-
1
-
-
50849146117
-
Target sites of UV-B radiation in photosynthesis of higher plants
-
Bornman, J. F. Target sites of UV-B radiation in photosynthesis of higher plants J. Photochem. Photobiol., B 1989, 4, 145-158
-
(1989)
J. Photochem. Photobiol., B
, vol.4
, pp. 145-158
-
-
Bornman, J.F.1
-
2
-
-
0001130048
-
UV-B damage and protection at the molecular level in plants
-
Strid, Å.; Chow, W. S.; Anderson, J. M. UV-B damage and protection at the molecular level in plants Photosynth. Res. 1994, 39, 475-489
-
(1994)
Photosynth. Res.
, vol.39
, pp. 475-489
-
-
Strid, Å.1
Chow, W.S.2
Anderson, J.M.3
-
3
-
-
84873104912
-
UV-B exposure, ROS and stress: Inseparable companions or loosely linked associates?
-
Hideg, é.; Jansen, M. A. K.; Strid, Å. UV-B exposure, ROS and stress: inseparable companions or loosely linked associates? Trends Plant Sci. 2012, 18, 107-115
-
(2012)
Trends Plant Sci.
, vol.18
, pp. 107-115
-
-
Hideg, E.1
Jansen, M.A.K.2
Strid, Å.3
-
4
-
-
81555200690
-
Theoretical study of pyridoxine (vitamin B6) photolysis
-
Wu, M.; Xu, Q.; Strid, Å.; Martell, J. M.; Eriksson, L. A. Theoretical study of pyridoxine (vitamin B6) photolysis J. Phys. Chem. A 2011, 115, 13556-13563
-
(2011)
J. Phys. Chem. A
, vol.115
, pp. 13556-13563
-
-
Wu, M.1
Xu, Q.2
Strid, Å.3
Martell, J.M.4
Eriksson, L.A.5
-
5
-
-
84866444128
-
UV-B induced morphogenesis: Four players or a quartet?
-
Jansen, M. A. K.; Coffey, A. M.; Prinsen, E. UV-B induced morphogenesis: Four players or a quartet? Plant Signaling Behav. 2012, 7, 1185-1187
-
(2012)
Plant Signaling Behav.
, vol.7
, pp. 1185-1187
-
-
Jansen, M.A.K.1
Coffey, A.M.2
Prinsen, E.3
-
6
-
-
29144433413
-
A UV-B-specific signaling component orchestrates plant UV protection
-
Brown, B. A.; Cloix, C.; Jiang, G. H.; Kaiserli, E.; Herzyk, P.; Kliebenstein, D. J.; Jenkins, G. I. A UV-B-specific signaling component orchestrates plant UV protection Proc. Natl. Acad. Sci. U. S. A. 2005, 102, 18225-18230
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 18225-18230
-
-
Brown, B.A.1
Cloix, C.2
Jiang, G.H.3
Kaiserli, E.4
Herzyk, P.5
Kliebenstein, D.J.6
Jenkins, G.I.7
-
7
-
-
84863393216
-
Plant UVR8 photoreceptor senses UV-B by tryptophan-mediated disruption of cross-dimer salt bridges
-
Christie, J. M.; Arvai, A. S.; Baxter, K. J.; Heilmann, M.; Pratt, A. J.; O'Hara, A.; Kelly, S. M.; Hothorn, M.; Smith, B. O.; Hitomi, K.; Jenkins, G. I.; Getzoff, E. D. Plant UVR8 photoreceptor senses UV-B by tryptophan-mediated disruption of cross-dimer salt bridges Science 2012, 335, 1492-1496
-
(2012)
Science
, vol.335
, pp. 1492-1496
-
-
Christie, J.M.1
Arvai, A.S.2
Baxter, K.J.3
Heilmann, M.4
Pratt, A.J.5
O'Hara, A.6
Kelly, S.M.7
Hothorn, M.8
Smith, B.O.9
Hitomi, K.10
Jenkins, G.I.11
Getzoff, E.D.12
-
8
-
-
84859646883
-
UV-B photoreceptor-mediated signalling in plants
-
Heijde, M.; Ulm, R. UV-B photoreceptor-mediated signalling in plants Trends Plant Sci. 2012, 17, 230-237
-
(2012)
Trends Plant Sci.
