-
1
-
-
33846925964
-
The molecular architecture of protein-Protein binding sites
-
DOI 10.1016/j.sbi.2007.01.004, PII S0959440X0700005X, Foldinf and Binding / Protein-Nucleic Interactions
-
Reichmann, D.; Rahat, O.; Cohen, M.; Neuvirth, H.; Schreiber, G. The molecular architecture of protein-Protein binding sites. Curr. Opin. Struct. Biol., 2007, 17, 67-76. (Pubitemid 46240815)
-
(2007)
Current Opinion in Structural Biology
, vol.17
, Issue.1
, pp. 67-76
-
-
Reichmann, D.1
Rahat, O.2
Cohen, M.3
Neuvirth, H.4
Schreiber, G.5
-
2
-
-
37249065351
-
The molecular sociology of the cell
-
DOI 10.1038/nature06523, PII NATURE06523
-
Robinson, C.V.; Sali, A.; Baumeister, W. The molecular sociology of the cell. Nature, 2007, 450, 973-82. (Pubitemid 350273627)
-
(2007)
Nature
, vol.450
, Issue.7172
, pp. 973-982
-
-
Robinson, C.V.1
Sali, A.2
Baumeister, W.3
-
3
-
-
37249004920
-
Reaching for high-Hanging fruit in drug discovery at protein-Protein interfaces
-
DOI 10.1038/nature06526, PII NATURE06526
-
Wells, J.A.; McClendon, C.L. Reaching for high-hanging fruit in drug discovery at protein-Protein interfaces. Nature, 2007, 450, 1001-9. (Pubitemid 350273630)
-
(2007)
Nature
, vol.450
, Issue.7172
, pp. 1001-1009
-
-
Wells, J.A.1
McClendon, C.L.2
-
4
-
-
43149092276
-
Principles of protein-Protein interactions: What are the preferred ways for proteins to interact?
-
DOI 10.1021/cr040409x
-
Keskin, O.; Gursoy, A.; Ma, B.; Nussinov, R. Principles of proteinprotein interactions: what are the preferred ways for proteins to interact? Chem. Rev., 2008, 108, 1225-44. (Pubitemid 351638814)
-
(2008)
Chemical Reviews
, vol.108
, Issue.4
, pp. 1225-1244
-
-
Keskin, O.1
Gursoy, A.2
Ma, B.3
Nussinov, R.4
-
6
-
-
52649130704
-
Protein-Protein interaction and quaternary structure
-
Janin, J.; Bahadur, R.P.; Chakrabarti, P. Protein-Protein interaction and quaternary structure. Q Rev. Biophys., 2008, 41, 133-80.
-
(2008)
Q Rev. Biophys.
, vol.41
, pp. 133-180
-
-
Janin, J.1
Bahadur, R.P.2
Chakrabarti, P.3
-
7
-
-
84889817521
-
Insights from the structural analysis of protein heterodimer interfaces
-
Sowmya, G.; Anita, S.; Kangueane, P. Insights from the structural analysis of protein heterodimer interfaces. Bioinformation, 2011, 6, 137-43.
-
(2011)
Bioinformation
, vol.6
, pp. 137-143
-
-
Sowmya, G.1
Anita, S.2
Kangueane, P.3
-
8
-
-
0035212065
-
Is there a bias in proteome research?
-
DOI 10.1101/gr.206701
-
Mrowka, R.; Patzak, A.; Herzel, H. Is there a bias in proteome research? Genome Res., 2001, 11, 1971-3. (Pubitemid 33138792)
-
(2001)
Genome Research
, vol.11
, Issue.12
, pp. 1971-1973
-
-
Mrowka, R.1
Patzak, A.2
Herzel, H.3
-
9
-
-
0037161731
-
Comparative assessment of large-scale data sets of protein-Protein interactions
-
von Mering, C.; Krause, R.; Snel, B.; Cornell, M.; Oliver, S.G.; Fields, S.; Bork, P. Comparative assessment of large-scale data sets of protein-Protein interactions. Nature, 2002, 417, 399-403. (Pubitemid 34563526)
-
(2002)
Nature
, vol.417
, Issue.6887
, pp. 399-403
-
-
Von Mering, C.1
Krause, R.2
Snel, B.3
Cornell, M.4
Oliver, S.G.5
Fields, S.6
Bork, P.7
-
10
-
-
22344435988
-
Prediction of physical protein-Protein interactions
-
DOI 10.1088/1478-3975/2/2/S01
-
Szilagyi, A.; Grimm, V.; Arakaki, A.K.; Skolnick, J. Prediction of physical protein-Protein interactions. Phys. Biol., 2005, 2, S1-16. (Pubitemid 41001323)
-
(2005)
Physical Biology
, vol.2
, Issue.2
-
-
Szilagyi, A.1
Grimm, V.2
Arakaki, A.K.3
Skolnick, J.4
-
11
-
-
33644550021
-
Structural systems biology: Modelling protein interactions
-
Aloy, P.; Russell, R.B. Structural systems biology: modelling protein interactions. Nat. Rev. Mol. Cell Biol., 2006, 7, 188-97.
-
(2006)
Nat. Rev. Mol. Cell Biol.
, vol.7
, pp. 188-197
-
-
Aloy, P.1
Russell, R.B.2
-
12
-
-
0037377181
-
Function prediction and protein networks
-
DOI 10.1016/S0955-0674(03)00009-7
-
Huynen, M.A.; Snel, B.; von Mering, C.; Bork, P. Function prediction and protein networks. Curr. Opin. Cell Biol., 2003, 15, 191-8. (Pubitemid 36332194)
-
(2003)
Current Opinion in Cell Biology
, vol.15
, Issue.2
, pp. 191-198
-
-
Huynen, M.A.1
Snel, B.2
Von Mering, C.3
Bork, P.4
-
13
-
-
0036468385
-
Prediction of protein-Protein interactions by docking methods
-
DOI 10.1016/S0959-440X(02)00285-3
-
Smith, G.R.; Sternberg, M.J. Prediction of protein-Protein interactions by docking methods. Curr. Opin. Struct. Biol., 2002, 12, 28-35. (Pubitemid 34142717)
-
(2002)
Current Opinion in Structural Biology
, vol.12
, Issue.1
, pp. 28-35
-
-
Smith, G.R.1
Sternberg, M.J.E.2
-
14
-
-
37149023701
-
Protein-Protein docking: Overview and performance analysis
-
Wiehe, K.; Peterson, M.W.; Pierce, B.; Mintseris, J.; Weng, Z. Protein-Protein docking: overview and performance analysis. Methods Mol. Biol., 2008, 413, 283-314.
-
(2008)
Methods Mol. Biol.
, vol.413
, pp. 283-314
-
-
Wiehe, K.1
Peterson, M.W.2
Pierce, B.3
Mintseris, J.4
Weng, Z.5
-
15
-
-
0036468396
-
Protein-Protein association kinetics and protein docking
-
DOI 10.1016/S0959-440X(02)00286-5
-
Camacho, C.J.; Vajda, S. Protein-Protein association kinetics and protein docking. Curr. Opin. Struct. Biol., 2002, 12, 36-40. (Pubitemid 34142718)
-
(2002)
Current Opinion in Structural Biology
, vol.12
, Issue.1
, pp. 36-40
-
-
Camacho, C.J.1
Vajda, S.2
-
16
-
-
0036606483
-
Principles of docking: An overview of search algorithms and a guide to scoring functions
-
DOI 10.1002/prot.10115
-
Halperin, I.; Ma, B.; Wolfson, H.; Nussinov, R. Principles of docking: An overview of search algorithms and a guide to scoring functions. Proteins, 2002, 47, 409-43. (Pubitemid 34614722)
-
(2002)
Proteins: Structure, Function and Genetics
, vol.47
, Issue.4
, pp. 409-443
-
-
Halperin, I.1
Ma, B.2
Wolfson, H.3
Nussinov, R.4
-
17
-
-
0036180566
-
Electrostatics in protein-Protein docking
-
DOI 10.1110/ps.26002
-
Heifetz, A.; Katchalski-Katzir, E.; Eisenstein, M. Electrostatics in protein-Protein docking. Protein Sci., 2002, 11, 571-87. (Pubitemid 34171262)
-
(2002)
Protein Science
, vol.11
, Issue.3
, pp. 571-587
-
-
Heifetz, A.1
Katchalski-Katzir, E.2
Eisenstein, M.3
-
19
-
-
77952068704
-
Are scoring functions in proteinprotein docking ready to predict interactomes? Clues from a novel binding affinity benchmark
-
Kastritis, P.L.; Bonvin, A.M. Are scoring functions in proteinprotein docking ready to predict interactomes? Clues from a novel binding affinity benchmark. J. Proteome Res., 2010, 9, 2216-25.
-
(2010)
J. Proteome Res.
, vol.9
, pp. 2216-2225
-
-
Kastritis, P.L.1
Bonvin, A.M.2
-
20
-
-
36749006579
-
Docking and scoring protein complexes: CAPRI 3rd Edition
-
DOI 10.1002/prot.21804
-
Lensink, M.F.; Mendez, R.; Wodak, S.J. Docking and scoring protein complexes: CAPRI 3rd Edition. Proteins, 2007, 69, 704-18. (Pubitemid 350214359)
-
(2007)
Proteins: Structure, Function and Genetics
, vol.69
, Issue.4
, pp. 704-718
-
-
Lensink, M.F.1
Mendez, R.2
Wodak, S.J.3
-
21
-
-
48749126860
-
Insights into protein flexibility: The relationship between normal modes and conformational change upon protein-Protein docking
-
Dobbins, S.E.; Lesk, V.I.; Sternberg, M.J. Insights into protein flexibility: The relationship between normal modes and conformational change upon protein-Protein docking. Proc. Natl. Acad. Sci. USA, 2008, 105, 10390-5.
-
(2008)
Proc. Natl. Acad. Sci. USA
, vol.105
, pp. 10390-10395
-
-
Dobbins, S.E.1
Lesk, V.I.2
Sternberg, M.J.3
-
22
-
-
33751423377
-
How different are structurally flexible and rigid binding sites? Sequence and structural features discriminating proteins that do and do not undergo conformational change upon ligand binding
-
DOI 10.1016/j.jmb.2006.09.062, PII S0022283606012861
-
Gunasekaran, K.; Nussinov, R. How different are structurally flexible and rigid binding sites? Sequence and structural features discriminating proteins that do and do not undergo conformational change upon ligand binding. J. Mol. Biol., 2007, 365, 257-73. (Pubitemid 44821204)
-
(2007)
Journal of Molecular Biology
, vol.365
, Issue.1
, pp. 257-273
-
-
Gunasekaran, K.1
Nussinov, R.2
-
23
-
-
49049105131
-
Using protein binding site prediction to improve protein docking
-
Huang, B.; Schroeder, M. Using protein binding site prediction to improve protein docking. Gene, 2008, 422, 14-21.
-
(2008)
Gene
, vol.422
, pp. 14-21
-
-
Huang, B.1
Schroeder, M.2
-
24
-
-
66149136452
-
Shape complementarity of protein-Protein complexes at multiple resolutions
-
Zhang, Q.; Sanner, M.; Olson, A.J. Shape complementarity of protein-Protein complexes at multiple resolutions. Proteins, 2009, 75, 453-67.
-
(2009)
Proteins
, vol.75
, pp. 453-467
-
-
Zhang, Q.1
Sanner, M.2
Olson, A.J.3
-
25
-
-
0025123333
-
The structure of protein-Protein recognition sites
-
Janin, J.; Chothia, C. The structure of protein-Protein recognition sites. J. Biol. Chem., 1990, 265, 16027-30.
