings of the National Academy of Sciences of the United States of America , vol.104 , Issue.38 , pp. 14952-14957
- Deeds, E.J.¹ Ashenberg, O.² Gerardin, J.³ Shakhnovich, E.I.⁴

10
- 79952744659
- 10.1073/pnas.1009392108
- M. Heo, S. Maslov, and E. I. Shakhnovich, Proc. Natl. Acad. Sci. U.S.A. 108, 4258 (2011). 10.1073/pnas.1009392108
- (2011) Proc. Natl. Acad. Sci. U.S.A. , vol.108 , pp. 4258
- Heo, M.¹ Maslov, S.² Shakhnovich, E.I.³

11
- 0035836765
- A comprehensive two-hybrid analysis to explore the yeast protein interactome
- DOI 10.1073/pnas.061034498
- T. Ito, T. Chiba, R. Ozawa, M. Yoshida, M. Hattori, and Y. Sakaki, Proc. Natl. Acad. Sci. U.S.A. 98, 4569 (2001). 10.1073/pnas.061034498 (Pubitemid 32295017)
- (2001) Proceedings of the National Academy of Sciences of the United States of America , vol.98 , Issue.8 , pp. 4569-4574
- Ito, T.¹ Chiba, T.² Ozawa, R.³ Yoshida, M.⁴ Hattori, M.⁵ Sakaki, Y.⁶

12
- 0034628508
- A comprehensive analysis of protein-protein interactions in Saccharomyces cerevisiae
- DOI 10.1038/35001009
- P. Uetz, L. Giot, G. Cagney, T. A. Mansfield, R. S. Judson, J. R. Knight, D. Lockshon, V. Narayan, M. Srinivasan, P. Pochart, A. Qureshi-Emili, Y. Li, B. Godwin, D. Conover, T. Kalbfleisch, G. Vijayadamodar, M. Yang, M. Johnston, S. Fields, and J. M. Rothberg, Nature (London) 403, 623 (2000). 10.1038/35001009 (Pubitemid 30103994)
- (2000) Nature , vol.403 , Issue.6770 , pp. 623-627
- Uetz, P.¹ Glot, L.² Cagney, G.³ Mansfield, T.A.⁴ Judson, R.S.⁵ Knight, J.R.⁶ Lockshon, D.⁷ Narayan, V.⁸ Srinivasan, M.⁹ Pochart, P.¹⁰ Qureshi-Emlli, A.¹¹ Li, Y.¹² Godwin, B.¹³ Conover, D.¹⁴ Kalbfleisch, T.¹⁵ Vijayadamodar, G.¹⁶ Yang, M.¹⁷ Johnston, M.¹⁸ Fields, S.¹⁹ Rothberg, J.M.²⁰ more..

13
- 33644555054
- 10.1038/nature04532
- A. C. Gavin, P. Aloy, P. Grandi, R. Krause, M. Boesche, M. Marzioch, C. Rau, L. J. Jensen, S. Bastuck, B. Dumpelfeld, A. Edelmann, M. A. Heurtier, V. Hoffman, C. Hoefert, K. Klein, M. Hudak, A. M. Michon, M. Schelder, M. Schirle, M. Remor, T. Rudi, S. Hooper, A. Bauer, T. Bouwmeester, G. Casari, G. Drewes, G. Neubauer, J. M. Rick, B. Kuster, P. Bork, R. B. Russell, and G. Superti-Furga, Nature (London) 440, 631 (2006). 10.1038/nature04532
- (2006) Nature (London) , vol.440 , pp. 631
- Gavin, A.C.¹ Aloy, P.² Grandi, P.³ Krause, R.⁴ Boesche, M.⁵ Marzioch, M.⁶ Rau, C.⁷ Jensen, L.J.⁸ Bastuck, S.⁹ Dumpelfeld, B.¹⁰ Edelmann, A.¹¹ Heurtier, M.A.¹² Hoffman, V.¹³ Hoefert, C.¹⁴ Klein, K.¹⁵ Hudak, M.¹⁶ Michon, A.M.¹⁷ Schelder, M.¹⁸ Schirle, M.¹⁹ Remor, M.²⁰ more..

