-
1
-
-
0242405514
-
Ion channel gating: Insight via molecular simulations
-
Beckstein, O., P. C. Biggin, P. Bond, J. N. Bright, C. Domene, A. Grottesi, J. Holyoate, and M. S. P. Sansom. 2003. Ion channel gating: insight via molecular simulations. FEBS Lett. 555:85-90.
-
(2003)
FEBS Lett.
, vol.555
, pp. 85-90
-
-
Beckstein, O.1
Biggin, P.C.2
Bond, P.3
Bright, J.N.4
Domene, C.5
Grottesi, A.6
Holyoate, J.7
Sansom, M.S.P.8
-
2
-
-
0020004831
-
Vanadate inhibition of the Ca2+-dependent conformational change of the sarcoplasmic reticulum Ca2+-ATPase
-
Bennett, N., and Y. Dupont. 1982. Vanadate inhibition of the Ca2+-dependent conformational change of the sarcoplasmic reticulum Ca2+-ATPase. FEBS Lett. 139:237-240.
-
(1982)
FEBS Lett.
, vol.139
, pp. 237-240
-
-
Bennett, N.1
Dupont, Y.2
-
3
-
-
0036297629
-
Multi-resolution contour-based fitting of macromolecular structures
-
Chacon, P., and W. Wriggers. 2002. Multi-resolution contour-based fitting of macromolecular structures. J. Mol. Biol. 317:375-384.
-
(2002)
J. Mol. Biol.
, vol.317
, pp. 375-384
-
-
Chacon, P.1
Wriggers, W.2
-
4
-
-
0032929650
-
High-resolution electron cryomicroscopy of macromolecular assemblies
-
Chiu, W., A. McGough, M. B. Sherman, and M. F. Schmidt. 1999. High-resolution electron cryomicroscopy of macromolecular assemblies. Trends Cell Biol. 9:154-159.
-
(1999)
Trends Cell Biol.
, vol.9
, pp. 154-159
-
-
Chiu, W.1
McGough, A.2
Sherman, M.B.3
Schmidt, M.F.4
-
5
-
-
0029011701
-
A second generation force field for the simulation of proteins and nucleic acids
-
Cornell, W. D., P. Cieplak, C. I. Bayly, I. R. Gould, K. M. Merz, Jr., D. M. Ferguson, D. C. Spellmeyer, T. Fox, J. W. Caldwell, and P. A. Kollman. 1995. A second generation force field for the simulation of proteins and nucleic acids. J. Am. Chem. Soc. 117:5179-5197.
-
(1995)
J. Am. Chem. Soc.
, vol.117
, pp. 5179-5197
-
-
Cornell, W.D.1
Cieplak, P.2
Bayly, C.I.3
Gould, I.R.4
Merz Jr., K.M.5
Ferguson, D.M.6
Spellmeyer, D.C.7
Fox, T.8
Caldwell, J.W.9
Kollman, P.A.10
-
7
-
-
2342518038
-
On the use of low-frequency normal modes to enforce collective movements in refining macromolecular structural models
-
Delarue, M., and P. Dumas. 2004. On the use of low-frequency normal modes to enforce collective movements in refining macromolecular structural models. Proc. Natl. Acad. Sci. USA. 101:6957-6962.
-
(2004)
Proc. Natl. Acad. Sci. USA
, vol.101
, pp. 6957-6962
-
-
Delarue, M.1
Dumas, P.2
-
8
-
-
0037319733
-
Electron microscopy of functional ribosome complexes
-
Frank, J. 2003. Electron microscopy of functional ribosome complexes. Biopolymers. 68:223-233.
-
(2003)
Biopolymers
, vol.68
, pp. 223-233
-
-
Frank, J.1
-
9
-
-
0036426428
-
Three-dimensional imaging of biological complexity
-
Frank, J., T. Wagenknecht, B. F. McEwen, M. Marko, C. E. Hsieh, and C. A. Mannella. 2002. Three-dimensional imaging of biological complexity. J. Struct. Biol. 138:85-91.
-
(2002)
J. Struct. Biol.
, vol.138
, pp. 85-91
-
-
Frank, J.1
Wagenknecht, T.2
McEwen, B.F.3
Marko, M.4
Hsieh, C.E.5
Mannella, C.A.6
-
10
-
-
0037043686
-
Calcium calisthenics
-
Green, N. M., and D. H. MacLennan. 2002. Calcium calisthenics. Nature. 418:598-599.