, vol.17
, pp. 230-237
-
-
Heijde, M.1
Ulm, R.2
-
9
-
-
66449126361
-
Signal transduction in responses to UV-B radiation
-
Jenkins, G. I. Signal transduction in responses to UV-B radiation Annu. Rev. Plant Biol. 2009, 60, 407-431
-
(2009)
Annu. Rev. Plant Biol.
, vol.60
, pp. 407-431
-
-
Jenkins, G.I.1
-
10
-
-
84862776742
-
Structural basis of ultraviolet-B perception by UVR8
-
Wu, D.; Hu, Q.; Yan, Z.; Chen, W.; Yan, C.; Huang, X.; Zhang, J.; Yang, P.; Deng, H.; Wang, J.; Deng, X.; Shi, Y. Structural basis of ultraviolet-B perception by UVR8 Nature 2012, 484, 214-219
-
(2012)
Nature
, vol.484
, pp. 214-219
-
-
Wu, D.1
Hu, Q.2
Yan, Z.3
Chen, W.4
Yan, C.5
Huang, X.6
Zhang, J.7
Yang, P.8
Deng, H.9
Wang, J.10
Deng, X.11
Shi, Y.12
-
11
-
-
38949188735
-
UV-B signaling pathways with different fluence-rate response profiles are distinguished in mature Arabidopsis leaf tissue by requirement for UVR8, HY5, and HYH
-
Brown, B. A.; Jenkins, G. I. UV-B signaling pathways with different fluence-rate response profiles are distinguished in mature Arabidopsis leaf tissue by requirement for UVR8, HY5, and HYH Plant Physiol. 2008, 146, 576-588
-
(2008)
Plant Physiol.
, vol.146
, pp. 576-588
-
-
Brown, B.A.1
Jenkins, G.I.2
-
12
-
-
62049085316
-
Interaction of COP1 and UVR8 regulates UV-B-induced photomorphogenesis and stress acclimation in Arabidopsis
-
Favory, J. J.; Stec, A.; Gruber, H.; Rizzini, L.; Oravecz, A.; Funk, M.; Albert, A.; Cloix, C.; Jenkins, G. I.; Oakeley, E. J.; Seidlitz, H. K.; Nagy, F.; Ulm, R. Interaction of COP1 and UVR8 regulates UV-B-induced photomorphogenesis and stress acclimation in Arabidopsis EMBO J. 2009, 28, 591-601
-
(2009)
EMBO J.
, vol.28
, pp. 591-601
-
-
Favory, J.J.1
Stec, A.2
Gruber, H.3
Rizzini, L.4
Oravecz, A.5
Funk, M.6
Albert, A.7
Cloix, C.8
Jenkins, G.I.9
Oakeley, E.J.10
Seidlitz, H.K.11
Nagy, F.12
Ulm, R.13
-
13
-
-
35348841586
-
UV-B promotes rapid nuclear translocation of the Arabidopsis UV-B specific signaling component UVR8 and activates its function in the nucleus
-
Kaiserli, E.; Jenkins, G. I. UV-B promotes rapid nuclear translocation of the Arabidopsis UV-B specific signaling component UVR8 and activates its function in the nucleus Plant Cell 2007, 19, 2662-2673
-
(2007)
Plant Cell
, vol.19
, pp. 2662-2673
-
-
Kaiserli, E.1
Jenkins, G.I.2
-
14
-
-
79953272725
-
Perception of UV-B by the Arabidopsis UVR8 protein
-
Rizzini, L.; Favory, J. J.; Cloix, C.; Faggionato, D.; O'Hara, A.; Kaiserli, E.; Baumeister, R.; Schäfer, E.; Nagy, F.; Jenkins, G. I.; Ulm, R. Perception of UV-B by the Arabidopsis UVR8 protein Science 2011, 332, 103-106
-
(2011)
Science
, vol.332
, pp. 103-106
-
-
Rizzini, L.1
Favory, J.J.2
Cloix, C.3
Faggionato, D.4
O'Hara, A.5
Kaiserli, E.6
Baumeister, R.7
Schäfer, E.8
Nagy, F.9
Jenkins, G.I.10
Ulm, R.11
-
15
-
-
69649088670
-
UV-B action spectrum for UVR8-mediated HY5 transcript accumulation in Arabidopsis
-
Brown, B. A.; Headland, L. R.; Jenkins, G. I. UV-B action spectrum for UVR8-mediated HY5 transcript accumulation in Arabidopsis Photochem. Photobiol. 2009, 85, 1147-1155
-
(2009)
Photochem. Photobiol.