-
(1990)
J. Biol. Chem.
, vol.265
, pp. 16027-16030
-
-
Janin, J.1
Chothia, C.2
-
26
-
-
0029109468
-
Protein-Protein interactions: A review of protein dimer structures
-
Jones, S.; Thornton, J.M. Protein-Protein interactions: A review of protein dimer structures. Prog. Biophys. Mol. Biol., 1995, 63, 31-65.
-
(1995)
Prog. Biophys. Mol. Biol.
, vol.63
, pp. 31-65
-
-
Jones, S.1
Thornton, J.M.2
-
27
-
-
0030028728
-
Principles of protein-Protein interactions
-
DOI 10.1073/pnas.93.1.13
-
Jones, S.; Thornton, J.M. Principles of protein-Protein interactions. Proc. Natl. Acad. Sci. USA, 1996, 93, 13-20. (Pubitemid 26038096)
-
(1996)
Proceedings of the National Academy of Sciences of the United States of America
, vol.93
, Issue.1
, pp. 13-20
-
-
Jones, S.1
Thornton, J.M.2
-
28
-
-
0033954256
-
The protein data bank
-
Berman, H.M.; Westbrook, J.; Feng, Z.; Gilliland, G.; Bhat, T.N.; Weissig, H.; Shindyalov, I.N.; Bourne, P.E. The Protein Data Bank. Nucleic Acids Res., 2000, 28, 235-42. (Pubitemid 30047768)
-
(2000)
Nucleic Acids Research
, vol.28
, Issue.1
, pp. 235-242
-
-
Berman, H.M.1
Westbrook, J.2
Feng, Z.3
Gilliland, G.4
Bhat, T.N.5
Weissig, H.6
Shindyalov, I.N.7
Bourne, P.E.8
-
29
-
-
0003187567
-
The atomic structure of protein-Protein recognition sites
-
DOI 10.1006/jmbi.1998.2439
-
Lo Conte, L.; Chothia, C.; Janin, J. The atomic structure of proteinprotein recognition sites. J. Mol. Biol., 1999, 285, 2177-98. (Pubitemid 29078179)
-
(1999)
Journal of Molecular Biology
, vol.285
, Issue.5
, pp. 2177-2198
-
-
Conte, L.L.1
Chothia, C.2
Janin, J.3
-
30
-
-
0037093645
-
Dissecting protein-Protein recognition sites
-
DOI 10.1002/prot.10085
-
Chakrabarti, P.; Janin, J. Dissecting protein-Protein recognition sites. Proteins, 2002, 47, 334-43. (Pubitemid 34438683)
-
(2002)
Proteins: Structure, Function and Genetics
, vol.47
, Issue.3
, pp. 334-343
-
-
Chakrabarti, P.1
Janin, J.2
-
31
-
-
59549088662
-
ProtorP: A protein-Protein interaction analysis server
-
Reynolds, C.; Damerell, D.; Jones, S. ProtorP: A protein-Protein interaction analysis server. Bioinformatics, 2009, 25, 413-4.
-
(2009)
Bioinformatics
, vol.25
, pp. 413-414
-
-
Reynolds, C.1
Damerell, D.2
Jones, S.3
-
32
-
-
0345600247
-
A Protein Interaction Map of Drosophila melanogaster
-
DOI 10.1126/science.1090289
-
Giot, L.; Bader, J. S.; Brouwer, C.; Chaudhuri, A.; Kuang, B.; Li, Y.; Hao, Y. L.; Ooi, C. E.; Godwin, B.; Vitols, E.; Vijayadamodar, G.; Pochart, P.; Machineni, H.; Welsh, M.; Kong, Y.; Zerhusen, B.; Malcolm, R.; Varrone, Z.; Collis, A.; Minto, M.; Burgess, S.; McDaniel, L.; Stimpson, E.; Spriggs, F.; Williams, J.; Neurath, K.; Ioime, N.; Agee, M.; Voss, E.; Furtak, K.; Renzulli, R.; Aanensen, N.; Carrolla, S.; Bickelhaupt, E.; Lazovatsky, Y.; DaSilva, A.; Zhong, J.; Stanyon, C. A.; Finley, R. L., Jr.; White, K. P.; Braverman, M.; Jarvie, T.; Gold, S.; Leach, M.; Knight, J.; Shimkets, R. A.; McKenna, M. P.; Chant, J.; Rothberg, J. M. A protein interaction map of Drosophila melanogaster. Science, 2003, 302, 1727-36. (Pubitemid 37505730)
-
(2003)
Science
, vol.302
, Issue.5651
, pp. 1727-1736
-
-
Giot, L.1
Bader, J.S.2
Brouwer, C.3
Chaudhuri, A.4
Kuang, B.5
Li, Y.6
Hao, Y.L.7
Ooi, C.E.8
Godwin, B.9
Vitols, E.10
Vijayadamodar, G.11
Pochart, P.12
Machineni, H.13
Welsh, M.14
Kong, Y.15
Zerhusen, B.16
Malcolm, R.17
Varrone, Z.18
Collis, A.19
Minto, M.20
Burgess, S.21
McDaniel, L.22
Stimpson, E.23
Spriggs, F.24
Williams, J.25
Neurath, K.26
Ioime, N.27
Agee, M.28
Voss, E.29
Furtak, K.30
Renzulli, R.31
Aanensen, N.32
Carrolla, S.33
Bickelhaupt, E.34
Lazovatsky, Y.35
Dasilva, A.36
Zhong, J.37
Stanyon, C.A.38
Finley Jr., R.L.39
White, K.P.40
Braverman, M.41
Jarvie, T.42
Gold, S.43
Leach, M.44
Knight, J.45
Shimkets, R.A.46
McKenna, M.P.47
Chant, J.48
Rothberg, J.M.49
more..
-
33
-
-
9144264169
-
A map of the interactome network of the metazoan C. Elegans
-
DOI 10.1126/science.1091403
-
Li, S.; Armstrong, C. M.; Bertin, N.; Ge, H.; Milstein, S.; Boxem, M.; Vidalain, P. O.; Han, J. D.; Chesneau, A.; Hao, T.; Goldberg, D. S.; Li, N.; Martinez, M.; Rual, J. F.; Lamesch, P.; Xu, L.; Tewari, M.; Wong, S. L.; Zhang, L. V.; Berriz, G. F.; Jacotot, L.; Vaglio, P.; Reboul, J.; Hirozane-Kishikawa, T.; Li, Q.; Gabel, H. W.; Elewa, A.; Baumgartner, B.; Rose, D. J.; Yu, H.; Bosak, S.; Sequerra, R.; Fraser, A.; Mango, S. E.; Saxton, W. M.; Strome, S.; Van Den Heuvel, S.; Piano, F.; Vandenhaute, J.; Sardet, C.; Gerstein, M.; Doucette-Stamm, L.; Gunsalus, K. C.; Harper, J. W.; Cusick, M. E.; Roth, F. P.; Hill, D. E.; Vidal, M. A map of the interactome network of the metazoan C. elegans. Science, 2004, 303, 540-3. (Pubitemid 38120855)
-
(2004)
Science
, vol.303
, Issue.5657
, pp. 540-543
-
-
Li, S.1
Armstrong, C.M.2
Bertin, N.3
Ge, H.4
Milstein, S.5
Boxem, M.6
Vidalain, P.-O.7
Han, J.-D.J.8
Chesneau, A.9
Hao, T.10
Goldberg, D.S.11
Li, N.12
Martinez, M.13
Rual, J.-F.14
Lamesch, P.15
Xu, L.16
Tewari, M.17
Wong, S.L.18
Zhang, L.V.19
Berriz, G.F.20
Jacotot, L.21
Vaglio, P.22
Reboul, J.23
Hirozane-Kishikawa, T.24
Li, Q.25
Gabel, H.W.26
Elewa, A.27
Baumgartner, B.28
Rose, D.J.29
Yu, H.30
Bosak, S.31
Sequerra, R.32
Fraser, A.33
Mango, S.E.34
Saxton, W.M.35
Strome, S.36
Van Den Heuvel, S.37
Piano, F.38
Vandenhaute, J.39
Sardet, C.40
Gerstein, M.41
Doucette-Stamm, L.42
Gunsalus, K.C.43
Harper, J.W.44
Cusick, M.E.45
Roth, F.P.46
Hill, D.E.47
Vidal, M.48
more..
-
34
-
-
80052326913
-
Transient protein-Protein interactions
-
Ozbabacan, S. E.; Engin, H. B.; Gursoy, A.; Keskin, O. Transient protein-Protein interactions. Protein Eng Des Sel, 2011, 24, 635-48.
-
(2011)
Protein Eng des Sel
, vol.24
, pp. 635-648
-
-
Ozbabacan, S.E.1
Engin, H.B.2
Gursoy, A.3
Keskin, O.4
-
35
-
-
5044235050
-
Ten thousand interactions for the molecular biologist
-
DOI 10.1038/nbt1018
-
Aloy, P.; Russell, R. B. Ten thousand interactions for the molecular biologist. Nat Biotechnol, 2004, 22, 1317-21. (Pubitemid 39336787)
-
(2004)
Nature Biotechnology
, vol.22
, Issue.10
, pp. 1317-1321
-
-
Aloy, P.1
Russell, R.B.2
-
36
-
-
5044235050
-
Ten thousand interactions for the molecular biologist
-
DOI 10.1038/nbt1018
-
Aloy, P.; Russell, R. B. Ten thousand interactions for the molecular biologist. Nat. Biotechnol., 2004, 22, 1317-21. (Pubitemid 39336787)
-
(2004)
Nature Biotechnology
, vol.22
, Issue.10
, pp. 1317-1321
-
-
Aloy, P.1
Russell, R.B.2
-
37
-
-
33847744247
-
How complete are current yeast and human protein-Interaction networks?
-
Hart, G. T.; Ramani, A. K.; Marcotte, E. M. How complete are current yeast and human protein-interaction networks? Genome Biol., 2006, 7, 120.
-
(2006)
Genome Biol.
, vol.7
, pp. 120
-
-
Hart, G.T.1
Ramani, A.K.2
Marcotte, E.M.3
-
38
-
-
78650274124
-
New insights into protein-Protein interaction data lead to increased estimates of the S. Cerevisiae interactome size
-
Sambourg, L.; Thierry-Mieg, N. New insights into protein-Protein interaction data lead to increased estimates of the S. cerevisiae interactome size. BMC Bioinformatics, 2010, 11, 605.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 605
-
-
Sambourg, L.1
Thierry-Mieg, N.2
-
39
-
-
13844277017
-
New methodologies for measuring protein interactions in vivo and in vitro
-
DOI 10.1016/j.sbi.2005.01.008
-
Piehler, J. New methodologies for measuring protein interactions in vivo and in vitro. Curr. Opin. Struct. Biol., 2005, 15, 4-14. (Pubitemid 40249503)
-
(2005)
Current Opinion in Structural Biology
, vol.15
, pp. 4-14
-
-
Piehler, J.1
-
40
-
-
0024406857
-
A novel genetic system to detect protein-Protein interactions
-
DOI 10.1038/340245a0
-
Fields, S.; Song, O. A novel genetic system to detect proteinprotein interactions. Nature, 1989, 340, 245-6. (Pubitemid 19171591)
-
(1989)
Nature
, vol.340
, Issue.6230
, pp. 245-246
-
-
Fields, S.1
Song, O.-K.2
-
41
-
-
0027250250
-
Mammalian ras interacts directly with the serine/threonine kinase Raf
-
DOI 10.1016/0092-8674(93)90307-C
-
Vojtek, A. B.; Hollenberg, S. M.; Cooper, J. A. Mammalian Ras interacts directly with the serine/threonine kinase Raf. Cell, 1993, 74, 205-14. (Pubitemid 23219891)
-
(1993)
Cell
, vol.74
, Issue.1
, pp. 205-214
-
-
Vojtek, A.B.1
Hollenberg, S.M.2
Cooper, J.A.3
-
42
-
-
0030624529
-
Alternative yeast two-Hybrid systems. The interaction trap and interaction mating
-
Golemis, E. A.; Khazak, V. Alternative yeast two-hybrid systems. The interaction trap and interaction mating. Methods Mol. Biol., 1997, 63, 197-218.
