-
1
-
-
0038210214
-
Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria
-
Mandal, M., Boese, B., Barrick, J. E., Winkler, W. C., Breaker, R. R. Riboswitches control fundamental biochemical pathways in Bacillus subtilis and other bacteria. Cell 113, 577-586 (2003).
-
(2003)
Cell
, vol.113
, pp. 577-586
-
-
Mandal, M.1
Boese, B.2
Barrick, J.E.3
Winkler, W.C.4
Breaker, R.R.5
-
2
-
-
0036753365
-
Genetic control by a metabolite binding mRNA
-
Nahvi, A., et al. Genetic control by a metabolite binding mRNA. Chem. Biol. 9, 1043 (2002).
-
(2002)
Chem. Biol.
, vol.9
, pp. 1043
-
-
Nahvi, A.1
-
4
-
-
0033762447
-
Analyzing protein functions in four dimensions
-
Hajdu, J., et al. Analyzing protein functions in four dimensions. Nat. Struct. Biol. 7, 1006-1012 (2000).
-
(2000)
Nat. Struct. Biol.
, vol.7
, pp. 1006-1012
-
-
Hajdu, J.1
-
5
-
-
84864004802
-
High-resolution protein structure determination by serial femtosecond crystallography
-
Boutet, S., et al. High-resolution protein structure determination by serial femtosecond crystallography. Science 337, 362-364 (2012).
-
(2012)
Science
, vol.337
, pp. 362-364
-
-
Boutet, S.1
-
6
-
-
79551658540
-
Femtosecond X-ray protein nanocrystallography
-
Chapman, H. N., et al. Femtosecond X-ray protein nanocrystallography. Nature 470, 73-77 (2011).
-
(2011)
Nature
, vol.470
, pp. 73-77
-
-
Chapman, H.N.1
-
7
-
-
10644250950
-
Structural basis for discriminative regulation of gene expression by adenine-and guanine-sensing mRNAs
-
Serganov, A., et al. Structural basis for discriminative regulation of gene expression by adenine-and guanine-sensing mRNAs. Chem. Biol. 11, 1729-1741 (2004).
-
(2004)
Chem. Biol.
, vol.11
, pp. 1729-1741
-
-
Serganov, A.1
-
8
-
-
0142075327
-
Genetic control by metabolite-binding riboswitches
-
Winkler, W. C., Breaker, R. R. Genetic control by metabolite-binding riboswitches. ChemBioChem 4, 1024-1032 (2003).
-
(2003)
ChemBioChem
, vol.4
, pp. 1024-1032
-
-
Winkler, W.C.1
Breaker, R.R.2
-
9
-
-
84865231710
-
Structure and mechanism of purine-binding riboswitches
-
Batey, R. T. Structure and mechanism of purine-binding riboswitches. Q. Rev. Biophys. 45, 345-381 (2012).
-
(2012)
Q. Rev. Biophys.
, vol.45
, pp. 345-381
-
-
Batey, R.T.1
-
10
-
-
84885985615
-
Ligand-induced stabilization of the aptamer terminal helix in the add adenine riboswitch
-
Di Palma, F., Colizzi, F., Bussi, G. Ligand-induced stabilization of the aptamer terminal helix in the add adenine riboswitch. RNA 19, 1517-1524 (2013).
-
(2013)
RNA
, vol.19
, pp. 1517-1524
-
-
Di Palma, F.1
Colizzi, F.2
Bussi, G.3
-
11
-
-
33845942987
-
-
The adenine riboswitch. A new gene regulation mechanism.
-
Lemay, J. F., Lafontaine, D. A. [The adenine riboswitch: a new gene regulation mechanism]. Med. Sci. (Paris) 22, 1053-1059 (2006).
-
(2006)
Med. Sci. (Paris)
, vol.22
, pp. 1053-1059
-
-
Lemay, J.F.1
Lafontaine, D.A.2
-
12
-
-
9244225713
-
Structure of a natural guanineresponsive riboswitch complexed with the metabolite hypoxanthine
-
Batey, R. T., Gilbert, S. D., Montange, R. K. Structure of a natural guanineresponsive riboswitch complexed with the metabolite hypoxanthine. Nature 432, 411-415 (2004).
-
(2004)
Nature
, vol.432
, pp. 411-415
-
-
Batey, R.T.1
Gilbert, S.D.2
Montange, R.K.3
-
13
-
-
84929317576
-
Dramatic improvement of crystals of large RNAs by cation replacement and dehydration
-
Zhang, J., Ferré-D'Amaré, A. R. Dramatic improvement of crystals of large RNAs by cation replacement and dehydration. Structure 22, 1363-1371 (2014).
