-
1
-
-
39149109887
-
The structural basis of protein acetylation by the p300/CBP transcriptional coactivator
-
DOI 10.1038/nature06546, PII NATURE06546
-
Liu, X., Wang, L., Zhao, K., Thompson, P.R., Hwang, Y., Marmorstein, R. and Cole, P.A. (2008) The structural basis of protein acetylation by the p300/cbp transcriptional coactivator. Nature, 451, 846-850. (Pubitemid 351253165)
-
(2008)
Nature
, vol.451
, Issue.7180
, pp. 846-850
-
-
Liu, X.1
Wang, L.2
Zhao, K.3
Thompson, P.R.4
Hwang, Y.5
Marmorstein, R.6
Cole, P.A.7
-
2
-
-
77949674869
-
Structural basis for receptor recognition of vitamin-b12-intrinsic factor complexes
-
Andersen, C.B.F., Madsen, M., Storm, T., Moestrup, S.K. and Andersen, G.R. (2010) Structural basis for receptor recognition of vitamin-b12-intrinsic factor complexes. Nature, 464, 445-449.
-
(2010)
Nature
, vol.464
, pp. 445-449
-
-
Andersen, C.B.F.1
Madsen, M.2
Storm, T.3
Moestrup, S.K.4
Andersen, G.R.5
-
3
-
-
77951877209
-
Tracking g-protein-coupled receptor activation using genetically encoded infrared probes
-
Ye, S., Zaitseva, E., Caltabiano, G., Schertler, G.F.X., Sakmar, T.P., Deupi, X. and Vogel, R. (2010) Tracking g-protein-coupled receptor activation using genetically encoded infrared probes. Nature , 464, 1386-1389.
-
(2010)
Nature
, vol.464
, pp. 1386-1389
-
-
Ye, S.1
Zaitseva, E.2
Caltabiano, G.3
Schertler, G.F.X.4
Sakmar, T.P.5
Deupi, X.6
Vogel, R.7
-
4
-
-
10044292911
-
Solution structure of the CD3εδ ectodomain and comparison with CD3εγ as a basis for modeling T cell receptor topology and signaling
-
DOI 10.1073/pnas.0407576101
-
Sun, Z.-Y.J., Kim, S.T., Kim, I.C., Fahmy, A., Reinherz, E.L. and Wagner, G. (2004) Solution structure of the cd3εδ ectodomain and comparison with cd3εγ as a basis for modeling t cell receptor topology and signaling. Proc. Natl. Acad. Sci. USA, 101, 16867-16872. (Pubitemid 39601330)
-
(2004)
Proceedings of the National Academy of Sciences of the United States of America
, vol.101
, Issue.48
, pp. 16867-16872
-
-
Sun, Z.-Y.J.1
Sun, T.K.2
Il, C.K.3
Fahmy, A.4
Reinherz, E.L.5
Wagner, G.6
-
5
-
-
70849093653
-
A high-resolution structure of the pre-microrna nuclear export machinery
-
Okada, C., Yamashita, E., Lee, S.J., Shibata, S., Katahira, J., Nakagawa, A., Yoneda, Y. and Tsukihara, T. (2009) A high-resolution structure of the pre-microrna nuclear export machinery. Science, 326, 1275-1279.
-
(2009)
Science
, vol.326
, pp. 1275-1279
-
-
Okada, C.1
Yamashita, E.2
Lee, S.J.3
Shibata, S.4
Katahira, J.5
Nakagawa, A.6
Yoneda, Y.7
Tsukihara, T.8
-
6
-
-
71449098436
-
Structural mechanism of abscisic acid binding and signaling by dimeric pyr1
-
Nishimura, N., Hitomi, K., Arvai, A.S., Rambo, R.P., Hitomi, C., Cutler, S.R., Schroeder, J.I. and Getzoff, E.D. (2009) Structural mechanism of abscisic acid binding and signaling by dimeric pyr1. Science, 326, 1373-1379.