14
- 33645453254
- 10.1038/nature04670
- N. J. Krogan, G. Cagney, H. Yu, G. Zhong, X. Guo, A. Ignatchenko, J. Li, S. Pu, N. Datta, A. P. Tikuisis, T. Punna, J. M. Peregrin-Alvarez, M. Shales, X. Zhang, M. Davey, M. D. Robinson, A. Paccanaro, J. E. Bray, A. Sheung, B. Beattie, D. P. Richards, V. Canadien, A. Lalev, F. Mena, P. Wong, A. Starostine, M. M. Canete, J. Vlasblom, S. Wu, C. Orsi, S. R. Collins, S. Chandran, R. Haw, J. J. Rilstone, K. Gandi, N. J. Thompson, G. Musso, P. St Onge, S. Ghanny, M. H. Lam, G. Butland, A. M. Altaf-Ul, S. Kanaya, A. Shilatifard, E. OShea, J. S. Weissman, C. J. Ingles, T. R. Hughes, J. Parkinson, M. Gerstein, S. J. Wodak, A. Emili, and J. F. Greenblatt, Nature (London) 440, 637 (2006). 10.1038/nature04670
- (2006) Nature (London) , vol.440 , pp. 637
- Krogan, N.J.¹ Cagney, G.² Yu, H.³ Zhong, G.⁴ Guo, X.⁵ Ignatchenko, A.⁶ Li, J.⁷ Pu, S.⁸ Datta, N.⁹ Tikuisis, A.P.¹⁰ Punna, T.¹¹ Peregrin-Alvarez, J.M.¹² Shales, M.¹³ Zhang, X.¹⁴ Davey, M.¹⁵ Robinson, M.D.¹⁶ Paccanaro, A.¹⁷ Bray, J.E.¹⁸ Sheung, A.¹⁹ Beattie, B.²⁰ more..

15
- 53349117774
- 10.1126/science.1158684
- H. Yu, P. Braun, M. A. Yildirim, I. Lemmens, K. Venkatesan, J. Sahalie, T. Hirozane-Kishikawa, F. Gebreab, N. Li, N. Simonis, T. Hao, J. F. Rual, A. Dricot, A. Vazquez, R. R. Murray, C. Simon, L. Tardivo, S. Tam, N. Svrzikapa, C. Fan, A. S. de Smet, A. Motyl, M. E. Hudson, J. Park, X. Xin, M. E. Cusick, T. Moore, C. Boone, M. Snyder, F. P. Roth, A. L. Barabasi, J. Tavernier, D. E. Hill, and M. Vidal, Science 322, 104 (2008). 10.1126/science.1158684
- (2008) Science , vol.322 , pp. 104
- Yu, H.¹ Braun, P.² Yildirim, M.A.³ Lemmens, I.⁴ Venkatesan, K.⁵ Sahalie, J.⁶ Hirozane-Kishikawa, T.⁷ Gebreab, F.⁸ Li, N.⁹ Simonis, N.¹⁰ Hao, T.¹¹ Rual, J.F.¹² Dricot, A.¹³ Vazquez, A.¹⁴ Murray, R.R.¹⁵ Simon, C.¹⁶ Tardivo, L.¹⁷ Tam, S.¹⁸ Svrzikapa, N.¹⁹ Fan, C.²⁰ more..

16
- 79956146861
- 10.1016/j.jmb.2011.03.056
- A. Afek, E. I. Shakhnovich, and D. B. Lukatsky, J. Mol. Biol. 409, 439 (2011). 10.1016/j.jmb.2011.03.056
- (2011) J. Mol. Biol. , vol.409 , pp. 439
- Afek, A.¹ Shakhnovich, E.I.² Lukatsky, D.B.³

17
- 80051903771
- e-print arXiv:1101.4529v1.
- D. B. Lukatsky, and M. Elkin, e-print arXiv:1101.4529v1.
- Lukatsky, D.B.¹ Elkin, M.²

18
- 84870726202
- (Academic, San Diego)
- D. Frenkel, and B. Smit, Understanding Molecular Simulation: From Algorithms to Applications (Academic, San Diego, 2002), pp. xxii.
- (2002) Understanding Molecular Simulation: From Algorithms to Applications
- Frenkel, D.¹ Smit, B.²

19
- 33750399436
- Statistically enhanced self-attraction of random patterns
- DOI 10.1103/PhysRevLett.97.178101
- D. B. Lukatsky, K. B. Zeldovich, and E. I. Shakhnovich, Phys. Rev. Lett. 97, 178101 (2006). 10.1103/PhysRevLett.97.178101 (Pubitemid 44643610)
- (2006) Physical Review Letters , vol.97 , Issue.17 , pp. 178101
- Lukatsky, D.B.¹ Zeldovich, K.B.² Shakhnovich, E.I.³

20
- 80051862247
- 10.1016/j.bpj.2011.04.037
- I. Sela, and D. B. Lukatsky, Biophys. J. 101, 160 (2011). 10.1016/j.bpj.2011.04.037
- (2011) Biophys. J. , vol.101 , pp. 160
- Sela, I.¹ Lukatsky, D.B.²

21
- 0024357911
- Formation of unique structure in polypeptide chains: Theoretical investigation with the aid of a replica approach
- DOI 10.1016/0301-4622(89)80058-4
- E. I. Shakhnovich, and A. M. Gutin, Biophys. Chem. 34, 187 (1989). 10.1016/0301-4622(89)80058-4 (Pubitemid 20007771)
- (1989) Biophysical Chemistry , vol.34 , Issue.3 , pp. 187-199
- Shakhnovich, E.I.¹ Gutin, A.M.²