-
(2014)
Structure
, vol.22
, pp. 1363-1371
-
-
Zhang, J.1
Ferré-D'Amaré, A.R.2
-
14
-
-
34447548824
-
Ligand-induced folding of the adenosine deaminase A-riboswitch and implications on riboswitch translational control
-
Rieder, R., Lang, K., Graber, D., Micura, R. Ligand-induced folding of the adenosine deaminase A-riboswitch and implications on riboswitch translational control. ChemBioChem 8, 896-902 (2007).
-
(2007)
ChemBioChem
, vol.8
, pp. 896-902
-
-
Rieder, R.1
Lang, K.2
Graber, D.3
Micura, R.4
-
15
-
-
33646768226
-
Thermodynamic and kinetic characterization of ligand binding to the purine riboswitch aptamer domain
-
Gilbert, S. D., Stoddard, C. D., Wise, S. J., Batey, R. T. Thermodynamic and kinetic characterization of ligand binding to the purine riboswitch aptamer domain. J. Mol. Biol. 359, 754-768 (2006).
-
(2006)
J. Mol. Biol.
, vol.359
, pp. 754-768
-
-
Gilbert, S.D.1
Stoddard, C.D.2
Wise, S.J.3
Batey, R.T.4
-
16
-
-
77951236405
-
Riboswitch structure: An internal residue mimicking the purine ligand
-
Delfosse, V., et al. Riboswitch structure: an internal residue mimicking the purine ligand. Nucleic Acids Res. 38, 2057-2068 (2010).
-
(2010)
Nucleic Acids Res.
, vol.38
, pp. 2057-2068
-
-
Delfosse, V.1
-
17
-
-
79960114180
-
Comparison of a preQ1 riboswitch aptamer in metabolite-bound and free states with implications for gene regulation
-
Jenkins, J. L., Krucinska, J., McCarty, R. M., Bandarian, V., Wedekind, J. E. Comparison of a preQ1 riboswitch aptamer in metabolite-bound and free states with implications for gene regulation. J. Biol. Chem. 286, 24626-24637 (2011).
-
(2011)
J. Biol. Chem.
, vol.286
, pp. 24626-24637
-
-
Jenkins, J.L.1
Krucinska, J.2
McCarty, R.M.3
Bandarian, V.4
Wedekind, J.E.5
-
18
-
-
84966311116
-
Femtosecond structural dynamics drives the trans/cis isomerization in photoactive yellow protein
-
Pande, K., et al. Femtosecond structural dynamics drives the trans/cis isomerization in photoactive yellow protein. Science 352, 725-729 (2016).
-
(2016)
Science
, vol.352
, pp. 725-729
-
-
Pande, K.1
-
19
-
-
84918582756
-
Time-resolved serial crystallography captures high-resolution intermediates of photoactive yellow protein
-
Tenboer, J., et al. Time-resolved serial crystallography captures high-resolution intermediates of photoactive yellow protein. Science 346, 1242-1246 (2014).
-
(2014)
Science
, vol.346
, pp. 1242-1246
-
-
Tenboer, J.1
-
20
-
-
84944769107
-
Direct observation of ultrafast collective motions in CO myoglobin upon ligand dissociation
-
Barends, T. R., et al. Direct observation of ultrafast collective motions in CO myoglobin upon ligand dissociation. Science 350, 445-450 (2015).
-
(2015)
Science
, vol.350
, pp. 445-450
-
-
Barends, T.R.1
-
21
-
-
0023650022
-
Millisecond X-ray diffraction and the first electron density map from Laue photographs of a protein crystal
-
Hajdu, J., et al. Millisecond X-ray diffraction and the first electron density map from Laue photographs of a protein crystal. Nature 329, 178-181 (1987).
-
(1987)
Nature
, vol.329
, pp. 178-181
-
-
Hajdu, J.1
-
22
-
-
84939785300
-
Double-focusing mixing jet for XFEL study of chemical kinetics
-
Wang, D., Weierstall, U., Pollack, L., Spence, J. Double-focusing mixing jet for XFEL study of chemical kinetics. J. Synchrotron Radiat. 21, 1364-1366 (2014).
-
(2014)
J. Synchrotron Radiat.
, vol.21
, pp. 1364-1366
-
-
Wang, D.1
Weierstall, U.2
Pollack, L.3
Spence, J.4
-
23
-
-
84878734295
-
Mix and inject: Reaction initiation by diffusion for time-resolved acromolecular crystallography
-
Schmidt, M. Mix and inject: reaction initiation by diffusion for time-resolved acromolecular crystallography. Adv. Condens. Matter Phys. 2013, 167276 (2013).
