-
2
-
-
15644379801
-
Recognition of unique carboxyl-terminal motifs by distinct PDZ domains
-
Z. Songyang, A.S. Fanning, C. Fu, J. Xu, S.M. Marfatia, and A.H. Chishti Recognition of unique carboxyl-terminal motifs by distinct PDZ domains Science 275 1997 73 77
-
(1997)
Science
, vol.275
, pp. 73-77
-
-
Songyang, Z.1
Fanning, A.S.2
Fu, C.3
Xu, J.4
Marfatia, S.M.5
Chishti, A.H.6
-
3
-
-
54749086397
-
A specificity map for the PDZ domain family
-
R. Tonikian, Y. Zhang, S.L. Sazinsky, B. Currell, J.-H. Yeh, and B. Reva A specificity map for the PDZ domain family PLoS Biol 6 2008 e239
-
(2008)
PLoS Biol
, vol.6
, pp. 239
-
-
Tonikian, R.1
Zhang, Y.2
Sazinsky, S.L.3
Currell, B.4
Yeh, J.-H.5
Reva, B.6
-
4
-
-
33746861956
-
Comparative structural analysis of the Erbin PDZ domain and the first PDZ domain of ZO-1. Insights into determinants of PDZ domain specificity
-
B.A. Appleton, Y. Zhang, P. Wu, J.P. Yin, W. Hunziker, and N.J. Skelton Comparative structural analysis of the Erbin PDZ domain and the first PDZ domain of ZO-1. Insights into determinants of PDZ domain specificity J Biol Chem 281 2006 22312 22320
-
(2006)
J Biol Chem
, vol.281
, pp. 22312-22320
-
-
Appleton, B.A.1
Zhang, Y.2
Wu, P.3
Yin, J.P.4
Hunziker, W.5
Skelton, N.J.6
-
5
-
-
77956544553
-
Coevolution of PDZ domain-ligand interactions analyzed by high-throughput phage display and deep sequencing
-
A. Ernst, D. Gfeller, Z. Kan, S. Seshagiri, P.M. Kim, and G.D. Bader Coevolution of PDZ domain-ligand interactions analyzed by high-throughput phage display and deep sequencing Mol Biosyst 6 2010 1782 1790
-
(2010)
Mol Biosyst
, vol.6
, pp. 1782-1790
-
-
Ernst, A.1
Gfeller, D.2
Kan, Z.3
Seshagiri, S.4
Kim, P.M.5
Bader, G.D.6
-
6
-
-
77949772254
-
Rapid evolution of functional complexity in a domain family
-
A. Ernst, S.L. Sazinsky, S. Hui, B. Currell, M. Dharsee, and S. Seshagiri Rapid evolution of functional complexity in a domain family Sci Signaling 2 2009 ra50
-
(2009)
Sci Signaling
, vol.2
, pp. 50
-
-
Ernst, A.1
Sazinsky, S.L.2
Hui, S.3
Currell, B.4
Dharsee, M.5
Seshagiri, S.6
-
7
-
-
0037066692
-
The Erbin PDZ domain binds with high affinity and specificity to the carboxyl termini of delta-catenin and ARVCF
-
R.P. Laura, A.S. Witt, H.A. Held, R. Gerstner, K. Deshayes, and M.F. Koehler The Erbin PDZ domain binds with high affinity and specificity to the carboxyl termini of delta-catenin and ARVCF J Biol Chem 277 2002 12906 12914
-
(2002)
J Biol Chem
, vol.277
, pp. 12906-12914
-
-
Laura, R.P.1
Witt, A.S.2
Held, H.A.3
Gerstner, R.4
Deshayes, K.5
Koehler, M.F.6
-
8
-
-
0037470140
-
Origins of PDZ domain ligand specificity. Structure determination and mutagenesis of the Erbin PDZ domain
-
N.J. Skelton, M.F. Koehler, K. Zobel, W.L. Wong, S. Yeh, and M.T. Pisabarro Origins of PDZ domain ligand specificity. Structure determination and mutagenesis of the Erbin PDZ domain J Biol Chem 278 2003 7645 7654
