-
1
-
-
0034644539
-
Cell signaling by receptor tyrosine kinases
-
Schlessinger, J. (2000) Cell signaling by receptor tyrosine kinases. Cell 103, 211-225.
-
(2000)
Cell
, vol.103
, pp. 211-225
-
-
Schlessinger, J.1
-
2
-
-
0032857449
-
The biology of stem cell factor and its receptor c-kit
-
Ashman, L. K. (1999) The biology of stem cell factor and its receptor c-kit. Int. J. Biochem. Cell Biol. 31, 1037-1051.
-
(1999)
Int. J. Biochem. Cell Biol
, vol.31
, pp. 1037-1051
-
-
Ashman, L.K.1
-
3
-
-
0032828882
-
Early signaling pathways activated by c-kit in hematopoietic cells
-
Linnekin, D. (1999) Early signaling pathways activated by c-kit in hematopoietic cells. Int. J. Biochem. Cell Biol. 31, 1053-1074.
-
(1999)
Int. J. Biochem. Cell Biol
, vol.31
, pp. 1053-1074
-
-
Linnekin, D.1
-
4
-
-
34548501985
-
c-kit - a hematopoietic cell essential receptor tyrosine kinase
-
Edling, C. E., and Hallberg, B. (2007) c-kit - a hematopoietic cell essential receptor tyrosine kinase. Int. J. Biochem. Cell Biol. 39, 1995-1998.
-
(2007)
Int. J. Biochem. Cell Biol
, vol.39
, pp. 1995-1998
-
-
Edling, C.E.1
Hallberg, B.2
-
5
-
-
0028252924
-
Steel factor and c-kit protooncogene: Genetic lessons in signal transduction
-
Lev, S., Blechman, J. M., Givol, D., and Yarden, Y. (1994) Steel factor and c-kit protooncogene: genetic lessons in signal transduction. Crit. Rev. Oncog. 5, 141-168.
-
(1994)
Crit. Rev. Oncog
, vol.5
, pp. 141-168
-
-
Lev, S.1
Blechman, J.M.2
Givol, D.3
Yarden, Y.4
-
6
-
-
2542520755
-
Mechanisms of oncogenic KIT signal transduction in primary gastrointestinal stromal tumors (GISTs)
-
Duensing, A., Madeiros, F., McConarty, B., Joseph, N. E., Panigrahy, D., Singer, S., Demetri, G. D., Fletcher, C. D. M., and Fletcher, J. A. (2004) Mechanisms of oncogenic KIT signal transduction in primary gastrointestinal stromal tumors (GISTs). Oncogene 23, 3999-4006.
-
(2004)
Oncogene
, vol.23
, pp. 3999-4006
-
-
Duensing, A.1
Madeiros, F.2
McConarty, B.3
Joseph, N.E.4
Panigrahy, D.5
Singer, S.6
Demetri, G.D.7
Fletcher, C.D.M.8
Fletcher, J.A.9
-
7
-
-
4043181214
-
Cancer genes and the pathways they control
-
Vogelstein, B., and Kinzler, K. W. (2004) Cancer genes and the pathways they control. Nat. Med. 10, 789-799.
-
(2004)
Nat. Med
, vol.10
, pp. 789-799
-
-
Vogelstein, B.1
Kinzler, K.W.2
-
8
-
-
0035469886
-
Expression of constitutively activated human c-kit in Myb transformed early myeloid cells leads to factor independence, histiocytic differentiation, and tumorigenicity
-
Chian, R., Young, S., Danilkovitch-Miagkova, A., Ronnstrand, L., Leonard, E., Ferrao, P., Ashman, L., and Linnekin, D. (2001) Expression of constitutively activated human c-kit in Myb transformed early myeloid cells leads to factor independence, histiocytic differentiation, and tumorigenicity. Blood 98, 1365-1373.
-
(2001)
Blood
, vol.98
, pp. 1365-1373
-
-
Chian, R.1
Young, S.2
Danilkovitch-Miagkova, A.3
Ronnstrand, L.4
Leonard, E.5
Ferrao, P.6
Ashman, L.7
Linnekin, D.8
-
9
-
-
0036493872
-
The c-kit mutation causing human mastocytosis is resistant to STI571 and other KIT kinase inhibitors kinases with enzymatic site mutations show different inhibitor sensitivity profiles than wild-type kinases and those with regulatory-type mutations
-
Ma, Y., Zeng, S., Metcalfe, D. D., Akin, C., Dimitrijevic, S., Butterfield, J. H., McMahon, G., and Longley, B. J. (2002) The c-kit mutation causing human mastocytosis is resistant to STI571 and other KIT kinase inhibitors kinases with enzymatic site mutations show different inhibitor sensitivity profiles than wild-type kinases and those with regulatory-type mutations. Blood 99, 1741-1744.