-
(2002)
Nature
, vol.418
, pp. 598-599
-
-
Green, N.M.1
MacLennan, D.H.2
-
11
-
-
0032533790
-
Analysis of domain motions by approximate normal mode calculations
-
Hinsen, K. 1998. Analysis of domain motions by approximate normal mode calculations. Proteins. 33:417-429.
-
(1998)
Proteins
, vol.33
, pp. 417-429
-
-
Hinsen, K.1
-
12
-
-
0001962564
-
The molecular modeling toolkit: A new approach to molecular simulations
-
Hinsen, K. 2000. The molecular modeling toolkit: a new approach to molecular simulations. J. Comput. Chem. 21:79-85, http://dirac.cnrs-orleans.fr/ MMTK/
-
(2000)
J. Comput. Chem.
, vol.21
, pp. 79-85
-
-
Hinsen, K.1
-
13
-
-
0034333103
-
Harmonicity in slow protein dynamics
-
Hinsen, K., A.-J. Petrescu, S. Dellerue, M.-C. Bellissent-Funel, and G. R. Kneller. 2000. Harmonicity in slow protein dynamics. Chem. Phys. 261:25-37.
-
(2000)
Chem. Phys.
, vol.261
, pp. 25-37
-
-
Hinsen, K.1
Petrescu, A.-J.2
Dellerue, S.3
Bellissent-Funel, M.-C.4
Kneller, G.R.5
-
14
-
-
0029878720
-
VMD: Visual molecular dynamics
-
Humphrey, W., A. Dalke, and K. Schulten. 1996. VMD: Visual molecular dynamics. J. Mol. Graph. 14:33-38. http://www.ks.uiuc.edu/Research/vmd/
-
(1996)
J. Mol. Graph.
, vol.14
, pp. 33-38
-
-
Humphrey, W.1
Dalke, A.2
Schulten, K.3
-
15
-
-
0036725277
-
Molecular dynamics simulations of biomolecules
-
Karplus, M., and J. A. McCammon. 2002. Molecular dynamics simulations of biomolecules. Nat. Struct. Biol. 9:646-652.
-
(2002)
Nat. Struct. Biol.
, vol.9
, pp. 646-652
-
-
Karplus, M.1
McCammon, J.A.2
-
16
-
-
0035875164
-
What the structure of a calcium pump tells us about its mechanism
-
Lee, A. G., and J. M. East. 2001. What the structure of a calcium pump tells us about its mechanism. Biochem. J. 356:665-683.
-
(2001)
Biochem. J.
, vol.356
, pp. 665-683
-
-
Lee, A.G.1
East, J.M.2
-
17
-
-
0037173062
-
How to describe protein motion without amino acid sequence and atomic coordinates
-
Ming, D., Y. Kong, M. A. Lambert, Z. Huang, and J. Ma. 2002. How to describe protein motion without amino acid sequence and atomic coordinates. Proc. Natl. Acad. Sci. USA. 99:8620-8625.
-
(2002)
Proc. Natl. Acad. Sci. USA
, vol.99
, pp. 8620-8625
-
-
Ming, D.1
Kong, Y.2
Lambert, M.A.3
Huang, Z.4
Ma, J.5
-
18
-
-
0029940235
-
Structural organization, ion transport, and energy transduction of P-type ATPases
-
Møller, J. V., B. Jull, and M. le Maire. 1996. Structural organization, ion transport, and energy transduction of P-type ATPases. Biochim. Biophys. Acta. 1286:1-51.
-
(1996)
Biochim. Biophys. Acta
, vol.1286
, pp. 1-51
-
-
Møller, J.V.1
Jull, B.2
Le Maire, M.3
-
19
-
-
0036795476
-
On the fitting of model electron densities into EM reconstructions: A reciprocal-space formulation
-
Navaza, J., J. Lepault, F. A. Rey, C. Alvarez-Rua, and J. Borge. 2002. On the fitting of model electron densities into EM reconstructions: a reciprocal-space formulation. Acta Crystallogr. D Biol. Crystallogr. 58:1820-1825.
-
(2002)
Acta Crystallogr. D Biol. Crystallogr.
, vol.58
, pp. 1820-1825
-
-
Navaza, J.1
Lepault, J.2
Rey, F.A.3
Alvarez-Rua, C.4
Borge, J.5
-
20
-
-
0141865614
-
Transconformations of the SERCA1 Ca-ATPase: A normal mode study
-
Reuter, N., K. Hinsen, and J.-J. Lacapère. 2003. Transconformations of the SERCA1 Ca-ATPase: a normal mode study. Biophys. J. 85:2186-2197.
-
(2003)
Biophys. J.