-
(2003)
J Biol Chem
, vol.278
, pp. 7645-7654
-
-
Skelton, N.J.1
Koehler, M.F.2
Zobel, K.3
Wong, W.L.4
Yeh, S.5
Pisabarro, M.T.6
-
9
-
-
84864615365
-
Plasticity of PDZ domains in ligand recognition and signaling
-
Y. Ivarsson Plasticity of PDZ domains in ligand recognition and signaling FEBS Lett 586 2012 2638 2647
-
(2012)
FEBS Lett
, vol.586
, pp. 2638-2647
-
-
Ivarsson, Y.1
-
10
-
-
0030793767
-
De novo protein design: Fully automated sequence selection
-
B.I. Dahiyat, and S.L. Mayo De novo protein design: fully automated sequence selection Science 278 1997 82 87
-
(1997)
Science
, vol.278
, pp. 82-87
-
-
Dahiyat, B.I.1
Mayo, S.L.2
-
11
-
-
84868365613
-
The spatial architecture of protein function and adaptation
-
R.N. McLaughlin, F.J. Poelwijk, A. Raman, W.S. Gosal, and R. Ranganathan The spatial architecture of protein function and adaptation Nature 491 2012 138 142
-
(2012)
Nature
, vol.491
, pp. 138-142
-
-
McLaughlin, R.N.1
Poelwijk, F.J.2
Raman, A.3
Gosal, W.S.4
Ranganathan, R.5
-
12
-
-
84907845912
-
A structural portrait of the PDZ domain family
-
(submitted for publication)
-
A. Ernst, B.A. Appleton, Y. Ivarsson, Y. Zhang, D. Gfeller, and C. Wiesmann A structural portrait of the PDZ domain family J Mol Biol 2014 (submitted for publication)
-
(2014)
J Mol Biol
-
-
Ernst, A.1
Appleton, B.A.2
Ivarsson, Y.3
Zhang, Y.4
Gfeller, D.5
Wiesmann, C.6
-
13
-
-
84874042805
-
Stereochemical determinants of C-terminal specificity in PDZ peptide-binding domains: A novel contribution of the carboxylate-binding loop
-
J.F. Amacher, P.R. Cushing, C.D. Bahl, T. Beck, and D.R. Madden Stereochemical determinants of C-terminal specificity in PDZ peptide-binding domains: a novel contribution of the carboxylate-binding loop J Biol Chem 288 2013 5114 5126
-
(2013)
J Biol Chem
, vol.288
, pp. 5114-5126
-
-
Amacher, J.F.1
Cushing, P.R.2
Bahl, C.D.3
Beck, T.4
Madden, D.R.5
-
14
-
-
1642276423
-
Cdc42 regulates the Par-6 PDZ domain through an allosteric CRIB-PDZ transition
-
F.C. Peterson, R.R. Penkert, B.F. Volkman, and K.E. Prehoda Cdc42 regulates the Par-6 PDZ domain through an allosteric CRIB-PDZ transition Mol Cell 13 2004 665 676
-
(2004)
Mol Cell
, vol.13
, pp. 665-676
-
-
Peterson, F.C.1
Penkert, R.R.2
Volkman, B.F.3
Prehoda, K.E.4
-
15
-
-
47349099470
-
Mapping of two networks of residues that exhibit structural and dynamical changes upon binding in a PDZ domain protein
-
A. Dhulesia, J. Gsponer, and M. Vendruscolo Mapping of two networks of residues that exhibit structural and dynamical changes upon binding in a PDZ domain protein J Am Chem Soc 130 2008 8931 8939
-
(2008)
J Am Chem Soc
, vol.130
, pp. 8931-8939
-
-
Dhulesia, A.1
Gsponer, J.2
Vendruscolo, M.3
-
16
-
-
79961006047
-
Sequence-specific long range networks in PSD-95/discs large/ZO-1 (PDZ) domains tune their binding selectivity