-
(2002)
Blood
, vol.99
, pp. 1741-1744
-
-
Ma, Y.1
Zeng, S.2
Metcalfe, D.D.3
Akin, C.4
Dimitrijevic, S.5
Butterfield, J.H.6
McMahon, G.7
Longley, B.J.8
-
10
-
-
0036733726
-
The c-kit tyrosine kinase inhibitor STI571 for colorectal cancer therapy
-
Attoub, S., Rivat, C., Rodrigues, S., Van Bocxlaer, S., Bedin, M., Bruyneel, E., Louvet, C., Kornprobst, M., Andre, T., Mareel, M., Mester, J., and Gespach, C. (2002) The c-kit tyrosine kinase inhibitor STI571 for colorectal cancer therapy. Cancer Res. 62, 4879-4883.
-
(2002)
Cancer Res
, vol.62
, pp. 4879-4883
-
-
Attoub, S.1
Rivat, C.2
Rodrigues, S.3
Van Bocxlaer, S.4
Bedin, M.5
Bruyneel, E.6
Louvet, C.7
Kornprobst, M.8
Andre, T.9
Mareel, M.10
Mester, J.11
Gespach, C.12
-
11
-
-
10744221713
-
Stem cell factor receptor (c-kit) codon 816 mutations predict development of bilateral testicular germ-cell tumors
-
Looijenga, L. H., de Leeuw, H., van Oorschot, M., van Gurp, R. J., Stoop, H., Gillis, A. J., de Gouveia Brazao, C. A., Weber, R. F., Kirkels, W. J., van Dijk, T., et al. (2003) Stem cell factor receptor (c-kit) codon 816 mutations predict development of bilateral testicular germ-cell tumors. Cancer Res. 63, 7674-7678.
-
(2003)
Cancer Res
, vol.63
, pp. 7674-7678
-
-
Looijenga, L.H.1
de Leeuw, H.2
van Oorschot, M.3
van Gurp, R.J.4
Stoop, H.5
Gillis, A.J.6
de Gouveia Brazao, C.A.7
Weber, R.F.8
Kirkels, W.J.9
van Dijk, T.10
-
12
-
-
9444258068
-
Sensitivity of oncogenic KIT mutants to the kinase inhibitors MLN518 and PD180970
-
Corbin, A. S., Griswold, I. J., La Rose, P., Yee, K. W., Heinrich, M. C., Reimer, C. L., Druker, B. J., and Deininger, M. W. (2004) Sensitivity of oncogenic KIT mutants to the kinase inhibitors MLN518 and PD180970. Blood 104, 3754-3757.
-
(2004)
Blood
, vol.104
, pp. 3754-3757
-
-
Corbin, A.S.1
Griswold, I.J.2
La Rose, P.3
Yee, K.W.4
Heinrich, M.C.5
Reimer, C.L.6
Druker, B.J.7
Deininger, M.W.8
-
13
-
-
4544302751
-
Switching on kinases: Oncogenic activation of BRAF and the PDGFR family
-
Dibb, N. J., Dilworth, S. M., and Mol, C. D. (2004) Switching on kinases: oncogenic activation of BRAF and the PDGFR family. Nat. Rev. Cancer 4, 718-727.
-
(2004)
Nat. Rev. Cancer
, vol.4
, pp. 718-727
-
-
Dibb, N.J.1
Dilworth, S.M.2
Mol, C.D.3
-
14
-
-
22144455380
-
Activation mutations of human c-kit resistant to imatinib mesylate are sensitive to the tyrosine kinase inhibitor PKC412
-
Growney, J. D., Clark, J. J., Adelsperger, J., Stone, R., Fabbro, D., Griffin, J. D., and Gilliland, D. G. (2005) Activation mutations of human c-kit resistant to imatinib mesylate are sensitive to the tyrosine kinase inhibitor PKC412. Blood 106, 721-724.
-
(2005)
Blood
, vol.106
, pp. 721-724
-
-
Growney, J.D.1
Clark, J.J.2
Adelsperger, J.3
Stone, R.4
Fabbro, D.5
Griffin, J.D.6
Gilliland, D.G.7
-
15
-
-
33748615147
-
J. Mol. Diagn. 8
-
Akin, C. (2006) Molecular diagnosis of mast cell disorders: a paper from the 2005 William Beaumont Hospital symposium on molecular pathology. J. Mol. Diagn. 8, 412-419.
-
(2006)
, pp. 412-419
-
-
Akin, C.1
-
16
-
-
30944448636
-
Role of c-kit expression level and phosphatidylinositol 3-kinase activation in survival and proliferative responses of early myeloid cells
-
Young, S. M., Cambareri, A. C., and Ashman, L. K. (2006) Role of c-kit expression level and phosphatidylinositol 3-kinase activation in survival and proliferative responses of early myeloid cells. Cell Signalling 18, 608-620.
-
(2006)
Cell Signalling
, vol.18
, pp. 608-620
-
-
Young, S.M.1
Cambareri, A.C.2
Ashman, L.K.3
-
17
-
-
33847144930
-
Evaluation of the kinase domain of c-kit in canine cutaneous mast cell tumors
-
Webster, J. D., Kiupel, M., and Yuzbasiyan-Gurkan, V. (2006) Evaluation of the kinase domain of c-kit in canine cutaneous mast cell tumors. BMC Cancer 6, 85.