-
(2013)
Adv. Condens. Matter Phys.
, vol.2013
, pp. 167276
-
-
Schmidt, M.1
-
24
-
-
4744343045
-
Linkage between dynamics and catalysis in a thermophilicmesophilic enzyme pair
-
Wolf-Watz, M., et al. Linkage between dynamics and catalysis in a thermophilicmesophilic enzyme pair. Nat. Struct. Mol. Biol. 11, 945-949 (2004).
-
(2004)
Nat. Struct. Mol. Biol.
, vol.11
, pp. 945-949
-
-
Wolf-Watz, M.1
-
26
-
-
0024991348
-
Calcium binding sites in tomato bushy stunt virus visualized by Laue crystallography
-
Campbell, J. W., et al. Calcium binding sites in tomato bushy stunt virus visualized by Laue crystallography. J. Mol. Biol. 214, 627-632 (1990).
-
(1990)
J. Mol. Biol.
, vol.214
, pp. 627-632
-
-
Campbell, J.W.1
-
27
-
-
84908221627
-
Modelling dynamics in protein crystal structures by ensemble refinement
-
Burnley, B. T., Afonine, P. V., Adams, P. D., Gros, P. Modelling dynamics in protein crystal structures by ensemble refinement. eLife 1, e00311 (2012).
-
(2012)
ELife
, vol.1
, pp. e00311
-
-
Burnley, B.T.1
Afonine, P.V.2
Adams, P.D.3
Gros, P.4
-
28
-
-
80052602449
-
Long-range pseudoknot interactions dictate the regulatory response in the tetrahydrofolate riboswitch
-
Huang, L., Ishibe-Murakami, S., Patel, D. J., Serganov, A. Long-range pseudoknot interactions dictate the regulatory response in the tetrahydrofolate riboswitch. Proc. Natl Acad. Sci. USA 108, 14801-14806 (2011).
-
(2011)
Proc. Natl Acad. Sci. USA
, vol.108
, pp. 14801-14806
-
-
Huang, L.1
Ishibe-Murakami, S.2
Patel, D.J.3
Serganov, A.4
-
29
-
-
84875043544
-
Folding and ligand recognition of the TPP riboswitch aptamer at single-molecule resolution
-
Haller, A., Altman, R. B., Soulière, M. F., Blanchard, S. C., Micura, R. Folding and ligand recognition of the TPP riboswitch aptamer at single-molecule resolution. Proc. Natl Acad. Sci. USA 110, 4188-4193 (2013).
-
(2013)
Proc. Natl Acad. Sci. USA
, vol.110
, pp. 4188-4193
-
-
Haller, A.1
Altman, R.B.2
Soulière, M.F.3
Blanchard, S.C.4
Micura, R.5
-
30
-
-
84978438758
-
Imaging enzyme kinetics at atomic resolution
-
Spence, J., Lattman, E. Imaging enzyme kinetics at atomic resolution. IUCrJ 3, 228-229 (2016).
-
(2016)
IUCrJ
, vol.3
, pp. 228-229
-
-
Spence, J.1
Lattman, E.2
-
31
-
-
84934326542
-
Synthesis and applications of RNAs with position-selective labelling and mosaic composition
-
Liu, Y., et al. Synthesis and applications of RNAs with position-selective labelling and mosaic composition. Nature 522, 368-372 (2015).
-
(2015)
Nature
, vol.522
, pp. 368-372
-
-
Liu, Y.1
-
32
-
-
84939784819
-
A novel inert crystal delivery medium for serial femtosecond crystallography
-
Conrad, C. E., et al. A novel inert crystal delivery medium for serial femtosecond crystallography. IUCrJ 2, 421-430 (2015).
-
(2015)
IUCrJ
, vol.2
, pp. 421-430
-
-
Conrad, C.E.1
-
33
-
-
0032422462
-
A simple mechanical mixer for small viscous lipid-containing samples
-
Cheng, A., Hummel, B., Qiu, H., Caffrey, M. A simple mechanical mixer for small viscous lipid-containing samples. Chem. Phys. Lipids 95, 11-21 (1998).
-
(1998)
Chem. Phys. Lipids
, vol.95
, pp. 11-21
-
-
Cheng, A.1
Hummel, B.2
Qiu, H.3
Caffrey, M.4
-
34
-
-
84894037590
-
Lipidic cubic phase injector facilitates membrane protein serial femtosecond crystallography
-
Weierstall, U., et al. Lipidic cubic phase injector facilitates membrane protein serial femtosecond crystallography. Nat. Commun. 5, 3309 (2014).