22
- 36448999595
- 10.1063/1.467320
- V. Abkevich, A. Gutin, and E. Shakhnovich, J. Chem. Phys. 101, 6052 (1994). 10.1063/1.467320
- (1994) J. Chem. Phys. , vol.101 , pp. 6052
- Abkevich, V.¹ Gutin, A.² Shakhnovich, E.³

23
- 0034310661
- Proteins with selected sequences: A heteropolymeric study
- DOI 10.1103/PhysRevE.62.7100
- J. Wilder, and E. I. Shakhnovich, Phys. Rev. E 62, 7100 (2000). 10.1103/PhysRevE.62.7100 (Pubitemid 32033188)
- (2000) Physical Review E - Statistical Physics, Plasmas, Fluids, and Related Interdisciplinary Topics , vol.62 , Issue.5 , pp. 7100-7110
- Wilder, J.¹ Shakhnovich, E.I.²

24
- 0001555826
- 10.1103/PhysRevE.50.1303
- S. Ramanathan, and E. Shakhnovich, Phys. Rev. E. 50, 1303 (1994). 10.1103/PhysRevE.50.1303
- (1994) Phys. Rev. E. , vol.50 , pp. 1303
- Ramanathan, S.¹ Shakhnovich, E.²

25
- 4243861085
- 10.1103/PhysRevB.24.2613
- B. Derrida, Phys. Rev. B 24, 2613 (1980). 10.1103/PhysRevB.24.2613
- (1980) Phys. Rev. B , vol.24 , pp. 2613
- Derrida, B.¹

26
- 33646931471
- Protein folding thermodynamics and dynamics: Where physics, chemistry, and biology meet
- DOI 10.1021/cr040425u
- E. Shakhnovich, Chem. Rev. 106, 1559 (2006). 10.1021/cr040425u (Pubitemid 43792772)
- (2006) Chemical Reviews , vol.106 , Issue.5 , pp. 1559-1588
- Shakhnovich, E.¹

27
- 0033121095
- 10.1002/(SIC I)1097-0134(19990 401)35:134::AID-PR OT43.0.CO;2-Q
- A. R. Dinner, V. Abkevich, E. Shakhnovich, and M. Karplus, Proteins 35, 34 (1999). 10.1002/(SICI)1097-0134(19990401)35:134::AID-PROT43.0.CO;2-Q
- (1999) Proteins , vol.35 , pp. 34
- Dinner, A.R.¹ Abkevich, V.² Shakhnovich, E.³ Karplus, M.⁴

28
- 4243392673
- 10.1103/PhysRevLett.72.3907
- E. I. Shakhnovich, Phys. Rev. Lett. 72, 3907 (1994). 10.1103/PhysRevLett. 72.3907
- (1994) Phys. Rev. Lett. , vol.72 , pp. 3907
- Shakhnovich, E.I.¹

29
- 0001555826
- 10.1103/PhysRevE.50.1303
- S. Ramanathan, and E. Shakhnovich, Phys. Rev. E 50, 1303 (1994). 10.1103/PhysRevE.50.1303
- (1994) Phys. Rev. e , vol.50 , pp. 1303
- Ramanathan, S.¹ Shakhnovich, E.²

30
- 77957771797
- 10.1016/j.str.2010.08.007
- J. R. Perkins, I. Diboun, B. H. Dessailly, J. G. Lees, and C. Orengo, Structure 18, 1233 (2010). 10.1016/j.str.2010.08.007
- (2010) Structure , vol.18 , pp. 1233
- Perkins, J.R.¹ Diboun, I.² Dessailly, B.H.³ Lees, J.G.⁴ Orengo, C.⁵

31
- 70349156763
- 10.1016/j.cbpa.2009.06.027
- A. Wolf-Yadlin, M. Sevecka, and G. MacBeath, Curr. Opin. Chem. Biol. 13, 398 (2009). 10.1016/j.cbpa.2009.06.027
- (2009) Curr. Opin. Chem. Biol. , vol.13 , pp. 398
- Wolf-Yadlin, A.¹ Sevecka, M.² MacBeath, G.³

32
- 58149229162
- 10.1038/nmeth.1289
- D. Gerber, S. J. Maerkl, and S. R. Quake, Nat. Methods 6, 71 (2009). 10.1038/nmeth.1289
- (2009) Nat. Methods , vol.6 , pp. 71
- Gerber, D.¹ Maerkl, S.J.² Quake, S.R.³

33
- 67649635978
- 10.1016/j.cell.2009.04.029
- T. Vavouri, J. I. Semple, R. Garcia-Verdugo, and B. Lehner, Cell 138, 198 (2009). 10.1016/j.cell.2009.04.029
- (2009) Cell , vol.138 , pp. 198
- Vavouri, T.¹ Semple, J.I.² Garcia-Verdugo, R.³ Lehner, B.⁴

34
- 80051867867
- private communication.
- D. S. Tawfik, private communication (2011).
- (2011)
- Tawfik, D.S.¹

* 이 정보는 Elsevier사의 SCOPUS DB에서 KISTI가 분석하여 추출한 것입니다.