-
(2006)
BMC Cancer
, vol.6
, pp. 85
-
-
Webster, J.D.1
Kiupel, M.2
Yuzbasiyan-Gurkan, V.3
-
18
-
-
34147187338
-
Resistance to c-kit kinase inhibitors conferred by V654A mutation
-
Roberts, K. G., Odell, A. F., Byrnes, E. M., Baleato, R. M., Griffith, R., Lyons, A. B., and Ashman, L. K. (2007) Resistance to c-kit kinase inhibitors conferred by V654A mutation. Mol. Cancer Ther. 6, 1159-1166.
-
(2007)
Mol. Cancer Ther
, vol.6
, pp. 1159-1166
-
-
Roberts, K.G.1
Odell, A.F.2
Byrnes, E.M.3
Baleato, R.M.4
Griffith, R.5
Lyons, A.B.6
Ashman, L.K.7
-
19
-
-
26444598487
-
Molecular modeling of wild type and D816V c-kit inhibition based on ATP competitive binding of ellipticine derivatives to tyrosine kinases
-
Vendome, J., Letard, S., Martin, F., Svinarchuk, F., Dubreuil, P., Auclair, C., and Le Bret, M. (2005) Molecular modeling of wild type and D816V c-kit inhibition based on ATP competitive binding of ellipticine derivatives to tyrosine kinases. J. Med. Chem. 48, 6194-6201.
-
(2005)
J. Med. Chem
, vol.48
, pp. 6194-6201
-
-
Vendome, J.1
Letard, S.2
Martin, F.3
Svinarchuk, F.4
Dubreuil, P.5
Auclair, C.6
Le Bret, M.7
-
20
-
-
33845787771
-
-
Manez, S., and Del Carmen Recio, M. (2002) Bioactive Natural Products, in Studies in Natural Products Chemistry (Atta-ur-Rahman, Ed.) 27, pp 819-890, Elsevier Science Publishers BV, Amsterdam, The Netherlands.
-
Manez, S., and Del Carmen Recio, M. (2002) Bioactive Natural Products, in Studies in Natural Products Chemistry (Atta-ur-Rahman, Ed.) Vol. 27, pp 819-890, Elsevier Science Publishers BV, Amsterdam, The Netherlands.
-
-
-
-
21
-
-
52949091118
-
-
PCT International Patent WO 03/091255
-
Booth, R. J., Denny, W. A., Dobrusin, E. M., Kraker, A. J., Mitchell, L. H., Smaill, J. B., Thompson, A. M., Lee, H. H., McCarthy, F. O. J., and Palmer, B. D. (2003)PCT International Patent WO 03/091255.
-
(2003)
-
-
Booth, R.J.1
Denny, W.A.2
Dobrusin, E.M.3
Kraker, A.J.4
Mitchell, L.H.5
Smaill, J.B.6
Thompson, A.M.7
Lee, H.H.8
McCarthy, F.O.J.9
Palmer, B.D.10
-
22
-
-
0001486087
-
Dynamics and design of enzymes and inhibitors
-
Wong, C., and McCammon, J. (1986) Dynamics and design of enzymes and inhibitors. J. Am. Chem. Soc. 108, 3830-3832.
-
(1986)
J. Am. Chem. Soc
, vol.108
, pp. 3830-3832
-
-
Wong, C.1
McCammon, J.2
-
23
-
-
0023060081
-
The free energies of charges in solvated proteins. Microscopic calculations using a reversible charging process
-
Warshel, A., Sussman, F., and King, G. (1986) The free energies of charges in solvated proteins. Microscopic calculations using a reversible charging process. Biochemistry 25, 8368-8372.
-
(1986)
Biochemistry
, vol.25
, pp. 8368-8372
-
-
Warshel, A.1
Sussman, F.2
King, G.3
-
25
-
-
7044239742
-
Free energy calculations - applications to chemical and biochemical phenomena
-
Kollman, P. (1993) Free energy calculations - applications to chemical and biochemical phenomena. Chem. Rev. 93, 2395-2417.
-
(1993)
Chem. Rev
, vol.93
, pp. 2395-2417
-
-
Kollman, P.1
-
26
-
-
0001492503
-
-
van Gunsteren, W, Weiner, P, and Wilkinson, A. Eds, pp, Escom Science Publishers, Leiden, The Netherlands
-
van Gunsteren, W., Beutler, T., Fraternali, F., King, P., Mark, A., and Smith, P. (1993) in Computer simulation of biomolecular systems (van Gunsteren, W., Weiner, P., and Wilkinson, A. Eds.) pp 315-348, Escom Science Publishers, Leiden, The Netherlands.
-
(1993)
Computer simulation of biomolecular systems
, pp. 315-348
-
-
van Gunsteren, W.1
Beutler, T.2
Fraternali, F.3
King, P.4
Mark, A.5
Smith, P.6
-
27
-
-
0031320150
-
Computational approaches to molecular recognition
-
Lamb, M. L., and Jorgensen, W. (1997) Computational approaches to molecular recognition. Curr. Opin. Chem. Biol. 1, 449-457.
-
(1997)
Curr. Opin. Chem. Biol
, vol.1
, pp. 449-457
-
-
Lamb, M.L.1
Jorgensen, W.2
-
28
-
-
0041754408
-
-
Becker, O. M, MacKerell, A. D, Roux, B, and Watanabe, M. Eds, pp, Marcel Dekker, New York
-
Simonson, T. (2001) in Computational Biochemistry and Biophysics (Becker, O. M., MacKerell, A. D., Roux, B., and Watanabe, M. Eds.) pp 169-197, Marcel Dekker, New York.
