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  1. Introduction to Biological Small Angle Scattering

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    08 May 2014 | Seminars | Contributor(s): Tom Grant

    (YouTube Video Below) An introductory course to small angle X-ray scattering intended for beginners in the field and those interesting in learning more about solution-based scattering. Topics covered include: - What is small angle scattering? - Reciprocal space to real space - Electron density and …

  2. X-ray lasers and crystallography

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    29 Apr 2014 | BioXFEL Publications | Contributor(s): John Spence

    journal-article http://dx.doi.org/10.1107/s2052252514009567 Spence, J.C.H., 2014. X-ray lasers and crystallography. IUCrJ, 1(3), pp.151–152. Available at: http://dx.doi.org/10.1107/s2052252514009567. John C.H. Spence

  3. BioXFEL Science Graphic

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    25 Apr 2014 | Downloads | Contributor(s): Edward J Sobczak

    …

  4. Transcription factors TFIIF and TFIIS promote transcript elongation by RNA polymerase II by synergistic and independent mechanisms

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    14 Apr 2014 | BioXFEL Publications | Contributor(s): V. Schweikhard, C. Meng, K. Murakami, C. D. Kaplan, R. D. Kornberg, S. M. Block

    journal-article http://dx.doi.org/10.1073/pnas.1405181111 Schweikhard, V. et al., 2014. Transcription factors TFIIF and TFIIS promote transcript elongation by RNA polymerase II by synergistic and independent mechanisms. Proceedings of the National Academy of Sciences, 111(18), pp.6642–6647. …

  5. Mapping the decay of double core hole states of atoms and molecules

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    10 Apr 2014 | BioXFEL Publications | Contributor(s): M Mucke, V Zhaunerchyk, R J Squibb, M Kamińska, J H D Eland, P V D Meulen, P Salén, P Linusson, R D Thomas, M Larsson, L J Frasinski, M Siano, T Osipov, L Fang, B Murphy, N Berrah, L Foucar, J Ullrich, K Motomura, S Mondal, K Ueda, R Richter, K C Prince, M N Piancastelli, M Glownia, J Cryan, R Coffee, C Bostedt, J Bozek, S Schorb, M Messerschmidt, O Takahashi, S Wada, R Feifel

    journal-article http://dx.doi.org/10.1088/1742-6596/488/3/032021 Mucke, M. et al., 2014. Mapping the decay of double core hole states of atoms and molecules. Journal of Physics: Conference Series, 488(3), p.032021. Available at: http://dx.doi.org/10.1088/1742-6596/488/3/032021. M Mucke and V …

  6. Signal to noise considerations for single crystal femtosecond time resolved crystallography of the Photoactive Yellow Protein

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    09 Apr 2014 | BioXFEL Publications | Contributor(s): Jasper J. Van Thor, Mark M. Warren, Craig N. Lincoln, Matthieu Chollet, Henrik Till Lemke, David M. Fritz, Marius Schmidt, Jason Tenboer, Zhong Ren, Vukica Srajer, Keith Moffat, Tim Graber

    http://dx.doi.org/10.1039/c4fd00011k Jasper J. van Thor and Mark M. Warren and Craig N. Lincoln and Matthieu Chollet and Henrik Till Lemke and David M. Fritz and Marius Schmidt and Jason Tenboer and Zhong Ren and Vukica Srajer and Keith Moffat and Tim Graber Van Thor, J.J. et al., 2014. Signal to …

  7. Experience with the CSPAD during dedicated detector runs at LCLS

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    31 Mar 2014 | BioXFEL Publications | Contributor(s): G A Carini, S Boutet, M Chollet, A Dragone, G Haller, P A Hart, S C Herrmann, C J Kenney, J Koglin, M Messerschmidt, S Nelson, J Pines, A Robert, S Song, J B Thayer, G J Williams, D Zhu

    http://dx.doi.org/10.1088/1742-6596/493/1/012011 journal-article Carini, G.A. et al., 2014. Experience with the CSPAD during dedicated detector runs at LCLS. Journal of Physics: Conference Series, 493, p.012011. Available at: http://dx.doi.org/10.1088/1742-6596/493/1/012011. G A Carini and S …