-
(1997)
Methods Mol. Biol.
, vol.63
, pp. 197-218
-
-
Golemis, E.A.1
Khazak, V.2
-
43
-
-
0030851629
-
Improved efficiency Sos recruitment system: Expression of the mammalian GAP reduces isolation of Ras GTPase false positives
-
DOI 10.1093/nar/25.16.3373
-
Aronheim, A. Improved efficiency sos recruitment system: expression of the mammalian GAP reduces isolation of Ras GTPase false positives. Nucleic Acids Res., 1997, 25, 3373-4. (Pubitemid 27338701)
-
(1997)
Nucleic Acids Research
, vol.25
, Issue.16
, pp. 3373-3374
-
-
Aronheim, A.1
-
44
-
-
33751217186
-
Monitoring regulated protein-Protein interactions using split TEV
-
DOI 10.1038/nmeth967, PII NMETH967
-
Wehr, M. C.; Laage, R.; Bolz, U.; Fischer, T. M.; Grunewald, S.; Scheek, S.; Bach, A.; Nave, K. A.; Rossner, M. J. Monitoring regulated protein-Protein interactions using split TEV. Nat. Methods, 2006, 3, 985-93. (Pubitemid 44782697)
-
(2006)
Nature Methods
, vol.3
, Issue.12
, pp. 985-993
-
-
Wehr, M.C.1
Laage, R.2
Bolz, U.3
Fischer, T.M.4
Grunewald, S.5
Scheek, S.6
Bach, A.7
Nave, K.-A.8
Rossner, M.J.9
-
45
-
-
0032510783
-
A bacterial twohybrid system based on a reconstituted signal transduction pathway
-
Karimova, G.; Pidoux, J.; Ullmann, A.; Ladant, D. A bacterial twohybrid system based on a reconstituted signal transduction pathway. Proc. Natl. Acad. Sci. USA, 1998, 95, 5752-6.
-
(1998)
Proc. Natl. Acad. Sci. USA
, vol.95
, pp. 5752-5756
-
-
Karimova, G.1
Pidoux, J.2
Ullmann, A.3
Ladant, D.4
-
46
-
-
0034691202
-
A bacterial two-Hybrid selection system for studying protein-DNA and protein-Protein interactions
-
Joung, J. K.; Ramm, E. I.; Pabo, C. O. A bacterial two-hybrid selection system for studying protein-DNA and protein-Protein interactions. Proc. Natl. Acad. Sci. USA, 2000, 97, 7382-7.
-
(2000)
Proc. Natl. Acad. Sci. USA
, vol.97
, pp. 7382-7387
-
-
Joung, J.K.1
Ramm, E.I.2
Pabo, C.O.3
-
47
-
-
0035199166
-
Design and application of a cytokine-Receptor-Based interaction trap
-
DOI 10.1038/ncb1201-1114
-
Eyckerman, S.; Verhee, A.; der Heyden, J. V.; Lemmens, I.; Ostade, X. V.; Vandekerckhove, J.; Tavernier, J. Design and application of a cytokine-receptor-Based interaction trap. Nat. Cell Biol., 2001, 3, 1114-9. (Pubitemid 33130462)
-
(2001)
Nature Cell Biology
, vol.3
, Issue.12
, pp. 1114-1119
-
-
Eyckerman, S.1
Verhee, A.2
Van Der Heyden, J.3
Lemmens, I.4
Van Ostade, X.5
Vandekerckhove, J.6
Tavernier, J.7
-
48
-
-
0037995710
-
Simultaneous visualization of multiple protein interactions in living cells using multicolor fluorescence complementation analysis
-
DOI 10.1038/nbt816
-
Hu, C. D.; Kerppola, T. K. Simultaneous visualization of multiple protein interactions in living cells using multicolor fluorescence complementation analysis. Nat. Biotechnol., 2003, 21, 539-45. (Pubitemid 36532019)
-
(2003)
Nature Biotechnology
, vol.21
, Issue.5
, pp. 539-545
-
-
Hu, C.-D.1
Kerppola, T.K.2
-
49
-
-
0037050026
-
Functional organization of the yeast proteome by systematic analysis of protein complexes
-
DOI 10.1038/415141a
-
Gavin, A. C.; Bosche, M.; Krause, R.; Grandi, P.; Marzioch, M.; Bauer, A.; Schultz, J.; Rick, J. M.; Michon, A. M.; Cruciat, C. M.; Remor, M.; Hofert, C.; Schelder, M.; Brajenovic, M.; Ruffner, H.; Merino, A.; Klein, K.; Hudak, M.; Dickson, D.; Rudi, T.; Gnau, V.; Bauch, A.; Bastuck, S.; Huhse, B.; Leutwein, C.; Heurtier, M. A.; Copley, R. R.; Edelmann, A.; Querfurth, E.; Rybin, V.; Drewes, G.; Raida, M.; Bouwmeester, T.; Bork, P.; Seraphin, B.; Kuster, B.; Neubauer, G.; Superti-Furga, G. Functional organization of the yeast proteome by systematic analysis of protein complexes. Nature, 2002, 415, 141-7. (Pubitemid 34059510)
-
(2002)
Nature
, vol.415
, Issue.6868
, pp. 141-147
-
-
Gavin, A.-C.1
Bosche, M.2
Krause, R.3
Grandi, P.4
Marzioch, M.5
Bauer, A.6
Schultz, J.7
Rick, J.M.8
Michon, A.-M.9
Cruciat, C.-M.10
Remor, M.11
Hofert, C.12
Schelder, M.13
Brajenovic, M.14
Ruffner, H.15
Merino, A.16
Klein, K.17
Hudak, M.18
Dickson, D.19
Rudi, T.20
Gnau, V.21
Bauch, A.22
Bastuck, S.23
Huhse, B.24
Leutwein, C.25
Heurtier, M.-A.26
Copley, R.R.27
Edelmann, A.28
Querfurth, E.29
Rybin, V.30
Drewes, G.31
Raida, M.32
Bouwmeester, T.33
Bork, P.34
Seraphin, B.35
Kuster, B.36
Neubauer, G.37
Superti-Furga, G.38
more..
-
50
-
-
84855195456
-
Nanodisc-Based coimmunoprecipitation for mass spectrometric identification of membrane-Interacting proteins
-
O110 006775
-
Borch, J.; Roepstorff, P.; Moller-Jensen, J. Nanodisc-Based coimmunoprecipitation for mass spectrometric identification of membrane-interacting proteins. Mol. Cell Proteomics, 2011, 10, O110 006775.
-
(2011)
Mol. Cell Proteomics
, vol.10
-
-
Borch, J.1
Roepstorff, P.2
Moller-Jensen, J.3
-
51
-
-
77957254319
-
Identifying components of protein complexes in C. Elegans using co-Immunoprecipitation and mass spectrometry
-
Moresco, J. J.; Carvalho, P. C.; Yates, J. R., 3rd. Identifying components of protein complexes in C. elegans using co-immunoprecipitation and mass spectrometry. J. Proteomics, 2010, 73, 2198-204.
-
(2010)
J. Proteomics
, vol.73
, pp. 2198-2204
-
-
Moresco, J.J.1
Carvalho, P.C.2
Yates III, J.R.3
-
52
-
-
80755153605
-
Identification of proteins interacting with lactate dehydrogenase in claw muscle of the porcelain crab Petrolisthes cinctipes
-
Cayenne, A. P.; Gabert, B.; Stillman, J. H. Identification of proteins interacting with lactate dehydrogenase in claw muscle of the porcelain crab Petrolisthes cinctipes. Comp. Biochem. Physiol. Part D Genomics Proteomics, 2011, 6, 393-8.
-
(2011)
Comp. Biochem. Physiol. Part D Genomics Proteomics
, vol.6
, pp. 393-398
-
-
Cayenne, A.P.1
Gabert, B.2
Stillman, J.H.3
-
53
-
-
34047202181
-
Deciphering protein-Protein interactions. Part I. Experimental techniques and databases
-
Shoemaker, B. A.; Panchenko, A. R. Deciphering protein-Protein interactions. Part I. Experimental techniques and databases. PLoS Comput. Biol., 2007, 3, e42.
-
(2007)
PLoS Comput. Biol.
, vol.3
-
-
Shoemaker, B.A.1
Panchenko, A.R.2
-
54
-
-
65549157572
-
A survey of available tools and web servers for analysis of proteinprotein interactions and interfaces
-
Tuncbag, N.; Kar, G.; Keskin, O.; Gursoy, A.; Nussinov, R. A survey of available tools and web servers for analysis of proteinprotein interactions and interfaces. Brief Bioinform., 2009, 10, 217-32.
-
(2009)
Brief Bioinform.
, vol.10
, pp. 217-232
-
-
Tuncbag, N.1
Kar, G.2
Keskin, O.3
Gursoy, A.4
Nussinov, R.5
-
55
-
-
0036088133
-
DIP, the Database of Interacting Proteins: A research tool for studying cellular networks of protein interactions
-
Xenarios, I.; Salwinski, L.; Duan, X. J.; Higney, P.; Kim, S. M.; Eisenberg, D. DIP, the Database of Interacting Proteins: A research tool for studying cellular networks of protein interactions. Nucleic Acids Res., 2002, 30, 303-5. (Pubitemid 34679570)
-
(2002)
Nucleic Acids Research
, vol.30
, Issue.1
, pp. 303-305
-
-
Xenarios, I.1
Salwinski, L.2
Duan, X.J.3
Higney, P.4
Kim, S.-M.5
Eisenberg, D.6
-
56
-
-
0036463402
-
Describing biological protein interactions in terms of protein states and state transitions: The LiveDIP database
-
Duan, X. J.; Xenarios, I.; Eisenberg, D. Describing biological protein interactions in terms of protein states and state transitions: The LiveDIP database. Mol. Cell Proteomics, 2002, 1, 104-16.
-
(2002)
Mol. Cell Proteomics
, vol.1
, pp. 104-116
-
-
Duan, X.J.1
Xenarios, I.2
Eisenberg, D.3
-
57
-
-
4644231028
-
Prolinks: A database of protein functional linkages derived from coevolution
-
Bowers, P. M.; Pellegrini, M.; Thompson, M. J.; Fierro, J.; Yeates, T. O.; Eisenberg, D. Prolinks: A database of protein functional linkages derived from coevolution. Genome Biol., 2004, 5, R35.
-
(2004)
Genome Biol.