-
(2014)
Nat. Commun.
, vol.5
, pp. 3309
-
-
Weierstall, U.1
-
35
-
-
84901819736
-
Cheetah: Software for high-throughput reduction and analysis of serial femtosecond X-ray diffraction data
-
Barty, A., et al. Cheetah: software for high-throughput reduction and analysis of serial femtosecond X-ray diffraction data. J. Appl. Crystallogr. 47, 1118-1131 (2014).
-
(2014)
J. Appl. Crystallogr.
, vol.47
, pp. 1118-1131
-
-
Barty, A.1
-
36
-
-
84859777150
-
CrystFEL: A software suite for snapshot serial crystallography
-
White, T. A., et al. CrystFEL: a software suite for snapshot serial crystallography. J. Appl. Crystallogr. 45, 335-341 (2012).
-
(2012)
J. Appl. Crystallogr.
, vol.45
, pp. 335-341
-
-
White, T.A.1
-
37
-
-
79951928807
-
Structure-factor analysis of femtosecond microdiffraction patterns from protein nanocrystals
-
Kirian, R. A., et al. Structure-factor analysis of femtosecond microdiffraction patterns from protein nanocrystals. Acta Crystallogr. A 67, 131-140 (2011).
-
(2011)
Acta Crystallogr. A
, vol.67
, pp. 131-140
-
-
Kirian, R.A.1
-
38
-
-
84879345494
-
Crystallographic data processing for free-electron laser sources
-
White, T. A., et al. Crystallographic data processing for free-electron laser sources. Acta Crystallogr. D 69, 1231-1240 (2013).
-
(2013)
Acta Crystallogr. D
, vol.69
, pp. 1231-1240
-
-
White, T.A.1
-
39
-
-
84861425552
-
Linking crystallographic model and data quality
-
Karplus, P. A., Diederichs, K. Linking crystallographic model and data quality. Science 336, 1030-1033 (2012).
-
(2012)
Science
, vol.336
, pp. 1030-1033
-
-
Karplus, P.A.1
Diederichs, K.2
-
40
-
-
0000952473
-
On the treatment of negative intensity observations
-
French, G. S., Wilson, K. S. On the treatment of negative intensity observations. Acta Crystallogr. A 34, 517-525 (1978).
-
(1978)
Acta Crystallogr. A
, vol.34
, pp. 517-525
-
-
French, G.S.1
Wilson, K.S.2
-
41
-
-
34447508216
-
Phaser crystallographic software
-
McCoy, A. J., et al. Phaser crystallographic software. J. Appl. Crystallogr. 40, 658-674 (2007).
-
(2007)
J. Appl. Crystallogr.
, vol.40
, pp. 658-674
-
-
McCoy, A.J.1
-
42
-
-
14244272868
-
PHENIX: Building new software for automated crystallographic structure determination
-
Adams, P. D., et al. PHENIX: building new software for automated crystallographic structure determination. Acta Crystallogr. D 58, 1948-1954 (2002).
-
(2002)
Acta Crystallogr. D
, vol.58
, pp. 1948-1954
-
-
Adams, P.D.1
-
43
-
-
79953763877
-
REFMAC5 for the refinement of macromolecular crystal structures
-
Murshudov, G. N., et al. REFMAC5 for the refinement of macromolecular crystal structures. Acta Crystallogr. D 67, 355-367 (2011).
-
(2011)
Acta Crystallogr. D
, vol.67
, pp. 355-367
-
-
Murshudov, G.N.1
-
44
-
-
84871957573
-
Correcting pervasive errors in RNA crystallography through enumerative structure prediction
-
Chou, F. C., Sripakdeevong, P., Dibrov, S. M., Hermann, T., Das, R. Correcting pervasive errors in RNA crystallography through enumerative structure prediction. Nat. Methods 10, 74-76 (2013).
-
(2013)
Nat. Methods
, vol.10
, pp. 74-76
-
-
Chou, F.C.1
Sripakdeevong, P.2
Dibrov, S.M.3
Hermann, T.4
Das, R.5
-
45
-
-
13244281317
-
Coot: Model-building tools for molecular graphics
-
Emsley, P., Cowtan, K. Coot: model-building tools for molecular graphics. Acta Crystallogr. D 60, 2126-2132 (2004).
-
(2004)
Acta Crystallogr. D
, vol.60
, pp. 2126-2132
-
-
Emsley, P.1
Cowtan, K.2
-
47
-
-
70349783815
-
A method for helical RNA global structure determination in solution using small-angle X-ray scattering and NMR measurements
-
Wang, J., et al. A method for helical RNA global structure determination in solution using small-angle X-ray scattering and NMR measurements. J. Mol. Biol. 393, 717-734 (2009).