, vol.85
, pp. 1147-1155
-
-
Brown, B.A.1
Headland, L.R.2
Jenkins, G.I.3
-
16
-
-
84867036845
-
C-terminal region of the UV-B photoreceptor UVR8 initiates singaling through interaction with the COP1 protein
-
Cloix, C.; Kaiserli, E.; Heilmann, M.; Baxter, K. J.; Brown, B. A.; O'Hara, A.; Smith, B. O.; Christie, J. M.; Jenkins, G. I. C-terminal region of the UV-B photoreceptor UVR8 initiates singaling through interaction with the COP1 protein Proc. Natl. Acad. Sci. U. S. A. 2012, 109, 16366-16370
-
(2012)
Proc. Natl. Acad. Sci. U. S. A.
, vol.109
, pp. 16366-16370
-
-
Cloix, C.1
Kaiserli, E.2
Heilmann, M.3
Baxter, K.J.4
Brown, B.A.5
O'Hara, A.6
Smith, B.O.7
Christie, J.M.8
Jenkins, G.I.9
-
17
-
-
27744474619
-
COP1 - From plant photomorphogenesis to mammalian tumorigenesis
-
Yi, C.; Deng, X. W. COP1-from plant photomorphogenesis to mammalian tumorigenesis Trends Cell Biol. 2005, 15, 618-625
-
(2005)
Trends Cell Biol.
, vol.15
, pp. 618-625
-
-
Yi, C.1
Deng, X.W.2
-
18
-
-
33747470675
-
CONSTITUTIVELY PHOTOMORPHOGENIC1 is required for the UV-B response in Arabidopsis
-
Oravecz, A.; Baumann, A.; Máté, Z.; Brzezinska, A.; Molinier, J.; Oakeley, E. J.; Adám, E.; Schäfer, E.; Nagy, F.; Ulm, R. CONSTITUTIVELY PHOTOMORPHOGENIC1 is required for the UV-B response in Arabidopsis Plant Cell 2006, 18, 1975-1990
-
(2006)
Plant Cell
, vol.18
, pp. 1975-1990
-
-
Oravecz, A.1
Baumann, A.2
Máté, Z.3
Brzezinska, A.4
Molinier, J.5
Oakeley, E.J.6
Adám, E.7
Schäfer, E.8
Nagy, F.9
Ulm, R.10
-
19
-
-
79959769246
-
Computational evidence for the role of Arabidopsis thaliana UVR8 as UV-B photoreceptor and identification of its chromophore amino acids
-
Wu, M.; Grahn, E.; Eriksson, L. A.; Strid, Å. Computational evidence for the role of Arabidopsis thaliana UVR8 as UV-B photoreceptor and identification of its chromophore amino acids J. Chem. Inf. Model. 2011, 51, 1287-1285
-
(2011)
J. Chem. Inf. Model.
, vol.51
, pp. 1287-1285
-
-
Wu, M.1
Grahn, E.2
Eriksson, L.A.3
Strid, Å.4
-
20
-
-
84868159269
-
In vivo funtion of tryptophans in the Arabidopsis UV-B photoreceptor UVR8
-
O'Hara, A.; Jenkins, G. I. In vivo funtion of tryptophans in the Arabidopsis UV-B photoreceptor UVR8 Plant Cell 2012, 24, 3755-3766
-
(2012)
Plant Cell
, vol.24
, pp. 3755-3766
-
-
O'Hara, A.1
Jenkins, G.I.2
-
21
-
-
4243754128
-
Nonequilibrium equality for free energy differences
-
Jarzynski, C. Nonequilibrium equality for free energy differences Phys. Rev. Lett. 1997, 78, 2890-2693
-
(1997)
Phys. Rev. Lett.