, vol.5
-
-
Bowers, P.M.1
Pellegrini, M.2
Thompson, M.J.3
Fierro, J.4
Yeates, T.O.5
Eisenberg, D.6
-
58
-
-
0033930882
-
BIND -A data specification for storing and describing biomolecular interactions, molecular complexes and pathways
-
Bader, G. D.; Hogue, C. W. BIND-A data specification for storing and describing biomolecular interactions, molecular complexes and pathways. Bioinformatics, 2000, 16, 465-77. (Pubitemid 30487967)
-
(2000)
Bioinformatics
, vol.16
, Issue.5
, pp. 465-477
-
-
Bader, G.D.1
Hogue, C.W.V.2
-
59
-
-
13444272070
-
The biomolecular interaction network database and related tools 2005 update
-
DOI 10.1093/nar/gki051
-
Alfarano, C.; Andrade, C. E.; Anthony, K.; Bahroos, N.; Bajec, M.; Bantoft, K.; Betel, D.; Bobechko, B.; Boutilier, K.; Burgess, E.; Buzadzija, K.; Cavero, R.; D'Abreo, C.; Donaldson, I.; Dorairajoo, D.; Dumontier, M. J.; Dumontier, M. R.; Earles, V.; Farrall, R.; Feldman, H.; Garderman, E.; Gong, Y.; Gonzaga, R.; Grytsan, V.; Gryz, E.; Gu, V.; Haldorsen, E.; Halupa, A.; Haw, R.; Hrvojic, A.; Hurrell, L.; Isserlin, R.; Jack, F.; Juma, F.; Khan, A.; Kon, T.; Konopinsky, S.; Le, V.; Lee, E.; Ling, S.; Magidin, M.; Moniakis, J.; Montojo, J.; Moore, S.; Muskat, B.; Ng, I.; Paraiso, J. P.; Parker, B.; Pintilie, G.; Pirone, R.; Salama, J. J.; Sgro, S.; Shan, T.; Shu, Y.; Siew, J.; Skinner, D.; Snyder, K.; Stasiuk, R.; Strumpf, D.; Tuekam, B.; Tao, S.; Wang, Z.; White, M.; Willis, R.; Wolting, C.; Wong, S.; Wrong, A.; Xin, C.; Yao, R.; Yates, B.; Zhang, S.; Zheng, K.; Pawson, T.; Ouellette, B. F.; Hogue, C. W. The Biomolecular Interaction Network Database and related tools 2005 update. Nucleic Acids Res., 2005, 33, D418-24. (Pubitemid 40207907)
-
(2005)
Nucleic Acids Research
, vol.33
-
-
Alfarano, C.1
Andrade, C.E.2
Anthony, K.3
Bahroos, N.4
Bajec, M.5
Bantoft, K.6
Betel, D.7
Bobechko, B.8
Boutilier, K.9
Burgess, E.10
Buzadzija, K.11
Cavero, R.12
D'Abreo, C.13
Donaldson, I.14
Dorairajoo, D.15
Dumontier, M.J.16
Dumontier, M.R.17
Earles, V.18
Farrall, R.19
Feldman, H.20
Garderman, E.21
Gong, Y.22
Gonzaga, R.23
Grytsan, V.24
Gryz, E.25
Gu, V.26
Haldorsen, E.27
Halupa, A.28
Haw, R.29
Hrvojic, A.30
Hurrell, L.31
Isserlin, R.32
Jack, F.33
Juma, F.34
Khan, A.35
Kon, T.36
Konopinsky, S.37
Le, V.38
Lee, E.39
Ling, S.40
Magidin, M.41
Moniakis, J.42
Montojo, J.43
Moore, S.44
Muskat, B.45
Ng, I.46
Paraiso, J.P.47
Parker, B.48
Pintilie, G.49
Pirone, R.50
Salama, J.J.51
Sgro, S.52
Shan, T.53
Shu, Y.54
Siew, J.55
Skinner, D.56
Snyder, K.57
Stasiuk, R.58
Strumpf, D.59
Tuekam, B.60
Tao, S.61
Wang, Z.62
White, M.63
Willis, R.64
Wolting, C.65
Wong, S.66
Wrong, A.67
Xin, C.68
Yao, R.69
Yates, B.70
Zhang, S.71
Zheng, K.72
Pawson, T.73
Ouellette, B.F.F.74
Hogue, C.W.V.75
more..
-
60
-
-
79955667824
-
The Biomolecular Interaction Network Database in PSI-MI 2.5
-
(Oxford)
-
Isserlin, R.; El-Badrawi, R. A.; Bader, G. D. The Biomolecular Interaction Network Database in PSI-MI 2.5. Database (Oxford), 2011, 2011, baq037.
-
(2011)
Database
, vol.2011
-
-
Isserlin, R.1
El-Badrawi, R.A.2
Bader, G.D.3
-
61
-
-
33846073818
-
MINT: The Molecular INTeraction database
-
DOI 10.1093/nar/gkl950
-
Chatr-Aryamontri, A.; Ceol, A.; Palazzi, L. M.; Nardelli, G.; Schneider, M. V.; Castagnoli, L.; Cesareni, G. MINT: The Molecular INTeraction database. Nucleic Acids Res., 2007, 35, D572-4. (Pubitemid 46056272)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.SUPPL.1
-
-
Chatr-Aryamontri, A.1
Ceol, A.2
Palazzi, L.M.3
Nardelli, G.4
Schneider, M.V.5
Castagnoli, L.6
Cesareni, G.7
-
62
-
-
84859204939
-
The IntAct molecular interaction database in 2012
-
Kerrien, S.; Aranda, B.; Breuza, L.; Bridge, A.; Broackes-Carter, F.; Chen, C.; Duesbury, M.; Dumousseau, M.; Feuermann, M.; Hinz, U.; Jandrasits, C.; Jimenez, R. C.; Khadake, J.; Mahadevan, U.; Masson, P.; Pedruzzi, I.; Pfeiffenberger, E.; Porras, P.; Raghunath, A.; Roechert, B.; Orchard, S.; Hermjakob, H. The IntAct molecular interaction database in 2012. Nucleic Acids Res., 2012, 40, D841-6.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Kerrien, S.1
Aranda, B.2
Breuza, L.3
Bridge, A.4
Broackes-Carter, F.5
Chen, C.6
Duesbury, M.7
Dumousseau, M.8
Feuermann, M.9
Hinz, U.10
Jandrasits, C.11
Jimenez, R.C.12
Khadake, J.13
Mahadevan, U.14
Masson, P.15
Pedruzzi, I.16
Pfeiffenberger, E.17
Porras, P.18
Raghunath, A.19
Roechert, B.20
Orchard, S.21
Hermjakob, H.22
more..
-
63
-
-
38549173606
-
The BioGRID interaction Database: 2008 update
-
DOI 10.1093/nar/gkm1001
-
Breitkreutz, B. J.; Stark, C.; Reguly, T.; Boucher, L.; Breitkreutz, A.; Livstone, M.; Oughtred, R.; Lackner, D. H.; Bahler, J.; Wood, V.; Dolinski, K.; Tyers, M. The BioGRID Interaction Database: 2008 update. Nucleic Acids Res., 2008, 36, D637-40. (Pubitemid 351149798)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.SUPPL. 1
-
-
Breitkreutz, B.-J.1
Stark, C.2
Reguly, T.3
Boucher, L.4
Breitkreutz, A.5
Livstone, M.6
Oughtred, R.7
Lackner, D.H.8
Bahler, J.9
Wood, V.10
Dolinski, K.11
Tyers, M.12
-
64
-
-
58149193222
-
Human Protein Reference Database-2009 update
-
Keshava Prasad, T. S.; Goel, R.; Kandasamy, K.; Keerthikumar, S.; Kumar, S.; Mathivanan, S.; Telikicherla, D.; Raju, R.; Shafreen, B.; Venugopal, A.; Balakrishnan, L.; Marimuthu, A.; Banerjee, S.; Somanathan, D. S.; Sebastian, A.; Rani, S.; Ray, S.; Harrys Kishore, C. J.; Kanth, S.; Ahmed, M.; Kashyap, M. K.; Mohmood, R.; Ramachandra, Y. L.; Krishna, V.; Rahiman, B. A.; Mohan, S.; Ranganathan, P.; Ramabadran, S.; Chaerkady, R.; Pandey, A. Human Protein Reference Database-2009 update. Nucleic Acids Res., 2009, 37, D767-72.
-
(2009)
Nucleic Acids Res.
, vol.37
-
-
Keshava Prasad, T.S.1
Goel, R.2
Kandasamy, K.3
Keerthikumar, S.4
Kumar, S.5
Mathivanan, S.6
Telikicherla, D.7
Raju, R.8
Shafreen, B.9
Venugopal, A.10
Balakrishnan, L.11
Marimuthu, A.12
Banerjee, S.13
Somanathan, D.S.14
Sebastian, A.15
Rani, S.16
Ray, S.17
Harrys Kishore, C.J.18
Kanth, S.19
Ahmed, M.20
Kashyap, M.K.21
Mohmood, R.22
Ramachandra, Y.L.23
Krishna, V.24
Rahiman, B.A.25
Mohan, S.26
Ranganathan, P.27
Ramabadran, S.28
Chaerkady, R.29
Pandey, A.30
more..
-
65
-
-
84876515907
-
STRING v9.1: Protein-Protein interaction networks, with increased coverage and integration
-
Franceschini, A.; Szklarczyk, D.; Frankild, S.; Kuhn, M.; Simonovic, M.; Roth, A.; Lin, J.; Minguez, P.; Bork, P.; von Mering, C.; Jensen, L. J. STRING v9.1: protein-Protein interaction networks, with increased coverage and integration. Nucleic Acids Res., 2013, 41, D808-15.
-
(2013)
Nucleic Acids Res.
, vol.41
-
-
Franceschini, A.1
Szklarczyk, D.2
Frankild, S.3
Kuhn, M.4
Simonovic, M.5
Roth, A.6
Lin, J.7
Minguez, P.8
Bork, P.9
Von Mering, C.10
Jensen, L.J.11
-
66
-
-
0041312697
-
Diversity of protein-Protein interactions
-
DOI 10.1093/emboj/cdg359
-
Nooren, I. M.; Thornton, J. M. Diversity of protein-Protein interactions. EMBO J., 2003, 22, 3486-92. (Pubitemid 36898326)
-
(2003)
EMBO Journal
, vol.22
, Issue.14
, pp. 3486-3492
-
-
Nooren, I.M.A.1
Thornton, J.M.2
-
67
-
-
78249241603
-
Types of interfaces for homodimer folding and binding
-
Karthikraja, V.; Suresh, A.; Lulu, S.; Kangueane, U.; Kangueane, P. Types of interfaces for homodimer folding and binding. Bioinformation, 2009, 4, 101-11.
-
(2009)
Bioinformation
, vol.4
, pp. 101-111
-
-
Karthikraja, V.1
Suresh, A.2
Lulu, S.3
Kangueane, U.4
Kangueane, P.5
-
68
-
-
78249257876
-
A decision tree model for the prediction of homodimer folding mechanism
-
Suresh, A.; Karthikraja, V.; Lulu, S.; Kangueane, U.; Kangueane, P. A decision tree model for the prediction of homodimer folding mechanism. Bioinformation, 2009, 4, 197-205.