-
(2009)
J. Mol. Biol.
, vol.393
, pp. 717-734
-
-
Wang, J.1
-
48
-
-
84861049339
-
Reliable structural interpretation of small-angle scattering data from bio-molecules in solution-the importance of quality control and a standard reporting framework
-
Jacques, D. A., Guss, J. M., Trewhella, J. Reliable structural interpretation of small-angle scattering data from bio-molecules in solution-the importance of quality control and a standard reporting framework. BMC Struct. Biol. 12, 9 (2012).
-
(2012)
BMC Struct. Biol.
, vol.12
, pp. 9
-
-
Jacques, D.A.1
Guss, J.M.2
Trewhella, J.3
-
49
-
-
33644861376
-
X-ray diffraction fingerprinting" of DNA structure in solution for quantitative evaluation of molecular dynamics simulation
-
Zuo, X., et al. X-ray diffraction "fingerprinting" of DNA structure in solution for quantitative evaluation of molecular dynamics simulation. Proc. Natl Acad. Sci. USA 103, 3534-3539 (2006).
-
(2006)
Proc. Natl Acad. Sci. USA
, vol.103
, pp. 3534-3539
-
-
Zuo, X.1
-
50
-
-
76149130049
-
X-ray scattering combined with coordinatebased analyses for applications in natural and artificial photosynthesis
-
Tiede, D. M., Mardis, K. L., Zuo, X. X-ray scattering combined with coordinatebased analyses for applications in natural and artificial photosynthesis. Photosynth. Res. 102, 267-279 (2009).
-
(2009)
Photosynth. Res.
, vol.102
, pp. 267-279
-
-
Tiede, D.M.1
Mardis, K.L.2
Zuo, X.3
-
51
-
-
41449107849
-
Global molecular structure and interfaces: Refining an RNA:RNA complex structure using solution X-ray scattering data
-
Zuo, X., et al. Global molecular structure and interfaces: refining an RNA:RNA complex structure using solution X-ray scattering data. J. Am. Chem. Soc. 130, 3292-3293 (2008).
-
(2008)
J. Am. Chem. Soc.
, vol.130
, pp. 3292-3293
-
-
Zuo, X.1
-
52
-
-
0035880916
-
Standard atomic volumes in double-stranded DNA and packing in protein-DNA interfaces
-
Nadassy, K., Tomás-Oliveira, I., Alberts, I., Janin, J., Wodak, S. J. Standard atomic volumes in double-stranded DNA and packing in protein-DNA interfaces. Nucleic Acids Res. 29, 3362-3376 (2001).
-
(2001)
Nucleic Acids Res.
, vol.29
, pp. 3362-3376
-
-
Nadassy, K.1
Tomás-Oliveira, I.2
Alberts, I.3
Janin, J.4
Wodak, S.J.5
-
53
-
-
12544256134
-
Calculation of standard atomic volumes for RNA and comparison with proteins: RNA is packed more tightly
-
Voss, N. R., Gerstein, M. Calculation of standard atomic volumes for RNA and comparison with proteins: RNA is packed more tightly. J. Mol. Biol. 346, 477-492 (2005).
-
(2005)
J. Mol. Biol.
, vol.346
, pp. 477-492
-
-
Voss, N.R.1
Gerstein, M.2
-
54
-
-
0013293280
-
The Xplor-NIH NMR molecular structure determination package
-
Schwieters, C. D., Kuszewski, J. J., Tjandra, N., Clore, G. M. The Xplor-NIH NMR molecular structure determination package. J. Magn. Reson. 160, 65-73 (2003).
-
(2003)
J. Magn. Reson.
, vol.160
, pp. 65-73
-
-
Schwieters, C.D.1
Kuszewski, J.J.2
Tjandra, N.3
Clore, G.M.4
-
55
-
-
84886772732
-
An unusual topological structure of the HIV-1 Rev response element
-
Fang, X., et al. An unusual topological structure of the HIV-1 Rev response element. Cell 155, 594-605 (2013).
-
(2013)
Cell
, vol.155
, pp. 594-605
-
-
Fang, X.1
-
56
-
-
84887098014
-
Structure and dynamics of full-length HIV-1 capsid protein in solution
-
Deshmukh, L., et al. Structure and dynamics of full-length HIV-1 capsid protein in solution. J. Am. Chem. Soc. 135, 16133-16147 (2013).
-
(2013)
J. Am. Chem. Soc.
, vol.135
, pp. 16133-16147
-
-
Deshmukh, L.1
|