, vol.78
, pp. 2890-2693
-
-
Jarzynski, C.1
-
22
-
-
84986519238
-
The weighted histogram analysus method for free-energy calculations on biomolecules. I. the method
-
Kumar, S.; Rosenberg, J. M.; Bouzida, D.; Swendsen, R. H.; Kollman, P. A. The weighted histogram analysus method for free-energy calculations on biomolecules. I. The method J. Comput. Chem. 1992, 13, 1011-1021
-
(1992)
J. Comput. Chem.
, vol.13
, pp. 1011-1021
-
-
Kumar, S.1
Rosenberg, J.M.2
Bouzida, D.3
Swendsen, R.H.4
Kollman, P.A.5
-
23
-
-
78651282170
-
G-wham-A free weighted histogram analysis implementation including rohust error and autocorrelation estimates
-
Hub, J. S.; de Groot, B. L.; van der Spoel, D. g-wham-A free weighted histogram analysis implementation including rohust error and autocorrelation estimates J. Chem. Theory Comput. 2010, 6, 3713-3720
-
(2010)
J. Chem. Theory Comput.
, vol.6
, pp. 3713-3720
-
-
Hub, J.S.1
De Groot, B.L.2
Van Der Spoel, D.3
-
24
-
-
33746730535
-
Does CO2 permeate through Aquaporin-1?
-
Hub, J. S.; de Groot, B. L. Does CO2 permeate through Aquaporin-1? Biophys. J. 2006, 91, 842-848
-
(2006)
Biophys. J.
, vol.91
, pp. 842-848
-
-
Hub, J.S.1
De Groot, B.L.2
-
25
-
-
0002174423
-
Steered Molecular Dynamics
-
1st ed. Deuflhard, P. Hermans, J. Leimkuhler, B. Mark, A. E. Reich, S. Skeel, R. D. Springer-Verlag: Berlin
-
Izrailev, S.; Stepaniants, S.; Isralewitz, B.; Kosztin, D.; Lu, H.; Molnar, F.; Wriggers, W.; Schulten, K. Steered Molecular Dynamics. In Computational Molecular Dynamics: Challenges, Methods, Ideas, 1st ed.; Deuflhard, P.; Hermans, J.; Leimkuhler, B.; Mark, A. E.; Reich, S.; Skeel, R. D., Eds.; Springer-Verlag: Berlin, 1998; Vol. 4, pp 39-65.
-
(1998)
Computational Molecular Dynamics: Challenges, Methods, Ideas
, vol.4
, pp. 39-65
-
-
Izrailev, S.1
Stepaniants, S.2
Isralewitz, B.3
Kosztin, D.4
Lu, H.5
Molnar, F.6
Wriggers, W.7
Schulten, K.8
-
26
-
-
0342929614
-
Nonphysical sampling distributions in Monte Carlo free-energy estimation: Umbrella sampling
-
Torrie, G. N.; Valleau, J. P. Nonphysical sampling distributions in Monte Carlo free-energy estimation: Umbrella sampling J. Comput. Phys. 1977, 23, 187-199
-
(1977)
J. Comput. Phys.
, vol.23
, pp. 187-199
-
-
Torrie, G.N.1
Valleau, J.P.2
-
27
-
-
16444385400
-
Monte Carlo free energy estimates using non-Boltzmann sampling:Application to the sub-critical Lennard-Jones fluid
-
Torrie, G. N.; Valleau, J. P. Monte Carlo free energy estimates using non-Boltzmann sampling:Application to the sub-critical Lennard-Jones fluid Chem. Phys. Lett. 1974, 28, 578-581
-
(1974)
Chem. Phys. Lett.
, vol.28
, pp. 578-581
-
-
Torrie, G.N.1
Valleau, J.P.2
-
28
-
-
0346126174
-
The free energy of spheres with dipoles: Monte Carlo with multistage sampling
-
Patey, G. N.; Valleau, J. P. The free energy of spheres with dipoles: Monte Carlo with multistage sampling Chem. Phys. Lett. 1973, 21, 297-300
-
(1973)
Chem. Phys. Lett.