-
(2009)
Bioinformation
, vol.4
, pp. 197-205
-
-
Suresh, A.1
Karthikraja, V.2
Lulu, S.3
Kangueane, U.4
Kangueane, P.5
-
69
-
-
0031565729
-
Analysis of protein-Protein interaction sites using surface patches
-
DOI 10.1006/jmbi.1997.1234
-
Jones, S.; Thornton, J. M. Analysis of protein-Protein interaction sites using surface patches. J. Mol. Biol., 1997, 272, 121-32. (Pubitemid 27395542)
-
(1997)
Journal of Molecular Biology
, vol.272
, Issue.1
, pp. 121-132
-
-
Jones, S.1
Thornton, J.M.2
-
70
-
-
70049085309
-
Protein subunit interfaces: Heterodimers versus homodimers
-
Zhanhua, C.; Gan, J. G.; Lei, L.; Sakharkar, M. K.; Kangueane, P. Protein subunit interfaces: Heterodimers versus homodimers. Bioinformation, 2005, 1, 28-39.
-
(2005)
Bioinformation
, vol.1
, pp. 28-39
-
-
Zhanhua, C.1
Gan, J.G.2
Lei, L.3
Sakharkar, M.K.4
Kangueane, P.5
-
71
-
-
79956221510
-
On the role of electrostatics in protein-Protein interactions
-
Zhang, Z.; Witham, S.; Alexov, E. On the role of electrostatics in protein-Protein interactions. Phys. Biol., 2011, 8, 035001.
-
(2011)
Phys. Biol.
, vol.8
, pp. 035001
-
-
Zhang, Z.1
Witham, S.2
Alexov, E.3
-
72
-
-
0037474541
-
Structural characterisation and functional significance of transient protein-Protein interactions
-
DOI 10.1016/S0022-2836(02)01281-0
-
Nooren, I. M.; Thornton, J. M. Structural characterisation and functional significance of transient protein-Protein interactions. J. Mol. Biol., 2003, 325, 991-1018. (Pubitemid 36263408)
-
(2003)
Journal of Molecular Biology
, vol.325
, Issue.5
, pp. 991-1018
-
-
Nooren, I.M.A.1
Thornton, J.M.2
-
73
-
-
85067775899
-
Predicting permanent and transient protein-Protein interfaces
-
La, D.; Kong, M.; Hoffman, W.; Choi, Y. I.; Kihara, D. Predicting permanent and transient protein-Protein interfaces. Proteins, 2012.
-
(2012)
Proteins
-
-
La, D.1
Kong, M.2
Hoffman, W.3
Choi, Y.I.4
Kihara, D.5
-
74
-
-
0037229456
-
Analysing six types of protein-Protein interfaces
-
DOI 10.1016/S0022-2836(02)01223-8
-
Ofran, Y.; Rost, B. Analysing six types of protein-Protein interfaces. J. Mol. Biol., 2003, 325, 377-87. (Pubitemid 36062695)
-
(2003)
Journal of Molecular Biology
, vol.325
, Issue.2
, pp. 377-387
-
-
Ofran, Y.1
Rost, B.2
-
75
-
-
65549107009
-
Progress and challenges in predicting protein-Protein interaction sites
-
Ezkurdia, I.; Bartoli, L.; Fariselli, P.; Casadio, R.; Valencia, A.; Tress, M. L. Progress and challenges in predicting protein-Protein interaction sites. Brief Bioinform., 2009, 10, 233-46.
-
(2009)
Brief Bioinform.
, vol.10
, pp. 233-246
-
-
Ezkurdia, I.1
Bartoli, L.2
Fariselli, P.3
Casadio, R.4
Valencia, A.5
Tress, M.L.6
-
76
-
-
77957771797
-
Transient protein-Protein interactions: Structural, functional, and network properties
-
Perkins, J. R.; Diboun, I.; Dessailly, B. H.; Lees, J. G.; Orengo, C. Transient protein-Protein interactions: Structural, functional, and network properties. Structure, 2010, 18, 1233-43.
-
(2010)
Structure
, vol.18
, pp. 1233-1243
-
-
Perkins, J.R.1
Diboun, I.2
Dessailly, B.H.3
Lees, J.G.4
Orengo, C.5
-
77
-
-
77957944014
-
Protein-Protein docking benchmark version 4.0
-
Hwang, H.; Vreven, T.; Janin, J.; Weng, Z. Protein-Protein docking benchmark version 4.0. Proteins, 2010, 78, 3111-4.
-
(2010)
Proteins
, vol.78
, pp. 3111-3114
-
-
Hwang, H.1
Vreven, T.2
Janin, J.3
Weng, Z.4
-
78
-
-
84859738249
-
Roles of residues in the interface of transient protein-Protein complexes before complexation
-
Swapna, L. S.; Bhaskara, R. M.; Sharma, J.; Srinivasan, N. Roles of residues in the interface of transient protein-Protein complexes before complexation. Sci. Rep., 2012, 2, 334.
-
(2012)
Sci. Rep.
, vol.2
, pp. 334
-
-
Swapna, L.S.1
Bhaskara, R.M.2
Sharma, J.3
Srinivasan, N.4
-
79
-
-
0034060520
-
Protein domain interfaces: Characterization and comparison with oligomeric protein interfaces
-
Jones, S.; Marin, A.; Thornton, J. M. Protein domain interfaces: Characterization and comparison with oligomeric protein interfaces. Protein Eng., 2000, 13, 77-82. (Pubitemid 30151037)
-
(2000)
Protein Engineering
, vol.13
, Issue.2
, pp. 77-82
-
-
Jones, S.1
Marin, A.2
Thornton, J.M.3
-
80
-
-
64849109745
-
Prediction of protein-Protein interaction types using association rule based classification
-
Park, S. H.; Reyes, J. A.; Gilbert, D. R.; Kim, J. W.; Kim, S. Prediction of protein-Protein interaction types using association rule based classification. BMC Bioinformatics, 2009, 10, 36.
-
(2009)
BMC Bioinformatics
, vol.10
, pp. 36
-
-
Park, S.H.1
Reyes, J.A.2
Gilbert, D.R.3
Kim, J.W.4
Kim, S.5
-
81
-
-
0016708122
-
Principles of protein-Protein recognition
-
Chothia, C.; Janin, J. Principles of protein-Protein recognition. Nature, 1975, 256, 705-8.
-
(1975)
Nature
, vol.256
, pp. 705-708
-
-
Chothia, C.1
Janin, J.2
-
82
-
-
0023193446
-
The accessible surface area and stability of oligomeric proteins
-
DOI 10.1038/328834a0
-
Miller, S.; Lesk, A. M.; Janin, J.; Chothia, C. The accessible surface area and stability of oligomeric proteins. Nature, 1987, 328, 834-6. (Pubitemid 17125965)
-
(1987)
Nature
, vol.328
, Issue.6133
, pp. 834-836
-
-
Miller, S.1
Lesk, A.M.2
Janin, J.3
Chothia, C.4
-
83
-
-
1842405464
-
Studies of protein-Protein interfaces: A statistical analysis of the hydrophobic effect
-
Tsai, C. J.; Lin, S. L.; Wolfson, H. J.; Nussinov, R. Studies of protein-protein interfaces: A statistical analysis of the hydrophobic effect. Protein Sci., 1997, 6, 53-64. (Pubitemid 27045243)
-
(1997)
Protein Science
, vol.6
, Issue.1
, pp. 53-64
-
-
Tsai, C.-J.1
Lin, S.L.2
Wolfson, H.J.3
Nussinov, R.4
-
84
-
-
33746276951
-
ProFace: A server for the analysis of the physicochemical features of protein-Protein interfaces
-
Saha, R. P.; Bahadur, R. P.; Pal, A.; Mandal, S.; Chakrabarti, P. ProFace: A server for the analysis of the physicochemical features of protein-Protein interfaces. BMC Struct. Biol., 2006, 6, 11.
-
(2006)
BMC Struct. Biol.
, vol.6
, pp. 11
-
-
Saha, R.P.1
Bahadur, R.P.2
Pal, A.3
Mandal, S.4
Chakrabarti, P.5
-
85
-
-
0346733329
-
Are protein-Protein interfaces more conserved in sequence than the rest of the protein surface?
-
DOI 10.1110/ps.03323604
-
Caffrey, D. R.; Somaroo, S.; Hughes, J. D.; Mintseris, J.; Huang, E. S. Are protein-Protein interfaces more conserved in sequence than the rest of the protein surface? Protein Sci., 2004, 13, 190-202. (Pubitemid 38021153)
-
(2004)
Protein Science
, vol.13
, Issue.1
, pp. 190-202
-
-
Caffrey, D.R.1
Somaroo, S.2
Hughes, J.D.3
Mintseris, J.4
Huang, E.S.5
-
86
-
-
0242299201
-
Dissecting subunit interfaces in homodimeric proteins
-
DOI 10.1002/prot.10461
-
Bahadur, R. P.; Chakrabarti, P.; Rodier, F.; Janin, J. Dissecting subunit interfaces in homodimeric proteins. Proteins, 2003, 53, 708-19. (Pubitemid 37352183)
-
(2003)
Proteins: Structure, Function and Genetics
, vol.53
, Issue.3
, pp. 708-719
-
-
Bahadur, R.P.1
Chakrabarti, P.2
Rodier, F.3
Janin, J.4
-
87
-
-
27344440132
-
Conservation and relative importance of residues across protein-Protein interfaces
-
DOI 10.1073/pnas.0505425102
-
Guharoy, M.; Chakrabarti, P. Conservation and relative importance of residues across protein-Protein interfaces. Proc. Natl. Acad. Sci. USA, 2005, 102, 15447-52. (Pubitemid 41528077)
-
(2005)
Proceedings of the National Academy of Sciences of the United States of America
, vol.102
, Issue.43
, pp. 15447-15452
-
-
Guharoy, M.1
Chakrabarti, P.2
-
88
-
-
33846662784
-
ISIS: Interaction sites identified from sequence
-
DOI 10.1093/bioinformatics/btl303
-
Ofran, Y.; Rost, B. ISIS: interaction sites identified from sequence. Bioinformatics, 2007, 23, e13-6. (Pubitemid 46189629)
-
(2007)
Bioinformatics
, vol.23
, Issue.2
-
-
Ofran, Y.1
Rost, B.2
-
89
-
-
0031450506
-
Hydrogen bonds and salt bridges across protein-Protein interfaces
-
Xu, D.; Tsai, C. J.; Nussinov, R. Hydrogen bonds and salt bridges across protein-Protein interfaces. Protein Eng., 1997, 10, 999-1012. (Pubitemid 28004646)
-
(1997)
Protein Engineering
, vol.10
, Issue.9
, pp. 999-1012
-
-
Xu, D.1
Tsai, C.-J.2
Nussinov, R.3
-
90
-
-
2942741128
-
Structure-Based method for analyzing protein-Protein interfaces
-
DOI 10.1007/s00894-003-0168-3
-
Gao, Y.; Wang, R.; Lai, L. Structure-Based method for analyzing protein-Protein interfaces. J. Mol. Model., 2004, 10, 44-54. (Pubitemid 38787175)
-
(2004)
Journal of Molecular Modeling
, vol.10
, Issue.1
, pp. 44-54
-
-
Gao, Y.1
Wang, R.2
Lai, L.3
-
91
-
-
33947523976
-
Peptide segments in protein-Protein interfaces
-
DOI 10.1007/s12038-007-0010-7
-
Pal, A.; Chakrabarti, P.; Bahadur, R.; Rodier, F.; Janin, J. Peptide segments in protein-Protein interfaces. J. Biosci., 2007, 32, 101-11. (Pubitemid 46465761)
-
(2007)
Journal of Biosciences
, vol.32
, Issue.1
, pp. 101-111
-
-
Pal, A.1
Chakrabarti, P.2
Bahadur, R.3
Rodier, F.4
Janin, J.5
-
92
-
-
77952686736
-
Conserved residue clusters at proteinprotein interfaces and their use in binding site identification
-
Guharoy, M.; Chakrabarti, P. Conserved residue clusters at proteinprotein interfaces and their use in binding site identification. BMC Bioinformatics, 2010, 11, 286.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 286
-
-
Guharoy, M.1
Chakrabarti, P.2
-
93
-
-
84875212699
-
Understanding protein-Protein interactions using local structural features
-
Planas-Iglesias, J.; Bonet, J.; Garcia-Garcia, J.; Marin-Lopez, M. A.; Feliu, E.; Oliva, B. Understanding protein-Protein interactions using local structural features. J. Mol. Biol., 2013, 425, 1210-24.