-
(2001)
Computational Biochemistry and Biophysics
, pp. 169-197
-
-
Simonson, T.1
-
29
-
-
0036286654
-
Free energy simulations come of age: Protein-ligand recognition
-
Simonson, T., Archontis, G., and Karplus, M. (2002) Free energy simulations come of age: protein-ligand recognition. Acc. Chem. Res. 35, 430-437.
-
(2002)
Acc. Chem. Res
, vol.35
, pp. 430-437
-
-
Simonson, T.1
Archontis, G.2
Karplus, M.3
-
30
-
-
32344451863
-
Free energy simulations and experiments reveal long-range electrostatic interactions and substrate-assisted specificity in an aminoacyl-tRNA synthetase
-
Thompson, D., Plateau, P., and Simonson, T. (2006) Free energy simulations and experiments reveal long-range electrostatic interactions and substrate-assisted specificity in an aminoacyl-tRNA synthetase. ChemBioChem 7, 337-344.
-
(2006)
ChemBioChem
, vol.7
, pp. 337-344
-
-
Thompson, D.1
Plateau, P.2
Simonson, T.3
-
31
-
-
33747671419
-
2+ contributes to amino acid and aminoacyl adenylate binding specificity in aspartyl-tRNA synthetase through long range electrostatic interactions
-
2+ contributes to amino acid and aminoacyl adenylate binding specificity in aspartyl-tRNA synthetase through long range electrostatic interactions. J. Biol. Chem. 281, 23792-23803.
-
(2006)
J. Biol. Chem
, vol.281
, pp. 23792-23803
-
-
Thompson, D.1
Simonson, T.2
-
32
-
-
33748578973
-
Modelling competitive guest binding to beta-cyclodextrin molecular printboards
-
Thompson, D., and Larsson, J. A. (2006) Modelling competitive guest binding to beta-cyclodextrin molecular printboards. J. Phys. Chem. B 110, 16640-16645.
-
(2006)
J. Phys. Chem. B
, vol.110
, pp. 16640-16645
-
-
Thompson, D.1
Larsson, J.A.2
-
33
-
-
35648937527
-
Ammonium scanning in an enzyme active site: The chiral specificity of aspartyl-tRNA synthetase
-
Thompson, D., Lazennec, C., Plateau, P., and Simonson, T. (2007) Ammonium scanning in an enzyme active site: the chiral specificity of aspartyl-tRNA synthetase. J. Biol. Chem. 282, 30856-30868.
-
(2007)
J. Biol. Chem
, vol.282
, pp. 30856-30868
-
-
Thompson, D.1
Lazennec, C.2
Plateau, P.3
Simonson, T.4
-
34
-
-
42449089814
-
Probing electrostatic interactions and ligand binding in aspartyl-tRNA synthetase through site-directed mutagenesis and computer simulations
-
Thompson, D., Lazennec, C., Plateau, P., and Simonson, T. (2008) Probing electrostatic interactions and ligand binding in aspartyl-tRNA synthetase through site-directed mutagenesis and computer simulations. Proteins: Struct., Funct., Bioinf. 71, 1450-1460.
-
(2008)
Proteins: Struct., Funct., Bioinf. 71
, pp. 1450-1460
-
-
Thompson, D.1
Lazennec, C.2
Plateau, P.3
Simonson, T.4
-
35
-
-
33749532284
-
Absolute binding free energy calculations using molecular dynamics simulations with restraining potentials
-
Wang, J., Deng, Y., and Roux, B. (2006) Absolute binding free energy calculations using molecular dynamics simulations with restraining potentials. Biophys. J. 91, 2798-2814.
-
(2006)
Biophys. J
, vol.91
, pp. 2798-2814
-
-
Wang, J.1
Deng, Y.2
Roux, B.3
-
36
-
-
0026244229
-
Molscript: A program to produce both detailed and schematic plots of protein structures
-
Kraulis, P. J. (1991) Molscript: a program to produce both detailed and schematic plots of protein structures. Appl. Crystallogr. 24, 946-950.
-
(1991)
Appl. Crystallogr
, vol.24
, pp. 946-950
-
-
Kraulis, P.J.1
-
37
-
-
0028057108
-
-
Merritt, E. A, and Murphy, M. E. P, 1994 Raster3D version 2.0. A program for photorealistic molecular graphics. Acta Crystallogr. D50, 869-873
-
Merritt, E. A., and Murphy, M. E. P. (1994) Raster3D version 2.0. A program for photorealistic molecular graphics. Acta Crystallogr. D50, 869-873.
-
-
-
-
38
-
-
0042357240
-
Structure of a c-kit product complex reveals the basis for kinase transactivation
-
Mol, C. D., Lim, K. B., Sridhar, V., Zou, H., Chien, E. Y. T., Sang, B.-C., Nowakowski, J., Kassel, D. B., Cronin, C. N., and McRee, D. E. (2003) Structure of a c-kit product complex reveals the basis for kinase transactivation. J. Biol. Chem. 278, 31461-31464.