, vol.21
, pp. 297-300
-
-
Patey, G.N.1
Valleau, J.P.2
-
29
-
-
18744372751
-
Calculation of absolute protein-ligand binding free energy from computer simulations
-
Woo, H. J.; Roux, B. Calculation of absolute protein-ligand binding free energy from computer simulations Proc. Natl. Acad. Sci. U. S. A. 2005, 102, 6825-6830
-
(2005)
Proc. Natl. Acad. Sci. U. S. A.
, vol.102
, pp. 6825-6830
-
-
Woo, H.J.1
Roux, B.2
-
30
-
-
65249154272
-
Standard free energy of binding from a one-dimensional potential of mean force
-
Doudou, S.; Burton, N. A.; Henchman, R. H. Standard free energy of binding from a one-dimensional potential of mean force J. Chem. Theory Comput. 2009, 5, 909-918
-
(2009)
J. Chem. Theory Comput.
, vol.5
, pp. 909-918
-
-
Doudou, S.1
Burton, N.A.2
Henchman, R.H.3
-
31
-
-
84872165531
-
Standard binding free energies from computer simulations: What is the best strategy?
-
Gumart, J. C.; Roux, B.; Chipot, C. Standard binding free energies from computer simulations: What is the best strategy? J. Chem. Theory Comput. 2013, 9, 794-802
-
(2013)
J. Chem. Theory Comput.
, vol.9
, pp. 794-802
-
-
Gumart, J.C.1
Roux, B.2
Chipot, C.3
-
32
-
-
84855757480
-
-
version 2011.10; Chemical Computing Group Inc. Montreal, Quebec, Canada
-
Molecular Operating Enviroment, version 2011.10; Chemical Computing Group Inc.: Montreal, Quebec, Canada, 2011.
-
(2011)
Molecular Operating Enviroment
-
-
-
33
-
-
46249092554
-
Gromacs 4: Algorithms for highly efficient, load-balanced, and scalable molecular simulation
-
Hess, B.; Kutzner, C.; Van der Spoel, D.; Lindahl, E. Gromacs 4: Algorithms for highly efficient, load-balanced, and scalable molecular simulation J. Chem. Theory Comput. 2008, 4, 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
-
34
-
-
84880552311
-
-
GROMACS. (accessed date May 8)
-
GROMACS. http://www.gromacs.org/ (accessed date May 8, 2013).
-
(2013)
-
-
-
35
-
-
0242663237
-
A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations
-
Duan, Y.; Wu, C.; Chowdhury, S.; Lee, M. C.; Xiong, G.; Zhang, W.; Yang, R.; Cieplak, P.; Luo, R.; Lee, T.; Caldwell, J.; Wang, J.; Kollman, P. A point-charge force field for molecular mechanics simulations of proteins based on condensed-phase quantum mechanical calculations J. Chem. Theory Comput. 2003, 24, 1999-2012
-
(2003)
J. Chem. Theory Comput.
, vol.24
, pp. 1999-2012
-
-
Duan, Y.1
Wu, C.2
Chowdhury, S.3
Lee, M.C.4
Xiong, G.5
Zhang, W.6
Yang, R.7
Cieplak, P.8
Luo, R.9
Lee, T.10
Caldwell, J.11
Wang, J.12
Kollman, P.13
-
36
-
-
33846823909
-
Particle mesh Ewald: An N-log(N) method for Ewald sums in large systems
-
Darden, T.; York, D.; Pedersen, L. Particle mesh Ewald: An N-log(N) method for Ewald sums in large systems J. Chem. Phys. 1993, 98, 10089-10092
-
(1993)
J. Chem. Phys.
, vol.98
, pp. 10089-10092
-
-
Darden, T.1
York, D.2
Pedersen, L.3
-
37
-
-
33645961739
-
A smooth particle mesh Ewald method
-
Essmann, U.; Perera, L.; Berkowitz, M. L.; Darden, T.; Lee, H.; Pedersen, L. G. A smooth particle mesh Ewald method J. Chem. Phys. 1995, 103, 8577-8593
-
(1995)