-
(2009)
Science
, vol.326
, pp. 1373-1379
-
-
Nishimura, N.1
Hitomi, K.2
Arvai, A.S.3
Rambo, R.P.4
Hitomi, C.5
Cutler, S.R.6
Schroeder, J.I.7
Getzoff, E.D.8
-
7
-
-
2942536153
-
The electrostatic nature of C3d-complement receptor 2 association
-
Morikis, D. and Lambris, J.D. (2004) The electrostatic nature of c3d-complement receptor 2 association. J. Immunol., 172, 7537-7547. (Pubitemid 38747617)
-
(2004)
Journal of Immunology
, vol.172
, Issue.12
, pp. 7537-7547
-
-
Morikis, D.1
Lambris, J.D.2
-
8
-
-
1642367563
-
Genome-wide analysis of membrane targeting by S. cerevisiae pleckstrin homology domains
-
DOI 10.1016/S1097-2765(04)00083-8, PII S1097276504000838
-
Yu, J.W., Mendrola, J.M. Audhya, A., Singh, S., Keleti, D., deWald, D.B., Murray, D., Emr, S.D. and Lemon, M.A. (2004) Genome-wide analysis of membrane targeting by s. cerevisiae pleckstrin homology domains. Mol. Cell, 13, 677-688. (Pubitemid 38368125)
-
(2004)
Molecular Cell
, vol.13
, Issue.5
, pp. 677-688
-
-
Yu, J.W.1
Mendrola, J.M.2
Audhya, A.3
Singh, S.4
Keleti, D.5
DeWald, D.B.6
Murray, D.7
Emr, S.D.8
Lemmon, M.A.9
-
9
-
-
0020475509
-
Calculation of the electric potential in the active site cleft due to alpha-helix dipoles
-
Warwicker, J. andWatson, H.C. (1982) Calculation of the electric potential in the active site cleft due to alpha-helix dipoles. J. Mol. Biol., 157, 671-679.
-
(1982)
J. Mol. Biol.
, vol.157
, pp. 671-679
-
-
Warwicker, J.1
Watson, H.C.2
-
10
-
-
0029016182
-
Classical electrostatics in biology and chemistry
-
Honig, B. and Nicholls, A. (1995) Classical electrostatics in biology and chemistry. Science, 268, 1144-1149.
-
(1995)
Science
, vol.268
, pp. 1144-1149
-
-
Honig, B.1
Nicholls, A.2
-
11
-
-
0036771626
-
Accelerated Poisson-Boltzmann calculations for static and dynamic systems
-
DOI 10.1002/jcc.10120
-
Luo, R., David, L. and Gilson, M.K. (2002) Accelerated poissonboltzmann calculations for static and dynamic systems. J. Comput. Chem., 23, 1244-1253. (Pubitemid 35009216)
-
(2002)
Journal of Computational Chemistry
, vol.23
, Issue.13
, pp. 1244-1253
-
-
Luo, R.1
David, L.2
Gilson, M.K.3
-
12
-
-
0035964342
-
Electrostatics of nanosystems: Application to microtubules and the ribosome
-
DOI 10.1073/pnas.181342398
-
Baker, N.A., Sept, D., Joseph, S., Holst, M.J. and McCammon, J.A. (2001) Electrostatics of nanosystems: application to microtubules and the ribosome. Proc. Natl. Acad. Sci. USA, 98, 10037-10041. (Pubitemid 32802969)
-
(2001)
Proceedings of the National Academy of Sciences of the United States of America
, vol.98
, Issue.18
, pp. 10037-10041
-
-
Baker, N.A.1
Sept, D.2
Joseph, S.3
Holst, M.J.4
McCammon, J.A.5
-
13
-
-
0022429751
-
A new method for computing the macromolecular electric potential
-
Zauhar, R.J. and Morgan, R.S. (1985) A new method for computing the macromolecular electric potential. J. Mol. Biol., 186, 815-820.
-
(1985)
J. Mol. Biol.
, vol.186
, pp. 815-820
-
-
Zauhar, R.J.1
Morgan, R.S.2
-
14
-
-
0002334742
-
The electric potential of a macromolecule in a solvent: A fundamental approach
-
Juffer, A.H., Botta, E.F.F., van Keulen, B.A.M., van der Ploeg, A. and Berendsen, H.J.C. (1991) The electric potential of a macromolecule in a solvent: a fundamental approach. J. Comput. Phys., 97, 144-171.
-
(1991)
J. Comput. Phys.
, vol.97
, pp. 144-171
-
-
Juffer, A.H.1
Botta, E.F.F.2
Van Keulen, B.A.M.3
Van Der Ploeg, A.4
Berendsen, H.J.C.5
-
15
-
-
79960118065
-
-
Gaussian Inc.Wallingford CT
-
Frisch, M.J. et al. (2009) Gaussian 09 Revision A.1. Gaussian Inc.,Wallingford, CT.
-
(2009)
Gaussian 09 Revision A
, vol.1
-
-
Frisch, M.J.1
-
16
-
-
33845377446
-
Computation of molecular volume
-
Connolly, M.L. (1985) Computation of molecular volume. J. Am. Chem. Soc., 107, 1118-1124.
-
(1985)
J. Am. Chem. Soc.
, vol.107
, pp. 1118-1124
-
-
Connolly, M.L.1
-
17
-
-
0030793507
-
SIMS: Computation of a smooth invariant molecular surface
-
Vorobjev, Y.N. and Hermans, J. (1997) Sims: computation of a smooth invariant molecular surface. Biophys. J., 73, 722-732. (Pubitemid 27337607)
-
(1997)
Biophysical Journal
, vol.73
, Issue.2
, pp. 722-732
-
-
Vorobjev, Y.N.1
Hermans, J.2
-
18
-
-
0030040323
-
Reduced surface: An efficient way to compute molecular surfaces
-
Sanner, M.F., Olson, A.J. and Spehner, J.C. (1996) Reduced surface: an efficient way to compute molecular surfaces. Biopolymers, 38, 305-320.