-
(2003)
J. Biol. Chem
, vol.278
, pp. 31461-31464
-
-
Mol, C.D.1
Lim, K.B.2
Sridhar, V.3
Zou, H.4
Chien, E.Y.T.5
Sang, B.-C.6
Nowakowski, J.7
Kassel, D.B.8
Cronin, C.N.9
McRee, D.E.10
-
39
-
-
0035895423
-
Binding free energies and free energy components from molecular dynamics and Poisson-Boltzmann calculations. Application to amino acid recognition by aspartyl-tRNA synthetase
-
Archontis, G., Simonson, T., and Karplus, M. (2001) Binding free energies and free energy components from molecular dynamics and Poisson-Boltzmann calculations. Application to amino acid recognition by aspartyl-tRNA synthetase. J. Mol. Biol. 306, 307-327.
-
(2001)
J. Mol. Biol
, vol.306
, pp. 307-327
-
-
Archontis, G.1
Simonson, T.2
Karplus, M.3
-
40
-
-
0032488817
-
Specific amino acid recognition by aspartyl-tRNA synthetase studied by free energy simulations
-
Archontis, G., Simonson, T., Moras, D., and Karplus, M. (1998) Specific amino acid recognition by aspartyl-tRNA synthetase studied by free energy simulations. J. Mol. Biol. 275, 823-846.
-
(1998)
J. Mol. Biol
, vol.275
, pp. 823-846
-
-
Archontis, G.1
Simonson, T.2
Moras, D.3
Karplus, M.4
-
41
-
-
0001655657
-
Finite representation of an infinite bulk system: Solvent boundary potential for computer simulations
-
Beglov, D., and Roux, B. (1994) Finite representation of an infinite bulk system: solvent boundary potential for computer simulations. J. Chem. Phys. 100, 9050-9063.
-
(1994)
J. Chem. Phys
, vol.100
, pp. 9050-9063
-
-
Beglov, D.1
Roux, B.2
-
42
-
-
84986512474
-
CHARMM: A program for macromolecular energy, minimization, and dynamics calculations
-
Brooks, B. R., Bruccoleri, R. E., Olafson, B. D., States, D. J., Swaninathan, S., and Karplus, M. (1983) CHARMM: A program for macromolecular energy, minimization, and dynamics calculations. J. Comput. Chem. 4, 187-217.
-
(1983)
J. Comput. Chem
, vol.4
, pp. 187-217
-
-
Brooks, B.R.1
Bruccoleri, R.E.2
Olafson, B.D.3
States, D.J.4
Swaninathan, S.5
Karplus, M.6
-
43
-
-
0041784950
-
-
MacKerell, A. D., Bashford, D., Bellott, M., Dunbrack, D. L., Evanseck, J. D., Field, M. J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph-McCarthy, D., Kuchnir, L., Kuczera, K., Lau, F. T. K., Mattos, C., Michnick, S., Ngo, T., Nguyen, D. T., Prodhom, B., III, Roux, B., Schlenkrich, M., Smith, J., Stote, R., Straub, J., Watanabe, M., Wiórkiewicz-Kuczera, J., Yin, D., and Karplus, M. (1998) All-atom empirical potential for molecular modeling and dynamics studies of proteins. J. Phys. Chem. B 102, 3586-3616.
-
MacKerell, A. D., Bashford, D., Bellott, M., Dunbrack, D. L., Evanseck, J. D., Field, M. J., Fischer, S., Gao, J., Guo, H., Ha, S., Joseph-McCarthy, D., Kuchnir, L., Kuczera, K., Lau, F. T. K., Mattos, C., Michnick, S., Ngo, T., Nguyen, D. T., Prodhom, B., III, Roux, B., Schlenkrich, M., Smith, J., Stote, R., Straub, J., Watanabe, M., Wiórkiewicz-Kuczera, J., Yin, D., and Karplus, M. (1998) All-atom empirical potential for molecular modeling and dynamics studies of proteins. J. Phys. Chem. B 102, 3586-3616.
