Extraction of fast changes in the structure of a disordered ensemble of photoexcited biomolecules

Advances in Condensed Matter Physics

Volumn 2013, Issue , 2013, Pages

  Poon, H C ^a   Schmidt, M ^a   Saldin, D K ^a  

^a UNIVERSITY OF WISCONSIN MILWAUKEE   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

EID: 84878734832     PISSN: 16878108     EISSN: 16878124     Source Type: Journal    
DOI: 10.1155/2013/750371     Document Type: Article

References (26)

1. Neutzo R., Wouts R., van der Spoel D., Weckert E., Hajdu J., Potential for biomolecular imaging with femtosecond X-ray pulses. Nature 2000 406 6797 752 757 2-s2.0-0034680144 10.1038/35021099
2. Neutze R., Moffat K., Time-resolved structural studies at synchrotrons and X-ray free electron lasers: opportunities and challenges. Current Opinion in Structural Biology 2012 22 5 651 659
3. Cho A., What shall we do with an X-ray laser? Science 2010 330 6010 1470 1471 10.1126/science.330.6010.1470
4. Chapman H. N., Fromme P., Barty A., Femtosecond X-ray protein nanocrystallography. Nature 2011 470 7332 73 81
5. Boutet S., Lomb L., Williams G. J., High-resolution protein structure determination by serial femtosecond crystallography. Science 2012 337 6092 362 364
6. Mills D. M., Heliwell J. R., Kwick A., Ohta T., Robinson I. A., Authier A., Report of the working group on synchrotron radiation nomenclature- brightness, spectral brightness or brilliance? Journal of Synchrotron Radiation 2005 12 3 385 (Pubitemid 41557616)
7. Aquila A., Hunter M. S., Doak R. B., Time-resolved protein nanocrystallography using an X-ray free-electron laser. Optics Express 2012 20 3 2706 2716
8. Moffat K., Time-resolved macromolecular crystallography. Annual Review of Biophysics and Biophysical Chemistry 1989 18 309 332 2-s2.0-0024528771
9. Moffat K., Time-resolved biochemical crystallography: a mechanistic perspective. Chemical Reviews 2001 101 6 1569 1581 2-s2.0-0035354587 10.1021/cr990039q (Pubitemid 35377798)
10. Schmidt M., Ihee H., Pahl R., Srajer V., Protein-ligand interaction probed by time-resolved crystallography. Methods in Molecular Biology 2005 305 115 154 2-s2.0-21344432764
11. Weierstall U., Spence J. C., Doak R. B., Injector for scattering measurements on fully solvated biospecies. Review of Scientific Instruments 2012 83 12 10.1063/1.3693040 035108
12. Gañán-Calvo A. M., DePonte D. P., Herrada M. A., Spence J. C. H., Weierstall U., Doak R. B., Liquid capillary micro/nanojets in free-jet expansion. Small 2010 6 7 822 824 2-s2.0-77950615048 10.1002/smll.200901786
13. Shapiro D. A., Chapman H. N., DePonte D., Doak R. B., Fromme P., Hembree G., Hunter M., Marchesini S., Schmidt K., Spence J., Starodub D., Weierstall U., Powder diffraction from a continuous microjet of submicrometer protein crystals. Journal of Synchrotron Radiation 2008 15 6 593 599 2-s2.0-54949151042 10.1107/S0909049508024151
14. Ihee H., Rajagopal S., Srajer V., Pahl R., Anderson S., Schmidt M., Schotte F., Anfinrud P. A., Wulff M., Moffat K., Visualizing reaction pathways in photoactive yellow protein from nanoseconds to seconds. Proceedings of the National Academy of Sciences of the United States of America 2005 102 20 7145 7150 2-s2.0-21044432995 10.1073/pnas.0409035102 (Pubitemid 40696348)
15. Schmidt M., Pahl R., Srajer V., Anderson S., Ren Z., Ihee H., Rajagopal S., Moffat K., Protein kinetics: structures of intermediates and reaction mechanism from time-resolved X-ray data. Proceedings of the National Academy of Sciences of the United States of America 2004 101 14 4799 4804 2-s2.0-1842738214 10.1073/pnas.0305983101 (Pubitemid 38469157)
16. Schotte F., Cho H. S., Kaila V. R., Kamikubo H., Dashdorj N., Henry E. R., Graber T. J., Henning R., Wulff M., Hummer G., Kataoka M., Anfinrud P. A., Watching a signaling protein function in real time via 100-ps time-resolved Laue crystallography. Proceedings of the National Academy of Sciences of the United States of America 2012 109 47 19256 19261
17. Jung Y. O., Lee J. H., Kim J., Schmidt M., Moffat K., Srajer V., Ihee H., Volume-conserving trans-cis isomerization pathways in photoactive yellow protein visualized by picosecond X-ray crystallography. Nature Chemistry 5 3 212 220 10.1038/nchem.1565
18. Schmidt M.,. unpublished
19. De Ponte D. P., Weierstall U., Starodub D., Warner J., Spence J. C. H., Doak R. B., Gas dynamic virtual nozzle for generation of microscopic droplet streams. Journal of Physics D 2008 41 19 10.1088/0022-3727/41/19/195505 195505
20. Yoon C. Y., Schwander P., Abergel C., Unsupervised classification of single-particle X-ray diffraction snapshots by spectral clustering. Optics Express 2011 19 17 16542 16549
21. Kam Z., Determination of macromolecular structure in solution by spatial correlation of scattering fluctuations. Macromolecules 1977 10 5 927 934 2-s2.0-0642317569
22. Saldin D. K., Shneerson V. L., Fung R., Ourmazd A., Structure of isolated biomolecules obtained from ultrashort X-ray pulses: exploiting the symmetry of random orientations. Journal of Physics: Condensed Matter 2009 21 11 134014
23. Elser V., Strategies for processing diffraction data from randomly oriented particles. Ultramicroscopy 2011 111 7 788 792
24. Saldin D. K., Poon H.-C., Schwander P., Uddin M., Schmidt M., Reconstructing an icosahedral virus from single-particle diffraction experiments. Optics Express 2011 19 18 17318 17335 10.1364/OE.19.017318
25. Poon H.-C., Schwander P., Uddin M., Saldin D. K., Fiber diffraction without fibers. submitted for publication
26. Kirkpatrick S., Gelatt C. D., Vecchi M. P., Optimization by simulated annealing. Science 1983 220 4598 671 680 2-s2.0-26444479778