J. Chem. Phys.
, vol.103
, pp. 8577-8593
-
-
Essmann, U.1
Perera, L.2
Berkowitz, M.L.3
Darden, T.4
Lee, H.5
Pedersen, L.G.6
-
38
-
-
33750587438
-
Molecular dynamics with coupling to an external bath
-
Berendsen, H. J. C.; Postma, J. P. M.; van Gunsteren, W. F.; DiNola, A.; Haak, J. R. Molecular dynamics with coupling to an external bath J. Chem. Phys. 1984, 81, 3684-3690
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 3684-3690
-
-
Berendsen, H.J.C.1
Postma, J.P.M.2
Van Gunsteren, W.F.3
Dinola, A.4
Haak, J.R.5
-
39
-
-
0001538909
-
Canonical dynamics: Equilibrium phase-space distributions
-
Hoover, W. G. Canonical dynamics: Equilibrium phase-space distributions Phys. Rev. A 1985, 31, 1695-1697
-
(1985)
Phys. Rev. A
, vol.31
, pp. 1695-1697
-
-
Hoover, W.G.1
-
40
-
-
34547809547
-
A unified formulation of the constant temperature molecular dynamics methods
-
Nosé, S. J. A unified formulation of the constant temperature molecular dynamics methods J. Chem. Phys. 1984, 81, 511-519
-
(1984)
J. Chem. Phys.
, vol.81
, pp. 511-519
-
-
Nosé, S.J.1
-
41
-
-
0000397037
-
A study of solid and liquid crbon tetrafluoride using the constant pressure molecular dynamics technique
-
Nosé, S.; Klein, M. L. A study of solid and liquid crbon tetrafluoride using the constant pressure molecular dynamics technique J. Chem. Phys. 1983, 78, 6928-6939
-
(1983)
J. Chem. Phys.
, vol.78
, pp. 6928-6939
-
-
Nosé, S.1
Klein, M.L.2
-
42
-
-
0019707626
-
Polymorphic transitions in single crystals: A new molecular dynamics method
-
Parrinello, M.; Rahman, A. Polymorphic transitions in single crystals: A new molecular dynamics method J. Appl. Phys. 1981, 52, 7182-7190
-
(1981)
J. Appl. Phys.
, vol.52
, pp. 7182-7190
-
-
Parrinello, M.1
Rahman, A.2
-
43
-
-
84880542958
-
-
YASARA. (accessed date May 8)
-
YASARA. http://www.yasara.org (accessed date May 8, 2013).
-
(2013)
-
-
-
44
-
-
75749150524
-
Assessing the stability of alzheimer's amyloid protofibrils using molecular dynmaics
-
Lemkul, J. A.; Bevan, D. R. Assessing the stability of alzheimer's amyloid protofibrils using molecular dynmaics J. Phys. Chem. B 2009, 114, 1652-1660
-
(2009)
J. Phys. Chem. B
, vol.114
, pp. 1652-1660
-
-
Lemkul, J.A.1
Bevan, D.R.2
-
45
-
-
84871226685
-
Steered molecular dynamics simulations on the binding of the appendant structure and helix-β2 in domain-swapped human cystatin C dimer
-
Shen, M.; Guan, J.; Xu, L.; Yu, Y.; He, J.; Jones, G. W.; Song, Y. Steered molecular dynamics simulations on the binding of the appendant structure and helix-β2 in domain-swapped human cystatin C dimer J. Biomol. Struct. Dyn. 2012, 30, 652-661
-
(2012)
J. Biomol. Struct. Dyn.
, vol.30
, pp. 652-661
-
-
Shen, M.1
Guan, J.2
Xu, L.3
Yu, Y.4
He, J.5
Jones, G.W.6
Song, Y.7
-
46
-
-
0037195144
-
A simple physical model for binding energy hot spots in protein-protein complexes
-
Kortemme, T.; Baker, D. A simple physical model for binding energy hot spots in protein-protein complexes Proc. Natl. Acad. Sci. U. S. A. 2002, 99, 14116-14121
-
(2002)
Proc. Natl. Acad. Sci. U. S. A.
, vol.99
, pp. 14116-14121
-
-
Kortemme, T.1
Baker, D.2
|