-
(2013)
J. Mol. Biol.
, vol.425
, pp. 1210-1224
-
-
Planas-Iglesias, J.1
Bonet, J.2
Garcia-Garcia, J.3
Marin-Lopez, M.A.4
Feliu, E.5
Oliva, B.6
-
94
-
-
80054029788
-
Sequence and structural features of binding site residues in proteinprotein complexes: Comparison with protein-Nucleic acid complexes
-
Gromiha, M. M.; Saranya, N.; Selvaraj, S.; Jayaram, B.; Fukui, K. Sequence and structural features of binding site residues in proteinprotein complexes: Comparison with protein-nucleic acid complexes. Proteome Sci., 2011, 9 Suppl 1, S13.
-
(2011)
Proteome Sci.
, vol.9
, Issue.SUPPL.1
-
-
Gromiha, M.M.1
Saranya, N.2
Selvaraj, S.3
Jayaram, B.4
Fukui, K.5
-
95
-
-
84871967106
-
Interactome3D: Adding structural details to protein networks
-
Mosca, R.; Ceol, A.; Aloy, P. Interactome3D: Adding structural details to protein networks. Nat. Methods, 2012, 10, 47-53.
-
(2012)
Nat. Methods
, vol.10
, pp. 47-53
-
-
Mosca, R.1
Ceol, A.2
Aloy, P.3
-
96
-
-
18744382508
-
PIBASE: A comprehensive database of structurally defined protein interfaces
-
DOI 10.1093/bioinformatics/bti277
-
Davis, F. P.; Sali, A. PIBASE: A comprehensive database of structurally defined protein interfaces. Bioinformatics, 2005, 21, 1901-7. (Pubitemid 40668025)
-
(2005)
Bioinformatics
, vol.21
, Issue.9
, pp. 1901-1907
-
-
Davis, F.P.1
Sali, A.2
-
97
-
-
0028961335
-
SCOP: A structural classification of proteins database for the investigation of sequences and structures
-
Murzin, A. G.; Brenner, S. E.; Hubbard, T.; Chothia, C. SCOP: A structural classification of proteins database for the investigation of sequences and structures. J. Mol. Biol., 1995, 247, 536-40.
-
(1995)
J. Mol. Biol.
, vol.247
, pp. 536-540
-
-
Murzin, A.G.1
Brenner, S.E.2
Hubbard, T.3
Chothia, C.4
-
99
-
-
33644876493
-
SCOPPI: A structural classification of protein-Protein interfaces
-
Winter, C.; Henschel, A.; Kim, W. K.; Schroeder, M. SCOPPI: A structural classification of protein-Protein interfaces. Nucleic Acids Res., 2006, 34, D310-4.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Winter, C.1
Henschel, A.2
Kim, W.K.3
Schroeder, M.4
-
100
-
-
13444257903
-
3did: Interacting protein domains of known three-Dimensional structure
-
DOI 10.1093/nar/gki037
-
Stein, A.; Russell, R. B.; Aloy, P. 3did: interacting protein domains of known three-Dimensional structure. Nucleic Acids Res., 2005, 33, D413-7. (Pubitemid 40207906)
-
(2005)
Nucleic Acids Research
, vol.33
, Issue.DATA. ISSUE
-
-
Stein, A.1
Russell, R.B.2
Aloy, P.3
-
101
-
-
25444491954
-
A protein domain interaction interface database: InterPare
-
Gong, S.; Park, C.; Choi, H.; Ko, J.; Jang, I.; Lee, J.; Bolser, D. M.; Oh, D.; Kim, D. S.; Bhak, J. A protein domain interaction interface database: InterPare. BMC Bioinformatics, 2005, 6, 207.
-
(2005)
BMC Bioinformatics
, vol.6
, pp. 207
-
-
Gong, S.1
Park, C.2
Choi, H.3
Ko, J.4
Jang, I.5
Lee, J.6
Bolser, D.M.7
Oh, D.8
Kim, D.S.9
Bhak, J.10
-
102
-
-
0035175679
-
PDBsum: Summaries and analyses of PDB structures
-
Laskowski, R. A. PDBsum: Summaries and analyses of PDB structures. Nucleic Acids Res., 2001, 29, 221-2. (Pubitemid 32054453)
-
(2001)
Nucleic Acids Research
, vol.29
, Issue.1
, pp. 221-222
-
-
Laskowski, R.A.1
-
104
-
-
9144257886
-
The Pfam protein families database
-
Bateman, A.; Coin, L.; Durbin, R.; Finn, R. D.; Hollich, V.; Griffiths-Jones, S.; Khanna, A.; Marshall, M.; Moxon, S.; Sonnhammer, E. L.; Studholme, D. J.; Yeats, C.; Eddy, S. R. The Pfam protein families database. Nucleic Acids Res., 2004, 32, D138-41. (Pubitemid 38081623)
-
(2004)
Nucleic Acids Research
, vol.32
, Issue.DATA. ISSUE
-
-
Bateman, A.1
Coin, L.2
Durbin, R.3
Finn, R.D.4
Hollich, V.5
Griffiths-Jones, S.6
Khanna, A.7
Marshall, M.8
Moxon, S.9
Sonnhammer, E.L.L.10
Studholme, D.J.11
Yeats, C.12
Eddy, S.R.13
-
105
-
-
0035166973
-
The InterPro database, an integrated documentation resource for protein families, domains and functional sites
-
Apweiler, R.; Attwood, T. K.; Bairoch, A.; Bateman, A.; Birney, E.; Biswas, M.; Bucher, P.; Cerutti, L.; Corpet, F.; Croning, M. D.; Durbin, R.; Falquet, L.; Fleischmann, W.; Gouzy, J.; Hermjakob, H.; Hulo, N.; Jonassen, I.; Kahn, D.; Kanapin, A.; Karavidopoulou, Y.; Lopez, R.; Marx, B.; Mulder, N. J.; Oinn, T. M.; Pagni, M.; Servant, F.; Sigrist, C. J.; Zdobnov, E. M. The InterPro database, an integrated documentation resource for protein families, domains and functional sites. Nucleic Acids Res., 2001, 29, 37-40. (Pubitemid 32054401)
-
(2001)
Nucleic Acids Research
, vol.29
, Issue.1
, pp. 37-40
-
-
Apweiler, R.1
Attwood, T.K.2
Bairoch, A.3
Bateman, A.4
Birney, E.5
Biswas, M.6
Bucher, P.7
Cerutti, L.8
Corpet, F.9
Croning, M.D.R.10
Durbin, R.11
Falquet, L.12
Fleischmann, W.13
Gouzy, J.14
Hermjakob, H.15
Hulo, N.16
Jonassen, I.17
Kahn, D.18
Kanapin, A.19
Karavidopoulou, Y.20
Lopez, R.21
Marx, B.22
Mulder, N.J.23
Oinn, T.M.24
Pagni, M.25
Servant, F.26
Sigrist, C.J.A.27
Zdobnov, E.M.28
more..
-
106
-
-
33846116032
-
New developments in the InterPro database
-
DOI 10.1093/nar/gkl841
-
Mulder, N. J.; Apweiler, R.; Attwood, T. K.; Bairoch, A.; Bateman, A.; Binns, D.; Bork, P.; Buillard, V.; Cerutti, L.; Copley, R.; Courcelle, E.; Das, U.; Daugherty, L.; Dibley, M.; Finn, R.; Fleischmann, W.; Gough, J.; Haft, D.; Hulo, N.; Hunter, S.; Kahn, D.; Kanapin, A.; Kejariwal, A.; Labarga, A.; Langendijk-Genevaux, P. S.; Lonsdale, D.; Lopez, R.; Letunic, I.; Madera, M.; Maslen, J.; McAnulla, C.; McDowall, J.; Mistry, J.; Mitchell, A.; Nikolskaya, A. N.; Orchard, S.; Orengo, C.; Petryszak, R.; Selengut, J. D.; Sigrist, C. J.; Thomas, P. D.; Valentin, F.; Wilson, D.; Wu, C. H.; Yeats, C. New developments in the InterPro database. Nucleic Acids Res., 2007, 35, D224-8. (Pubitemid 46056203)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.SUPPL. 1
-
-
Mulder, N.J.1
Apweiler, R.2
Attwood, T.K.3
Bairoch, A.4
Bateman, A.5
Binns, D.6
Bork, P.7
Buillard, V.8
Cerutti, L.9
Copley, R.10
Courcelle, E.11
Das, U.12
Daugherty, L.13
Dibley, M.14
Finn, R.15
Fleischmann, W.16
Gough, J.17
Haft, D.18
Hulo, N.19
Hunter, S.20
Kahn, D.21
Kanapin, A.22
Kejariwal, A.23
Labarga, A.24
Langendijk-Genevaux, P.S.25
Lonsdale, D.26
Lopez, R.27
Letunic, I.28
Madera, M.29
Maslen, J.30
McAnulla, C.31
McDowall, J.32
Mistry, J.33
Mitchell, A.34
Nikolskaya, A.N.35
Orchard, S.36
Orengo, C.37
Petryszak, R.38
Selengut, J.D.39
Sigrist, C.J.A.40
Thomas, P.D.41
Valentin, F.42
Wilson, D.43
Wu, C.H.44
Yeats, C.45
more..
-
107
-
-
33846077881
-
PROTCOM: Searchable database of protein complexes enhanced with domain-Domain structures
-
DOI 10.1093/nar/gkl768
-
Kundrotas, P. J.; Alexov, E. PROTCOM: Searchable database of protein complexes enhanced with domain-Domain structures. Nucleic Acids Res., 2007, 35, D575-9. (Pubitemid 46056273)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.SUPPL.1
-
-
Kundrotas, P.J.1
Alexov, E.2
-
108
-
-
33646553913
-
SCOWLP: A web-Based database for detailed characterization and visualization of protein interfaces
-
Teyra, J.; Doms, A.; Schroeder, M.; Pisabarro, M. T. SCOWLP: A web-Based database for detailed characterization and visualization of protein interfaces. BMC Bioinformatics, 2006, 7, 104.
-
(2006)
BMC Bioinformatics
, vol.7
, pp. 104
-
-
Teyra, J.1
Doms, A.2
Schroeder, M.3
Pisabarro, M.T.4
-
109
-
-
0037250158
-
InterPreTS: Protein Interaction Prediction through Tertiary Structure
-
DOI 10.1093/bioinformatics/19.1.161
-
Aloy, P.; Russell, R. B. InterPreTS: protein interaction prediction through tertiary structure. Bioinformatics, 2003, 19, 161-2. (Pubitemid 36150198)
-
(2003)
Bioinformatics
, vol.19
, Issue.1
, pp. 161-162
-
-
Aloy, P.1
Russell, R.B.2
-
110
-
-
33644874394
-
MODBASE: A database of annotated comparative protein structure models and associated resources
-
Pieper, U.; Eswar, N.; Davis, F. P.; Braberg, H.; Madhusudhan, M. S.; Rossi, A.; Marti-Renom, M.; Karchin, R.; Webb, B. M.; Eramian, D.; Shen, M. Y.; Kelly, L.; Melo, F.; Sali, A. MODBASE: A database of annotated comparative protein structure models and associated resources. Nucleic Acids Res., 2006, 34, D291-5.