-
-
-
-
44
-
-
52949107908
-
-
Frisch, M. J, Trucks, G. W, Schlegel, H. B, Scuseria, G. E, Robb, M. A, Cheeseman, J. R, Montgomery, J. A, Jr, Vreven, T, Kudin, K. N, Burant, J. C, Millam, J. M, Iyengar, S. S, Tomasi, J, Barone, V, Mennucci, B, Cossi, M, Scalmani, G, Rega, N, Petersson, G. A, Nakatsuji, H, Hada, M, Ehara, M, Toyota, K, Fukuda, R, Hasegawa, J, Ishida, M, Nakajima, T, Honda, Y, Kitao, O, Nakai, H, Klene, M, Li, X, Knox, J. E, Hratchian, H. P, Cross, J. B, Bakken, V, Adamo, C, Jaramillo, J, Gomperts, R, Stratmann, R. E, Yazyev, O, Austin, A. J, Cammi, R, Pomelli, C, Ochterski, J. W, Ayala, P. Y, Morokuma, K, Voth, G. A, Salvador, P, Dannenberg, J. J, Zakrzewski, V. G, Dapprich, S, Daniels, A. D, Strain, M. C, Farkas, O, Malick, D. K, Rabuck, A. D, Raghavachari, K, Foresman, J. B, Ortiz, J. V, Cui, Q, Baboul, A. G, Clifford, S, Cioslowski, J, Stefanov, B. B, Liu, G, Liashenko, A, Piskorz, P, Komaromi, I, Martin, R. L, Fox, D. J, Keit
-
Frisch, M. J., Trucks, G. W., Schlegel, H. B., Scuseria, G. E., Robb, M. A., Cheeseman, J. R., Montgomery, J. A., Jr., Vreven, T., Kudin, K. N., Burant, J. C., Millam, J. M., Iyengar, S. S., Tomasi, J., Barone, V., Mennucci, B., Cossi, M., Scalmani, G., Rega, N., Petersson, G. A., Nakatsuji, H., Hada, M., Ehara, M., Toyota, K., Fukuda, R., Hasegawa, J., Ishida, M., Nakajima, T., Honda, Y., Kitao, O., Nakai, H., Klene, M., Li, X., Knox, J. E., Hratchian, H. P., Cross, J. B., Bakken, V., Adamo, C., Jaramillo, J., Gomperts, R., Stratmann, R. E., Yazyev, O., Austin, A. J., Cammi, R., Pomelli, C., Ochterski, J. W., Ayala, P. Y., Morokuma, K., Voth, G. A., Salvador, P., Dannenberg, J. J., Zakrzewski, V. G., Dapprich, S., Daniels, A. D., Strain, M. C., Farkas, O., Malick, D. K., Rabuck, A. D., Raghavachari, K., Foresman, J. B., Ortiz, J. V., Cui, Q., Baboul, A. G., Clifford, S., Cioslowski, J., Stefanov, B. B., Liu, G., Liashenko, A., Piskorz, P., Komaromi, I., Martin, R. L., Fox, D. J., Keith, T., Al-Laham, M. A., Peng, C. Y., Nanayakkara, A., Challacombe, M., Gill, P. M. W., Johnson, B., Chen, W., Wong, M. W., Gonzalez, C., and Pople, J. A. (2004) Gaussian 03, revision C.02, Gaussian, Inc., Wallingford, CT.
-
-
-
-
45
-
-
0000189651
-
Density-functional thermochemistry. III. The role of exact exchange
-
Becke, A. D. (1993) Density-functional thermochemistry. III. The role of exact exchange. J. Chem. Phys. 98, 5648-5652.
-
(1993)
J. Chem. Phys
, vol.98
, pp. 5648-5652
-
-
Becke, A.D.1
-
46
-
-
36148995600
-
Natural population analysis
-
Reed, A. E., Weinstock, R. B., and Weinhold, F. (1985) Natural population analysis. J. Chem. Phys. 83, 735-746.
-
(1985)
J. Chem. Phys
, vol.83
, pp. 735-746
-
-
Reed, A.E.1
Weinstock, R.B.2
Weinhold, F.3
-
47
-
-
0004016501
-
Comparison of simple potential functions for simulating liquid water
-
Jorgensen, W., Chandrasekar, J., Madura, J., Impey, R., and Klein, M. (1983) Comparison of simple potential functions for simulating liquid water. J. Chem. Phys. 79, 926-935.
-
(1983)
J. Chem. Phys
, vol.79
, pp. 926-935
-
-
Jorgensen, W.1
Chandrasekar, J.2
Madura, J.3
Impey, R.4
Klein, M.5
-
48
-
-
33646940952
-
Molecular dynamics of n-alkanes
-
Ryckaert, J. P., Ciccotti, G., and Berendsen, H. J. C. (1977) Molecular dynamics of n-alkanes. J. Comput. Phys. 23, 327-341.
-
(1977)
J. Comput. Phys
, vol.23
, pp. 327-341
-
-
Ryckaert, J.P.1
Ciccotti, G.2
Berendsen, H.J.C.3
-
49
-
-
36849056267
-
An anticancer c-kit kinase inhibitor is reengineered to make it more active and less cardiotoxic
-
Fernandez, A., Sanguino, A., Peng, Z., Ozturk, E., Chen, J., Crespo, A., Wulf, S., Shavrin, A., Qin, C., and Ma, J. (2007) An anticancer c-kit kinase inhibitor is reengineered to make it more active and less cardiotoxic. J. Clin. Invest. 117, 4044-4054.
-
(2007)
J. Clin. Invest
, vol.117
, pp. 4044-4054
-
-
Fernandez, A.1
Sanguino, A.2
Peng, Z.3
Ozturk, E.4
Chen, J.5
Crespo, A.6
Wulf, S.7
Shavrin, A.8
Qin, C.9
Ma, J.10
-
50
-
-
22244488061
-
Proton binding to proteins: A self-consistent dielectric continuum analysis
-
Archontis, G., and Simonson, T. (2005) Proton binding to proteins: a self-consistent dielectric continuum analysis. Biophys. J. 88, 3888-3904.