-
S. Gianni, S.R. Haq, L.C. Montemiglio, M.C. Jorgens, A.k. Engstrom, and C.N. Chi Sequence-specific long range networks in PSD-95/discs large/ZO-1 (PDZ) domains tune their binding selectivity J Biol Chem 286 2011 27167 27175
-
(2011)
J Biol Chem
, vol.286
, pp. 27167-27175
-
-
Gianni, S.1
Haq, S.R.2
Montemiglio, L.C.3
Jorgens, M.C.4
Engstrom, A.K.5
Chi, C.N.6
-
17
-
-
70849084011
-
Hidden dynamic allostery in a PDZ domain
-
C.M. Petit, J. Zhang, P.J. Sapienza, E.J. Fuentes, and A.L. Lee Hidden dynamic allostery in a PDZ domain Proc Natl Acad Sci 106 2009 18249 18254
-
(2009)
Proc Natl Acad Sci
, vol.106
, pp. 18249-18254
-
-
Petit, C.M.1
Zhang, J.2
Sapienza, P.J.3
Fuentes, E.J.4
Lee, A.L.5
-
18
-
-
33745927413
-
Computational design of a new hydrogen bond network and at least a 300-fold specificity switch at a protein-protein interface
-
L.A. Joachimiak, T. Kortemme, B.L. Stoddard, and D. Baker Computational design of a new hydrogen bond network and at least a 300-fold specificity switch at a protein-protein interface J Mol Biol 361 2006 195 208
-
(2006)
J Mol Biol
, vol.361
, pp. 195-208
-
-
Joachimiak, L.A.1
Kortemme, T.2
Stoddard, B.L.3
Baker, D.4
-
19
-
-
0036315558
-
Computer-aided design of a PDZ domain to recognize new target sequences
-
J. Reina, E. Lacroix, S.D. Hobson, G. Fernandez-Ballester, V. Rybin, and M.S. Schwab Computer-aided design of a PDZ domain to recognize new target sequences Nat Struct Biol 9 2002 621 627
-
(2002)
Nat Struct Biol
, vol.9
, pp. 621-627
-
-
Reina, J.1
Lacroix, E.2
Hobson, S.D.3
Fernandez-Ballester, G.4
Rybin, V.5
Schwab, M.S.6
-
20
-
-
58549091879
-
Computational design of calmodulin mutants with up to 900-fold increase in binding specificity
-
E. Yosef, R. Politi, M.H. Choi, and J.M. Shifman Computational design of calmodulin mutants with up to 900-fold increase in binding specificity J Mol Biol 385 2009 1470 1480
-
(2009)
J Mol Biol
, vol.385
, pp. 1470-1480
-
-
Yosef, E.1
Politi, R.2
Choi, M.H.3
Shifman, J.M.4
-
21
-
-
0037219686
-
Evolutionarily conserved networks of residues mediate allosteric communication in proteins
-
G.M. Suel, S.W. Lockless, M.A. Wall, and R. Ranganathan Evolutionarily conserved networks of residues mediate allosteric communication in proteins Nat Struct Mol Biol 10 2003 59 69
-
(2003)
Nat Struct Mol Biol
, vol.10
, pp. 59-69
-
-
Suel, G.M.1
Lockless, S.W.2
Wall, M.A.3
Ranganathan, R.4
-
22
-
-
0345492351
-
Allosteric determinants in guanine nucleotide-binding proteins
-
M.E. Hatley, S.W. Lockless, S.K. Gibson, A.G. Gilman, and R. Ranganathan Allosteric determinants in guanine nucleotide-binding proteins Proc Natl Acad Sci USA 100 2003 14445 14450
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 14445-14450
-
-
Hatley, M.E.1
Lockless, S.W.2
Gibson, S.K.3
Gilman, A.G.4
Ranganathan, R.5
-
23
-
-
84455167671
-