-
(2006)
Nucleic Acids Res.
, vol.34
-
-
Pieper, U.1
Eswar, N.2
Davis, F.P.3
Braberg, H.4
Madhusudhan, M.S.5
Rossi, A.6
Marti-Renom, M.7
Karchin, R.8
Webb, B.M.9
Eramian, D.10
Shen, M.Y.11
Kelly, L.12
Melo, F.13
Sali, A.14
-
111
-
-
33846200437
-
Prediction-Based fingerprints of proteinprotein interactions
-
Porollo, A.; Meller, J. Prediction-Based fingerprints of proteinprotein interactions. Proteins, 2007, 66, 630-45.
-
(2007)
Proteins
, vol.66
, pp. 630-645
-
-
Porollo, A.1
Meller, J.2
-
112
-
-
24344484686
-
Prediction of interface residues in protein-Protein complexes by a consensus neural network method: Test against NMR data
-
DOI 10.1002/prot.20514
-
Chen, H.; Zhou, H. X. Prediction of interface residues in proteinprotein complexes by a consensus neural network method: Test against NMR data. Proteins, 2005, 61, 21-35. (Pubitemid 41262914)
-
(2005)
Proteins: Structure, Function and Genetics
, vol.61
, Issue.1
, pp. 21-35
-
-
Chen, H.1
Zhou, H.-X.2
-
113
-
-
34548751368
-
Meta-PPISP: A meta web server for protein-Protein interaction site prediction
-
DOI 10.1093/bioinformatics/btm434
-
Qin, S.; Zhou, H. X. meta-PPISP: A meta web server for proteinprotein interaction site prediction. Bioinformatics, 2007, 23, 3386-7. (Pubitemid 350238893)
-
(2007)
Bioinformatics
, vol.23
, Issue.24
, pp. 3386-3387
-
-
Qin, S.1
Zhou, H.-X.2
-
114
-
-
34547597799
-
PI2PE: Protein interface/interior prediction engine
-
Tjong, H.; Qin, S.; Zhou, H. X. PI2PE: protein interface/interior prediction engine. Nucleic Acids Res., 2007, 35, W357-62.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 357-362
-
-
Tjong, H.1
Qin, S.2
Zhou, H.X.3
-
115
-
-
84855229636
-
PIC: Protein interactions calculator
-
Tina, K. G.; Bhadra, R.; Srinivasan, N. PIC: Protein Interactions Calculator. Nucleic Acids Res., 2007, 35, W473-6.
-
(2007)
Nucleic Acids Res.
, vol.35
, pp. 473-476
-
-
Tina, K.G.1
Bhadra, R.2
Srinivasan, N.3
-
116
-
-
0028922586
-
LIGPLOT: A program to generate schematic diagrams of protein-Ligand interactions
-
Wallace, A. C.; Laskowski, R. A.; Thornton, J. M. LIGPLOT: A program to generate schematic diagrams of protein-Ligand interactions. Protein Eng., 1995, 8, 127-34.
-
(1995)
Protein Eng.
, vol.8
, pp. 127-134
-
-
Wallace, A.C.1
Laskowski, R.A.2
Thornton, J.M.3
-
117
-
-
0033976585
-
ProTherm, version 2.0: Thermodynamic database for proteins and mutants
-
Gromiha, M. M.; An, J.; Kono, H.; Oobatake, M.; Uedaira, H.; Prabakaran, P.; Sarai, A. ProTherm, version 2.0: Thermodynamic database for proteins and mutants. Nucleic Acids Res., 2000, 28, 283-5. (Pubitemid 30047780)
-
(2000)
Nucleic Acids Research
, vol.28
, Issue.1
, pp. 283-285
-
-
Gromiha, M.M.1
An, J.2
Kono, H.3
Oobatake, M.4
Uedaira, H.5
Prabakaran, P.6
Sarai, A.7
-
118
-
-
17444372787
-
Improved prediction of protein-Protein binding sites using a support vector machines approach
-
DOI 10.1093/bioinformatics/bti242
-
Bradford, J. R.; Westhead, D. R. Improved prediction of proteinprotein binding sites using a support vector machines approach. Bioinformatics, 2005, 21, 1487-94. (Pubitemid 40542704)
-
(2005)
Bioinformatics
, vol.21
, Issue.8
, pp. 1487-1494
-
-
Bradford, J.R.1
Westhead, D.R.2
-
119
-
-
38649087636
-
Spatial chemical conservation of hot spot interactions in proteinprotein complexes
-
Shulman-Peleg, A.; Shatsky, M.; Nussinov, R.; Wolfson, H. J. Spatial chemical conservation of hot spot interactions in proteinprotein complexes. BMC Biol., 2007, 5, 43.
-
(2007)
BMC Biol.
, vol.5
, pp. 43
-
-
Shulman-Peleg, A.1
Shatsky, M.2
Nussinov, R.3
Wolfson, H.J.4
-
120
-
-
33646044395
-
WHISCY: What information does surface conservation yield? Application to datadriven docking
-
de Vries, S. J.; van Dijk, A. D.; Bonvin, A. M. WHISCY: what information does surface conservation yield? Application to datadriven docking. Proteins, 2006, 63, 479-89.
-
(2006)
Proteins
, vol.63
, pp. 479-489
-
-
De Vries, S.J.1
Van Dijk, A.D.2
Bonvin, A.M.3
-
121
-
-
33846052595
-
SNAPPI-DB: A database and API of structures, iNterfaces and Alignments for Protein-Protein Interactions
-
DOI 10.1093/nar/gkl836
-
Jefferson, E. R.; Walsh, T. P.; Roberts, T. J.; Barton, G. J. SNAPPI-DB: A database and API of Structures, iNterfaces and Alignments for Protein-Protein Interactions. Nucleic Acids Res., 2007, 35, D580-9. (Pubitemid 46056274)
-
(2007)
Nucleic Acids Research
, vol.35
, Issue.SUPPL.1
-
-
Jefferson, E.R.1
Walsh, T.P.2
Roberts, T.J.3
Barton, G.J.4
-
122
-
-
84864419151
-
PepSite: Prediction of peptide-Binding sites from protein surfaces
-
Trabuco, L. G.; Lise, S.; Petsalaki, E.; Russell, R. B. PepSite: prediction of peptide-Binding sites from protein surfaces. Nucleic Acids Res., 2012, 40, W423-7.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Trabuco, L.G.1
Lise, S.2
Petsalaki, E.3
Russell, R.B.4
-
123
-
-
84858175431
-
Predicting protein-Protein interface residues using local surface structural similarity
-
Jordan, R. A.; El-Manzalawy, Y.; Dobbs, D.; Honavar, V. Predicting protein-Protein interface residues using local surface structural similarity. BMC Bioinformatics, 2012, 13, 41.
-
(2012)
BMC Bioinformatics
, vol.13
, pp. 41
-
-
Jordan, R.A.1
El-Manzalawy, Y.2
Dobbs, D.3
Honavar, V.4
-
124
-
-
84870318670
-
Wiki-Pi: A web-Server of annotated human protein-Protein interactions to aid in discovery of protein function
-
Orii, N.; Ganapathiraju, M. K. Wiki-Pi: A web-server of annotated human protein-Protein interactions to aid in discovery of protein function. PLoS One, 2012, 7, e49029.
-
(2012)
PLoS One
, vol.7
-
-
Orii, N.1
Ganapathiraju, M.K.2
-
125
-
-
0035066602
-
ASEdb: A database of alanine mutations and their effects on the free energy of binding in protein interactions
-
Thorn, K. S.; Bogan, A. A. ASEdb: A database of alanine mutations and their effects on the free energy of binding in protein interactions. Bioinformatics, 2001, 17, 284-5. (Pubitemid 32288219)
-
(2001)
Bioinformatics
, vol.17
, Issue.3
, pp. 284-285
-
-
Thorn, K.S.1
Bogan, A.A.2
-
126
-
-
0042594456
-
The binding inteference database (BID): A compilation of amino acid hot spots in protein interfaces
-
DOI 10.1093/bioinformatics/btg163
-
Fischer, T. B.; Arunachalam, K. V.; Bailey, D.; Mangual, V.; Bakhru, S.; Russo, R.; Huang, D.; Paczkowski, M.; Lalchandani, V.; Ramachandra, C.; Ellison, B.; Galer, S.; Shapley, J.; Fuentes, E.; Tsai, J. The binding interface database (BID): A compilation of amino acid hot spots in protein interfaces. Bioinformatics, 2003, 19, 1453-4. (Pubitemid 36939831)
-
(2003)
Bioinformatics
, vol.19
, Issue.11
, pp. 1453-1454
-
-
Fischer, T.B.1
Arunachalam, K.V.2
Bailey, D.3
Mangual, V.4
Barkhru, S.5
Russo, R.6
Huang, D.7
Paczkowski, M.8
Lalchandani, V.9
Ramachandra, C.10
Ellison, B.11
Galer, S.12
Shapley, J.13
Fuentes, E.14
Tsai, J.15
-
127
-
-
48449100887
-
KFC Server: Interactive forecasting of protein interaction hot spots
-
Darnell, S. J.; LeGault, L.; Mitchell, J. C. KFC Server: interactive forecasting of protein interaction hot spots. Nucleic Acids Res., 2008, 36, W265-9.
-
(2008)
Nucleic Acids Res.
, vol.36
-
-
Darnell, S.J.1
Legault, L.2
Mitchell, J.C.3
-
128
-
-
38549092067
-
HotSprint: Database of computational hot spots in protein interfaces
-
DOI 10.1093/nar/gkm813
-
Guney, E.; Tuncbag, N.; Keskin, O.; Gursoy, A. HotSprint: database of computational hot spots in protein interfaces. Nucleic Acids Res., 2008, 36, D662-6. (Pubitemid 351149803)
-
(2008)
Nucleic Acids Research
, vol.36
, Issue.SUPPL.1
-
-
Guney, E.1
Tuncbag, N.2
Keskin, O.3
Gursoy, A.4
-
129
-
-
77954294794
-
HotPoint: Hot spot prediction server for protein interfaces
-
Tuncbag, N.; Keskin, O.; Gursoy, A. HotPoint: Hot spot prediction server for protein interfaces. Nucleic Acids Res., 2010, 38, W402-6.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Tuncbag, N.1
Keskin, O.2
Gursoy, A.3
-
130
-
-
77950651626
-
APIS: Accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility
-
Xia, J. F.; Zhao, X. M.; Song, J.; Huang, D. S. APIS: Accurate prediction of hot spots in protein interfaces by combining protrusion index with solvent accessibility. BMC Bioinformatics, 2010, 11, 174.
-
(2010)
BMC Bioinformatics
, vol.11
, pp. 174
-
-
Xia, J.F.1
Zhao, X.M.2
Song, J.3
Huang, D.S.4
-
131
-
-
77951273638
-
PCRPi: Presaging Critical Residues in Protein interfaces, a new computational tool to chart hot spots in protein interfaces
-
Assi, S. A.; Tanaka, T.; Rabbitts, T. H.; Fernandez-Fuentes, N. PCRPi: Presaging Critical Residues in Protein interfaces, a new computational tool to chart hot spots in protein interfaces. Nucleic Acids Res., 2010, 38, e86.