, vol.85
, pp. 2186-2197
-
-
Reuter, N.1
Hinsen, K.2
Lacapère, J.-J.3
-
21
-
-
0033776245
-
Docking structures of domains into maps from cryoelectron microscopy using local correlation
-
Roseman, A. M. 2000. Docking structures of domains into maps from cryoelectron microscopy using local correlation. Acta Crystallogr. D Biol. Crystallogr. 56:1332-1340.
-
(2000)
Acta Crystallogr. D Biol. Crystallogr.
, vol.56
, pp. 1332-1340
-
-
Roseman, A.M.1
-
22
-
-
0033780164
-
Fitting atomic models into electron-microscopy maps
-
Rossmann, M. G. 2000. Fitting atomic models into electron-microscopy maps. Acta Crysrallogr. D Biol. Crystallogr. 56:1341-1349.
-
(2000)
Acta Crysrallogr. D Biol. Crystallogr.
, vol.56
, pp. 1341-1349
-
-
Rossmann, M.G.1
-
23
-
-
0033813317
-
Conformational changes studied by cryo-electron microscopy
-
Saibil, H. R. 2000. Conformational changes studied by cryo-electron microscopy. Nat. Struct. Biol. 7:711-714.
-
(2000)
Nat. Struct. Biol.
, vol.7
, pp. 711-714
-
-
Saibil, H.R.1
-
25
-
-
0033850808
-
Calcium transport across the sarcoplasmic reticulum: Structure and function of Ca2+-ATPase and the ryanodine receptor
-
Stokes, D. L., and T. Wagenknecht. 2000. Calcium transport across the sarcoplasmic reticulum: structure and function of Ca2+-ATPase and the ryanodine receptor. Eur. J. Biochem. 267:5274-5279.
-
(2000)
Eur. J. Biochem.
, vol.267
, pp. 5274-5279
-
-
Stokes, D.L.1
Wagenknecht, T.2
-
26
-
-
3242883858
-
On the potential of normal-mode analysis for solving difficult molecular replacement problems
-
Suhre, K., and Y.-H. Sanejouand. 2004. On the potential of normal-mode analysis for solving difficult molecular replacement problems. Acta Crystallogr. D Biol. Crystallogr. 60:769-799.
-
(2004)
Acta Crystallogr. D Biol. Crystallogr.
, vol.60
, pp. 769-799
-
-
Suhre, K.1
Sanejouand, Y.-H.2
-
27
-
-
1642355235
-
Flexible multi-scale fitting of atomic structures into low-resolution electron density maps with elastic network normal mode analysis
-
Tama, F., O. Miyashita, and C. L. Brooks. 2004. Flexible multi-scale fitting of atomic structures into low-resolution electron density maps with elastic network normal mode analysis. J. Mol. Biol. 337:985-999.
-
(2004)
J. Mol. Biol.
, vol.337
, pp. 985-999
-
-
Tama, F.1
Miyashita, O.2
Brooks, C.L.3
-
28
-
-
0036382958
-
Exploring global distortions of biological macromolecules and assemblies from low-resolution structural information and elastic network theory
-
Tama, F., W. Wriggers, and C. L. Brooks. 2002. Exploring global distortions of biological macromolecules and assemblies from low-resolution structural information and elastic network theory. J. Mol. Biol. 321:297-305.
-
(2002)
J. Mol. Biol.
, vol.321
, pp. 297-305
-
-
Tama, F.1
Wriggers, W.2
Brooks, C.L.3
-
29
-
-
0034621834
-
Crystal structure of the calcium pump of sarcoplasmic reticulum at 2.6 Å resolution
-
Toyoshima, C., M. Nakasako, H. Nomura, and H. Ogawa. 2000. Crystal structure of the calcium pump of sarcoplasmic reticulum at 2.6 Å resolution. Nature. 405:647-655.
-
(2000)
Nature
, vol.405
, pp. 647-655
-
-
Toyoshima, C.1
Nakasako, M.2
Nomura, H.3
Ogawa, H.4
-
30
-
-
0037043709
-
Structural changes in the calcium pump accompanying the dissociation of calcium
-
Toyoshima, C., and H. Nomura. 2002. Structural changes in the calcium pump accompanying the dissociation of calcium. Nature. 418:605-611.
-
(2002)
Nature
, vol.418
, pp. 605-611
-
-
Toyoshima, C.1
Nomura, H.2
-
31
-
-
0027512587
-
Three-dimensional cryo-electron microscopy of the calcium ion pump in the sarcoplasmic reticulum membrane
-
Toyoshima, C., H. Sasabe, and D. L. Stokes. 1993. Three-dimensional cryo-electron microscopy of the calcium ion pump in the sarcoplasmic reticulum membrane. Nature. 362:467-471.