Hot spots for allosteric regulation on protein surfaces
-
K.A. Reynolds, R.N. McLaughlin, and R. Ranganathan Hot spots for allosteric regulation on protein surfaces Cell 147 2011 1564 1575
-
(2011)
Cell
, vol.147
, pp. 1564-1575
-
-
Reynolds, K.A.1
McLaughlin, R.N.2
Ranganathan, R.3
-
24
-
-
84870707533
-
Accurate prediction of the dynamical changes within the second PDZ domain of PTP1e
-
E. Cilia, G.W. Vuister, and T. Lenaerts Accurate prediction of the dynamical changes within the second PDZ domain of PTP1e PLoS Comput Biol 8 2012 e1002794
-
(2012)
PLoS Comput Biol
, vol.8
, pp. 1002794
-
-
Cilia, E.1
Vuister, G.W.2
Lenaerts, T.3
-
25
-
-
33750795402
-
Evaluation of energetic and dynamic coupling networks in a PDZ domain protein
-
E.J. Fuentes, S.A. Gilmore, R.V. Mauldin, and A.L. Lee Evaluation of energetic and dynamic coupling networks in a PDZ domain protein J Mol Biol 364 2006 337 351
-
(2006)
J Mol Biol
, vol.364
, pp. 337-351
-
-
Fuentes, E.J.1
Gilmore, S.A.2
Mauldin, R.V.3
Lee, A.L.4
-
26
-
-
0036233482
-
Rapid identification of small binding motifs with high-throughput phage display: Discovery of peptidic antagonists of IGF-1 function
-
K. Deshayes, M.L. Schaffer, N.J. Skelton, G.R. Nakamura, S. Kadkhodayan, and S.S. Sidhu Rapid identification of small binding motifs with high-throughput phage display: discovery of peptidic antagonists of IGF-1 function Chem Biol 9 2002 495 505
-
(2002)
Chem Biol
, vol.9
, pp. 495-505
-
-
Deshayes, K.1
Schaffer, M.L.2
Skelton, N.J.3
Nakamura, G.R.4
Kadkhodayan, S.5
Sidhu, S.S.6
-
27
-
-
0027160197
-
Backbone-dependent rotamer library for proteins application to side-chain prediction
-
R.L. Dunbrack, and M. Karplus Backbone-dependent rotamer library for proteins application to side-chain prediction J Mol Biol 230 1993 543 574
-
(1993)
J Mol Biol
, vol.230
, pp. 543-574
-
-
Dunbrack, R.L.1
Karplus, M.2
-
29
-
-
0033135227
-
Computational protein design
-
A.G. Street, and S.L. Mayo Computational protein design Structure 7 1999 R105 R109
-
(1999)
Structure
, vol.7
, pp. 105-R109
-
-
Street, A.G.1
Mayo, S.L.2
-
30
-
-
0344392711
-
Exploring the origins of binding specificity through the computational redesign of calmodulin
-
J.M. Shifman, and S.L. Mayo Exploring the origins of binding specificity through the computational redesign of calmodulin Proc Natl Acad Sci USA 100 2003 13274 13279
-
(2003)
Proc Natl Acad Sci USA
, vol.100
, pp. 13274-13279
-
-
Shifman, J.M.1
Mayo, S.L.2
-
34
-
-
46249092554
-
GROMACS 4: Algorithms for highly efficient, load-balanced, and scalable molecular simulation
-
B. Hess, C. Kutzner, D. van der Spoel, and E. Lindahl GROMACS 4: algorithms for highly efficient, load-balanced, and scalable molecular simulation J Chem Theory Comput 4 2008 435 447
-
(2008)
J Chem Theory Comput
, vol.4
, pp. 435-447
-
-
Hess, B.1
Kutzner, C.2
Van Der Spoel, D.3
Lindahl, E.4
|