-
(1996)
Biopolymers
, vol.38
, pp. 305-320
-
-
Sanner, M.F.1
Olson, A.J.2
Spehner, J.C.3
-
19
-
-
14744271380
-
A new analytical method for computing solvent-accessible surface area of macromolecules and its gradients
-
DOI 10.1002/jcc.20125
-
Hayryan, S., Hu, C.K., Sǩrivánek, J., Hayryan, E. and Pokorný, I. (2005)Anewanalytical method for computing solvent-accessible surface area of macromolecules and its gradients. J. Comput. Chem., 26, 334-343. (Pubitemid 40325537)
-
(2005)
Journal of Computational Chemistry
, vol.26
, Issue.4
, pp. 334-343
-
-
Hayryan, S.1
Hu, C.-K.2
Skrivanek, J.3
Hayryan, E.4
Pokorny, I.5
-
20
-
-
0033963034
-
Molden: A pre- and post-processing program for molecular and electronic structures
-
DOI 10.1023/A:1008193805436
-
Schaftenaar, G. and Noordik, J.H. (2000) Molden: a pre- and post-processing program for molecular and electronic structures. J. Comput. Aided Mol. Des., 14, 123-134. (Pubitemid 30110670)
-
(2000)
Journal of Computer-Aided Molecular Design
, vol.14
, Issue.2
, pp. 123-134
-
-
Schaftenaar, G.1
Noordik, J.H.2
-
21
-
-
84873296661
-
-
Theoret. & Comp. Biophysics Group NIH Resource for Macromolecular Modeling and Bioinformatics University of Illinois at Urbana-Champaign
-
Caddigan, E., Dalke, A., Grayson, P., Gullingsrud, J., Humphrey, W., Isralewitz, B., Izrailev, S., Norris, D., Stone, J. and Ulrich, J. Visual Molecular Dynamics. Theoret. & Comp. Biophysics Group, NIH Resource for Macromolecular Modeling and Bioinformatics, University of Illinois at Urbana-Champaign.
-
Visual Molecular Dynamics
-
-
Caddigan, E.1
Dalke, A.2
Grayson, P.3
Gullingsrud, J.4
Humphrey, W.5
Isralewitz, B.6
Izrailev, S.7
Norris, D.8
Stone, J.9
Ulrich, J.10
-
23
-
-
4444221565
-
Ucsf chimera - A visualization system for exploratory research and analysis
-
Pettersen, E.F., Goddard, T.D., Huang, C.C., Couch, G.S., Greenblatt, D.M., Meng, E.C. and Ferrin, T.E. (2004) Ucsf chimera - a visualization system for exploratory research and analysis. J. Comput. Chem., 13, 1605-1612.
-
(2004)
J. Comput. Chem.
, vol.13
, pp. 1605-1612
-
-
Pettersen, E.F.1
Goddard, T.D.2
Huang, C.C.3
Couch, G.S.4
Greenblatt, D.M.5
Meng, E.C.6
Ferrin, T.E.7
-
24
-
-
70349459442
-
Current performance gains from utilizing the gpu or the asic mdgrape-3 within an enhanced poisson boltzmann approach
-
Narumi, T., Yasuoka, K., Taiji, M. and Höfinger, S. (2009) Current performance gains from utilizing the gpu or the asic mdgrape- 3 within an enhanced poisson boltzmann approach. J. Comput. Chem., 30, 2351-2357.
-
(2009)
J. Comput. Chem.
, vol.30
, pp. 2351-2357
-
-
Narumi, T.1
Yasuoka, K.2
Taiji, M.3
Höfinger, S.4
-
26
-
-
79960146725
-
-
Narumi, T. Mr1/3 library, http://atlas.riken.go.jp/~narumi/MDM/library/ manual/install.html.
-
Mr1/3 Library
-
-
Narumi, T.1
-
27
-
-
35948963714
-
Accelerating molecular modeling applications with graphics processors
-
DOI 10.1002/jcc.20829
-
Stone, J.E., Phillips, J.C., Freddolino, P.L., Hardy, D.J., Trabuco, L.G. and Schulten, K. (2007) Accelerating molecular modeling applications with graphics processors. J. Comput. Chem., 28, 2618-2640. (Pubitemid 350074136)
-
(2007)
Journal of Computational Chemistry
, vol.28
, Issue.16
, pp. 2618-2640
-
-
Stone, J.E.1
Phillips, J.C.2
Freddolino, P.L.3
Hardy, D.J.4
Trabuco, L.G.5
Schulten, K.6
|