-
(1993)
Nature
, vol.362
, pp. 467-471
-
-
Toyoshima, C.1
Sasabe, H.2
Stokes, D.L.3
-
32
-
-
0242488935
-
Structure and action of the nicotinic acetylcholine receptor explored by electron microscopy
-
Unwin, N. 2003. Structure and action of the nicotinic acetylcholine receptor explored by electron microscopy. FEBS Lett. 555:91-95.
-
(2003)
FEBS Lett.
, vol.555
, pp. 91-95
-
-
Unwin, N.1
-
33
-
-
0043238084
-
Dynamical properties of the MscL of Escherichia coli: A normal mode analysis
-
Valadie, H., J.-J. Lacapère, Y.-H. Sanejouand, and C. Etchebest. 2003. Dynamical properties of the MscL of Escherichia coli: a normal mode analysis. J. Mol. Biol. 332:657-674.
-
(2003)
J. Mol. Biol.
, vol.332
, pp. 657-674
-
-
Valadie, H.1
Lacapère, J.-J.2
Sanejouand, Y.-H.3
Etchebest, C.4
-
35
-
-
0032779888
-
Quantitative Fitting of Atomic Models into Observed Densities Derived by Electron Microscopy
-
Volkmann, N., and D. Hanein. 1999. Quantitative Fitting of Atomic Models into Observed Densities Derived by Electron Microscopy. J. Struct. Biol. 125:176-184.
-
(1999)
J. Struct. Biol.
, vol.125
, pp. 176-184
-
-
Volkmann, N.1
Hanein, D.2
-
36
-
-
0034802465
-
Modeling tricks and fitting techniques for multiresolution structures
-
Wriggers, W., and P. Chacon. 2001. Modeling tricks and fitting techniques for multiresolution structures. Structure (Camb). 9:779-788.
-
(2001)
Structure (Camb)
, vol.9
, pp. 779-788
-
-
Wriggers, W.1
Chacon, P.2
-
37
-
-
0037285752
-
A core-weighted fitting method for docking atomic structures into low-resolution maps: Application to cryolectron microscopy
-
Wu, X., J. L. S. Milne, M. J. Borgnia, A. V. Rostapshov, S. Subramaniam, and B. R. Brooks. 2002. A core-weighted fitting method for docking atomic structures into low-resolution maps: application to cryolectron microscopy. J. Struct. Biol. 141:63-76.
-
(2002)
J. Struct. Biol.
, vol.141
, pp. 63-76
-
-
Wu, X.1
Milne, J.L.S.2
Borgnia, M.J.3
Rostapshov, A.V.4
Subramaniam, S.5
Brooks, B.R.6
-
38
-
-
0346057937
-
Refinement of F-actin model against fiber diffraction data by long-range normal modes
-
Wu, Y., and J. Ma. 2004. Refinement of F-actin model against fiber diffraction data by long-range normal modes. Biophys. J. 86:116-124.
-
(2004)
Biophys. J.
, vol.86
, pp. 116-124
-
-
Wu, Y.1
Ma, J.2
-
39
-
-
0036300446
-
A structural model for the catalytic cycle of Ca-ATPase
-
Xu, C., W. J. Rice, W. He, and D. L. Stokes. 2002. A structural model for the catalytic cycle of Ca-ATPase. J. Mol. Biol. 316:201-211.
-
(2002)
J. Mol. Biol.
, vol.316
, pp. 201-211
-
-
Xu, C.1
Rice, W.J.2
He, W.3
Stokes, D.L.4
-
40
-
-
2342567878
-
The mechanics of calcium transport
-
Young, H. S., and D. L. Stokes. 2004. The mechanics of calcium transport. J. Membr. Biol. 198:55-63.
-
(2004)
J. Membr. Biol.
, vol.198
, pp. 55-63
-
-
Young, H.S.1
Stokes, D.L.2
-
41
-
-
0032560170
-
Structure of the calcium pump from sarcoplasmic reticulum at 8 Å resolution
-
Zhang, P., C. Toyoshima, K. Yonekura, N. M. Green, and D. L. Stokes. 1998. Structure of the calcium pump from sarcoplasmic reticulum at 8 Å resolution. Nature. 392:835-839.
-
(1998)
Nature
, vol.392
, pp. 835-839
-
-
Zhang, P.1
Toyoshima, C.2
Yonekura, K.3
Green, N.M.4
Stokes, D.L.5
|