-
(2005)
Biophys. J
, vol.88
, pp. 3888-3904
-
-
Archontis, G.1
Simonson, T.2
-
51
-
-
0035823823
-
Dielectric: Relaxation in an enzyme active site: molecular dynamics simulations interpreted with a macroscopic continuum model
-
Archontis, G., and Simonson, T. (2001) Dielectric: relaxation in an enzyme active site: molecular dynamics simulations interpreted with a macroscopic continuum model. J. Am. Chem. Soc. 123, 11047-11056.
-
(2001)
J. Am. Chem. Soc
, vol.123
, pp. 11047-11056
-
-
Archontis, G.1
Simonson, T.2
-
52
-
-
0032096837
-
Continuum solvation model: Electrostatic forces from numerical solutions to the Poisson-Boltzmann equation
-
Im, W., Beglov, D., and Roux, B. (1998) Continuum solvation model: electrostatic forces from numerical solutions to the Poisson-Boltzmann equation. Comput. Phys. Commun. 111, 59-75.
-
(1998)
Comput. Phys. Commun
, vol.111
, pp. 59-75
-
-
Im, W.1
Beglov, D.2
Roux, B.3
-
53
-
-
0027231258
-
On the pH dependence of protein stability
-
Yang, A.-S., and Honig, B. (1993) On the pH dependence of protein stability. J. Mol. Biol. 231, 459-474.
-
(1993)
J. Mol. Biol
, vol.231
, pp. 459-474
-
-
Yang, A.-S.1
Honig, B.2
-
54
-
-
0030945495
-
Incorporating protein conformational flexibility into the calculation of pH-dependent protein properties
-
Alexov, E. G., and Gunner, M. R. (1997) Incorporating protein conformational flexibility into the calculation of pH-dependent protein properties. Biophys. J. 72, 2075-2093.
-
(1997)
Biophys. J
, vol.72
, pp. 2075-2093
-
-
Alexov, E.G.1
Gunner, M.R.2
-
55
-
-
0034225199
-
Electrostatic free energy calculations for macromolecules: A hybrid molecular dynamics/continuum electrostatics approach
-
Simonson, T. (2000) Electrostatic free energy calculations for macromolecules: a hybrid molecular dynamics/continuum electrostatics approach. J. Phys. Chem. B 104, 6509-6513.
-
(2000)
J. Phys. Chem. B
, vol.104
, pp. 6509-6513
-
-
Simonson, T.1
-
56
-
-
0027968902
-
Free-energy simulations-the meaning of the individual contributions from a component analysis
-
Boresch, S., Archontis, G., and Karplus, M. (1994) Free-energy simulations-the meaning of the individual contributions from a component analysis. Proteins: Struct., Funct., Genet. 20, 25-33.
-
(1994)
Proteins: Struct., Funct., Genet
, vol.20
, pp. 25-33
-
-
Boresch, S.1
Archontis, G.2
Karplus, M.3
-
57
-
-
0029584358
-
The meaning of component analysis: Decomposition of the free energy in terms of specific interactions
-
Boresch, S., and Karplus, M. (1995) The meaning of component analysis: decomposition of the free energy in terms of specific interactions. J. Mol. Biol. 254, 801-807.
-
(1995)
J. Mol. Biol
, vol.254
, pp. 801-807
-
-
Boresch, S.1
Karplus, M.2
-
58
-
-
2942542387
-
Structural basis for the autoinhibition and STI-571 inhibition of c-kit tyrosine kinase
-
Mol, C. D., Dougan, D. R., Schneider, T. R., Skene, R. J., Kraus, M. L., Scheibe, D. N., Snell, G. P., Zou, H., Sang, B.-C., and Wilson, K. P. (2004) Structural basis for the autoinhibition and STI-571 inhibition of c-kit tyrosine kinase. J. Biol. Chem. 279, 31655-31663.
-
(2004)
J. Biol. Chem
, vol.279
, pp. 31655-31663
-
-
Mol, C.D.1
Dougan, D.R.2
Schneider, T.R.3
Skene, R.J.4
Kraus, M.L.5
Scheibe, D.N.6
Snell, G.P.7
Zou, H.8
Sang, B.-C.9
Wilson, K.P.10
-
59
-
-
4444230149
-
Molecular basis of the constitutive activity and STI571 resistance of Asp816Val mutant KIT receptor tyrosine kinase
-
Foster, R., Griffith, R., Ferrao, P., and Ashman, L. (2004) Molecular basis of the constitutive activity and STI571 resistance of Asp816Val mutant KIT receptor tyrosine kinase. Mol. Graphics Model. 23, 139-152.
-
(2004)
Mol. Graphics Model
, vol.23
, pp. 139-152
-
-
Foster, R.1
Griffith, R.2
Ferrao, P.3
Ashman, L.4
-
60
-
-
0032169440
-
Crystal structure of aspartyl-tRNA synthetase from Pyrococcus kodakaraensis KOD: Archaeon specificity and catalytic mechanism of adenylate formation
-
Schmitt, E., Moulinier, L., Fujiwara, S., Imanaka, T., Thierry, J. C., and Moras, D. (1998) Crystal structure of aspartyl-tRNA synthetase from Pyrococcus kodakaraensis KOD: archaeon specificity and catalytic mechanism of adenylate formation. EMBO J. 17, 5227-5237.