-
(2010)
Nucleic Acids Res.
, vol.38
-
-
Assi, S.A.1
Tanaka, T.2
Rabbitts, T.H.3
Fernandez-Fuentes, N.4
-
132
-
-
84861036418
-
HotRegion: A database of predicted hot spot clusters
-
Cukuroglu, E.; Gursoy, A.; Keskin, O. HotRegion: A database of predicted hot spot clusters. Nucleic Acids Res., 2012, 40, D829-33.
-
(2012)
Nucleic Acids Res.
, vol.40
-
-
Cukuroglu, E.1
Gursoy, A.2
Keskin, O.3
-
133
-
-
79959269001
-
DBAC: A simple prediction method for protein binding hot spots based on burial levels and deeply buried atomic contacts
-
Li, Z.; Wong, L.; Li, J. DBAC: A simple prediction method for protein binding hot spots based on burial levels and deeply buried atomic contacts. BMC Syst. Biol., 2011, 5 Suppl 1, S5.
-
(2011)
BMC Syst. Biol.
, vol.5
, Issue.SUPPL.1
-
-
Li, Z.1
Wong, L.2
Li, J.3
-
134
-
-
84863243858
-
Computational prediction of protein hot spot residues
-
Morrow, J. K.; Zhang, S. Computational prediction of protein hot spot residues. Curr. Pharm. Des., 2012, 18, 1255-65.
-
(2012)
Curr. Pharm. Des.
, vol.18
, pp. 1255-1265
-
-
Morrow, J.K.1
Zhang, S.2
-
135
-
-
0038359614
-
CAPRI: A critical assessment of PRedicted interactions
-
DOI 10.1002/prot.10381
-
Janin, J.; Henrick, K.; Moult, J.; Eyck, L. T.; Sternberg, M. J.; Vajda, S.; Vakser, I.; Wodak, S. J. CAPRI: A Critical Assessment of PRedicted Interactions. Proteins, 2003, 52, 2-9. (Pubitemid 36648842)
-
(2003)
Proteins: Structure, Function and Genetics
, vol.52
, Issue.1
, pp. 2-9
-
-
Janin, J.1
Henrick, K.2
Moult, J.3
Eyck, L.T.4
Sternberg, M.J.E.5
Vajda, S.6
Vakser, I.7
Wodak, S.J.8
-
136
-
-
13244262600
-
Assessing predictions of protein-Protein interaction: The CAPRI experiment
-
DOI 10.1110/ps.041081905
-
Janin, J. Assessing predictions of protein-Protein interaction: The CAPRI experiment. Protein Sci., 2005, 14, 278-83. (Pubitemid 40194579)
-
(2005)
Protein Science
, vol.14
, Issue.2
, pp. 278-283
-
-
Janin, J.1
-
137
-
-
80054899738
-
Community-Wide assessment of protein-interface modeling suggests improvements to design methodology
-
Fleishman, S. J.; Whitehead, T. A.; Strauch, E. M.; Corn, J. E.; Qin, S.; Zhou, H. X.; Mitchell, J. C.; Demerdash, O. N.; Takeda-Shitaka, M.; Terashi, G.; Moal, I. H.; Li, X.; Bates, P. A.; Zacharias, M.; Park, H.; Ko, J. S.; Lee, H.; Seok, C.; Bourquard, T.; Bernauer, J.; Poupon, A.; Aze, J.; Soner, S.; Ovali, S. K.; Ozbek, P.; Tal, N. B.; Haliloglu, T.; Hwang, H.; Vreven, T.; Pierce, B. G.; Weng, Z.; Perez-Cano, L.; Pons, C.; Fernandez-Recio, J.; Jiang, F.; Yang, F.; Gong, X.; Cao, L.; Xu, X.; Liu, B.; Wang, P.; Li, C.; Wang, C.; Robert, C. H.; Guharoy, M.; Liu, S.; Huang, Y.; Li, L.; Guo, D.; Chen, Y.; Xiao, Y.; London, N.; Itzhaki, Z.; Schueler-Furman, O.; Inbar, Y.; Potapov, V.; Cohen, M.; Schreiber, G.; Tsuchiya, Y.; Kanamori, E.; Standley, D. M.; Nakamura, H.; Kinoshita, K.; Driggers, C. M.; Hall, R. G.; Morgan, J. L.; Hsu, V. L.; Zhan, J.; Yang, Y.; Zhou, Y.; Kastritis, P. L.; Bonvin, A. M.; Zhang, W.; Camacho, C. J.; Kilambi, K. P.; Sircar, A.; Gray, J. J.; Ohue, M.; Uchikoga, N.; Matsuzaki, Y.; Ishida, T.; Akiyama, Y.; Khashan, R.; Bush, S.; Fouches, D.; Tropsha, A.; Esquivel-Rodriguez, J.; Kihara, D.; Stranges, P. B.; Jacak, R.; Kuhlman, B.; Huang, S. Y.; Zou, X.; Wodak, S. J.; Janin, J.; Baker, D. Community-wide assessment of protein-interface modeling suggests improvements to design methodology. J. Mol. Biol., 2011, 414, 289-302.
-
(2011)
J. Mol. Biol.
, vol.414
, pp. 289-302
-
-
Fleishman, S.J.1
Whitehead, T.A.2
Strauch, E.M.3
Corn, J.E.4
Qin, S.5
Zhou, H.X.6
Mitchell, J.C.7
Demerdash, O.N.8
Takeda-Shitaka, M.9
Terashi, G.10
Moal, I.H.11
Li, X.12
Bates, P.A.13
Zacharias, M.14
Park, H.15
Ko, J.S.16
Lee, H.17
Seok, C.18
Bourquard, T.19
Bernauer, J.20
Poupon, A.21
Aze, J.22
Soner, S.23
Ovali, S.K.24
Ozbek, P.25
Tal, N.B.26
Haliloglu, T.27
Hwang, H.28
Vreven, T.29
Pierce, B.G.30
Weng, Z.31
Perez-Cano, L.32
Pons, C.33
Fernandez-Recio, J.34
Jiang, F.35
Yang, F.36
Gong, X.37
Cao, L.38
Xu, X.39
Liu, B.40
Wang, P.41
Li, C.42
Wang, C.43
Robert, C.H.44
Guharoy, M.45
Liu, S.46
Huang, Y.47
Li, L.48
Guo, D.49
Chen, Y.50
Xiao, Y.51
London, N.52
Itzhaki, Z.53
Schueler-Furman, O.54
Inbar, Y.55
Potapov, V.56
Cohen, M.57
Schreiber, G.58
Tsuchiya, Y.59
Kanamori, E.60
Standley, D.M.61
Nakamura, H.62
Kinoshita, K.63
Driggers, C.M.64
Hall, R.G.65
Morgan, J.L.66
Hsu, V.L.67
Zhan, J.68
Yang, Y.69
Zhou, Y.70
Kastritis, P.L.71
Bonvin, A.M.72
Zhang, W.73
Camacho, C.J.74
Kilambi, K.P.75
Sircar, A.76
Gray, J.J.77
Ohue, M.78
Uchikoga, N.79
Matsuzaki, Y.80
Ishida, T.81
Akiyama, Y.82
Khashan, R.83
Bush, S.84
Fouches, D.85
Tropsha, A.86
Esquivel-Rodriguez, J.87
Kihara, D.88
Stranges, P.B.89
Jacak, R.90
Kuhlman, B.91
Huang, S.Y.92
Zou, X.93
Wodak, S.J.94
Janin, J.95
Baker, D.96
more..
-
138
-
-
0009845923
-
Role of subunit interfaces in the allosteric mechanism of hemoglobin
-
Chothia, C.; Wodak, S.; Janin, J. Role of subunit interfaces in the allosteric mechanism of hemoglobin. Proc. Natl. Acad. Sci. USA, 1976, 73, 3793-7.
-
(1976)
Proc. Natl. Acad. Sci. USA
, vol.73
, pp. 3793-3797
-
-
Chothia, C.1
Wodak, S.2
Janin, J.3
-
139
-
-
0030877077
-
Extent and nature of contacts between protein molecules in crystal lattices and between subunits of protein oligomers
-
DOI 10.1002/(SICI) 1097-0134 (199708)28:4<494:: AID-PROT4> 3.0.CO;2-A
-
Dasgupta, S.; Iyer, G. H.; Bryant, S. H.; Lawrence, C. E.; Bell, J. A. Extent and nature of contacts between protein molecules in crystal lattices and between subunits of protein oligomers. Proteins, 1997, 28, 494-514. (Pubitemid 27328566)
-
(1997)
Proteins: Structure, Function and Genetics
, vol.28
, Issue.4
, pp. 494-514
-
-
Dasgupta, S.1
Iyer, G.H.2
Bryant, S.H.3
Lawrence, C.E.4
Bell, J.A.5
-
140
-
-
0030997363
-
Hydrophobic patches on protein subunit interfaces: Characteristics and prediction
-
DOI 10.1002/(SICI)1097-0134(199707)28:3<333::AID-PROT4>3.0.CO;2-D
-
Lijnzaad, P.; Argos, P. Hydrophobic patches on protein subunit interfaces: Characteristics and prediction. Proteins, 1997, 28, 333-43. (Pubitemid 27280338)
-
(1997)
Proteins: Structure, Function and Genetics
, vol.28
, Issue.3
, pp. 333-343
-
-
Lijnzaad, P.1
Argos, P.2
-
141
-
-
0036093538
-
Analysis of homodimeric protein interfaces by graph-spectral methods
-
Brinda, K. V.; Kannan, N.; Vishveshwara, S. Analysis of homodimeric protein interfaces by graph-spectral methods. Protein Eng., 2002, 15, 265-77. (Pubitemid 34532765)
-
(2002)
Protein Engineering
, vol.15
, Issue.4
, pp. 265-277
-
-
Brinda, K.V.1
Kannan, N.2
Vishveshwara, S.3
-
142
-
-
1042275583
-
A dissection of specific and non-Specific protein-Protein interfaces
-
Bahadur, R. P.; Chakrabarti, P.; Rodier, F.; Janin, J. A dissection of specific and non-specific protein-Protein interfaces. J. Mol. Biol., 2004, 336, 943-55.
-
(2004)
J. Mol. Biol.
, vol.336
, pp. 943-955
-
-
Bahadur, R.P.1
Chakrabarti, P.2
Rodier, F.3
Janin, J.4
-
143
-
-
72949113228
-
Energy based approach for understanding the recognition mechanism in protein-Protein complexes
-
Gromiha, M. M.; Yokota, K.; Fukui, K. Energy based approach for understanding the recognition mechanism in protein-Protein complexes. Mol. Biosyst., 2009, 5, 1779-86.
-
(2009)
Mol. Biosyst.
, vol.5
, pp. 1779-1786
-
-
Gromiha, M.M.1
Yokota, K.2
Fukui, K.3
-
144
-
-
84878306995
-
Protein-Protein interactions: General trends in the relationship between binding affinity and interfacial buried surface area
-
Chen, J.; Sawyer, N.; Regan, L. Protein-Protein interactions: General trends in the relationship between binding affinity and interfacial buried surface area. Protein Sci., 2013, 22, 510-5
-
(2013)
Protein Sci.
, vol.22
, pp. 510-515
-
-
Chen, J.1
Sawyer, N.2
Regan, L.3
|