-
(1998)
EMBO J
, vol.17
, pp. 5227-5237
-
-
Schmitt, E.1
Moulinier, L.2
Fujiwara, S.3
Imanaka, T.4
Thierry, J.C.5
Moras, D.6
-
61
-
-
0029157845
-
Protonophoric activity of ellipticine and isomers across the energy-transducing membrane of mitochondria
-
Schwaller, M.-A., Allard, B., Lescot, E., and Moreau, F. (1995) Protonophoric activity of ellipticine and isomers across the energy-transducing membrane of mitochondria. J. Biol. Chem. 270, 22709-22713.
-
(1995)
J. Biol. Chem
, vol.270
, pp. 22709-22713
-
-
Schwaller, M.-A.1
Allard, B.2
Lescot, E.3
Moreau, F.4
-
62
-
-
0035328851
-
Indolinone tyrosine kinase inhibitors block Kit activation and growth of small cell lung cancer cells
-
Krystal, G. W., Honsawek, S., Kiewlich, D., Liang, C., Vasile, S., Sun, L., McMahon, G., and Lipson, K. E. (2001) Indolinone tyrosine kinase inhibitors block Kit activation and growth of small cell lung cancer cells. Cancer Res. 61, 3660-3668.
-
(2001)
Cancer Res
, vol.61
, pp. 3660-3668
-
-
Krystal, G.W.1
Honsawek, S.2
Kiewlich, D.3
Liang, C.4
Vasile, S.5
Sun, L.6
McMahon, G.7
Lipson, K.E.8
-
63
-
-
30344481113
-
Imatinib binding and cKIT inhibition is abrogated by the cKIT kinase domain I missense mutation Val654Ala
-
McLean, S. R., Gana-Weisz, M., Hartzoulakis, B., Frow, R., Whelan, J., Selwood, D., and Boshoff, C. (2005) Imatinib binding and cKIT inhibition is abrogated by the cKIT kinase domain I missense mutation Val654Ala. Cancer Ther. 4, 2008-2015.
-
(2005)
Cancer Ther
, vol.4
, pp. 2008-2015
-
-
McLean, S.R.1
Gana-Weisz, M.2
Hartzoulakis, B.3
Frow, R.4
Whelan, J.5
Selwood, D.6
Boshoff, C.7
-
64
-
-
36949033814
-
Specificity in molecular design: A physical framework for probing the determinants of binding specificity and promiscuity in a biological environment
-
Radhakrishnan, M. L., and Tidor, B. (2007) Specificity in molecular design: a physical framework for probing the determinants of binding specificity and promiscuity in a biological environment. J. Phys. Chem. B 111, 13419-13435.
-
(2007)
J. Phys. Chem. B
, vol.111
, pp. 13419-13435
-
-
Radhakrishnan, M.L.1
Tidor, B.2
-
65
-
-
19744365702
-
A small molecule-kinase interaction map for clinical kinase inhibitors
-
Fabian, M. A., Biggs, W. H., III, Trieber, D. K., Atteridge, C. E., Azimioara, M. D., Benedetti, M. G., Carter, T. A., Ciceri, P., Edeen, P. T., Floyd, M., et al. (2005) A small molecule-kinase interaction map for clinical kinase inhibitors. Nat. Biotechnol. 23, 329-336.
-
(2005)
Nat. Biotechnol
, vol.23
, pp. 329-336
-
-
Fabian, M.A.1
Biggs III, W.H.2
Trieber, D.K.3
Atteridge, C.E.4
Azimioara, M.D.5
Benedetti, M.G.6
Carter, T.A.7
Ciceri, P.8
Edeen, P.T.9
Floyd, M.10
-
66
-
-
33750892907
-
Protein kinase inhibition: Different approaches to selective inhibitor design
-
Scapin, G. (2006) Protein kinase inhibition: different approaches to selective inhibitor design. Curr. Drug Targets 7, 1443-1454.
-
(2006)
Curr. Drug Targets
, vol.7
, pp. 1443-1454
-
-
Scapin, G.1
-
67
-
-
34047098911
-
Molecular basis for specificity in the draggable kinome: Sequence-based analysis
-
Chen, J., Zhang, X., and Fernandez, A. (2007) Molecular basis for specificity in the draggable kinome: sequence-based analysis. Bioinformatics 23, 563-572.
-
(2007)
Bioinformatics
, vol.23
, pp. 563-572
-
-
Chen, J.1
Zhang, X.2
Fernandez, A.3
-
68
-
-
0037076411
-
Structure-based design of mutant Methanococcus jannaschii tyrosyl-tRNA synthetase for incorporation of O-methyl-L-tyrosine
-
Zhang, D., Vaidehi, N., Goddard, W. A., Danzer, J., and Debe, D. (2002) Structure-based design of mutant Methanococcus jannaschii tyrosyl-tRNA synthetase for incorporation of O-methyl-L-tyrosine. Proc. Natl. Acad. Sci. U.S.A. 99, 6579-6584.
-
(2002)
Proc. Natl. Acad. Sci. U.S.A
, vol.99
, pp. 6579-6584
-
-
Zhang, D.1
Vaidehi, N.2
Goddard, W.A.3
Danzer, J.4
Debe, D.5
|