  8. Enzyme transient state kinetics in crystal and solution from the perspective of a time-resolved crystallographer

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    27 Mar 2014 | BioXFEL Publications | Contributor(s): Marius Schmidt, Dilano Saldin

    http://dx.doi.org/10.1063/1.4869472 Marius Schmidt and Dilano K. Saldin Schmidt, M. & Saldin, D.K., 2014. Enzyme transient state kinetics in crystal and solution from the perspective of a time-resolved crystallographer. Structural Dynamics, 1(2), p.024701. Available at: …

  9. Nonlinear X-ray Compton Scattering

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    27 Mar 2014 | BioXFEL Publications | Contributor(s): Matthias Fuchs

    proceedings-article http://dx.doi.org/10.1364/hilas.2014.hth2b.3 Fuchs, M., 2014. Nonlinear X-ray Compton Scattering. Research in Optical Sciences. Available at: http://dx.doi.org/10.1364/hilas.2014.hth2b.3. Matthias Fuchs

  10. Approaches to time-resolved diffraction using an XFEL

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    25 Mar 2014 | BioXFEL Publications | Contributor(s): John Spence

    http://dx.doi.org/10.1039/c4fd00025k John C. H. Spence Spence, J.C.H., 2014. Approaches to time-resolved diffraction using an XFEL. Faraday Discuss., 171, pp.429–438. Available at: http://dx.doi.org/10.1039/c4fd00025k. NSF-STC Biology with X-ray Lasers (NSF-1231306) We describe several schemes …

  11. Reply to 'Contradictions in X-ray structures of intermediates in the photocycle of photoactive yellow protein'

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    21 Mar 2014 | BioXFEL Publications | Contributor(s): Yang Ouk Jung, Jae Hyuk Lee, Joonghan Kim, Marius Schmidt, Keith Moffat, Vukica Šrajer, Hyotcherl Ihee

    http://dx.doi.org/10.1038/nchem.1897 Yang Ouk Jung and Jae Hyuk Lee and Joonghan Kim and Marius Schmidt and Keith Moffat and Vukica Šrajer and Hyotcherl Ihee Jung, Y.O. et al., 2014. Reply to “Contradictions in X-ray structures of intermediates in the photocycle of photoactive yellow protein.” …

  12. Understanding molecular recognition of promiscuity of thermophilic methionine adenosyltransferase sMAT fromSulfolobus solfataricus

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    20 Mar 2014 | BioXFEL Publications | Contributor(s): Fengbin Wang, Shanteri Singh, Jianjun Zhang, Tyler D. Huber, Kate E. Helmich, Manjula Sunkara, Katherine A. Hurley, Randal D. Goff, Craig A. Bingman, Andrew J. Morris, Jon S. Thorson, George Phillips

    http://dx.doi.org/10.1111/febs.12784 journal-article Wang, F. et al., 2014. Understanding molecular recognition of promiscuity of thermophilic methionine adenosyltransferase sMAT fromSulfolobus solfataricus. FEBS Journal, 281(18), pp.4224–4239. Available at: …

  13. Communication: The electronic structure of matter probed with a single femtosecond hard x-ray pulse

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    17 Mar 2014 | BioXFEL Publications | Contributor(s): J. Szlachetko, C. J. Milne, J. Hoszowska, J.-Cl. Dousse, W. Błachucki, J. Sà, Y. Kayser, M. Messerschmidt, R. Abela, S. Boutet, C. David, G. Williams, M. Pajek, B. D. Patterson, G. Smolentsev, J. A. Van Bokhoven, M. Nachtegaal

    http://dx.doi.org/10.1063/1.4868260 journal-article Szlachetko, J. et al., 2014. Communication: The electronic structure of matter probed with a single femtosecond hard x-ray pulse. Structural Dynamics, 1(2), p.021101. Available at: http://dx.doi.org/10.1063/1.4868260. J. Szlachetko …

  14. Accurate macromolecular structures using minimal measurements from X-ray free-electron lasers

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    16 Mar 2014 | BioXFEL Publications | Contributor(s): Johan Hattne, Nathaniel Echols, Rosalie Tran, Jan Kern, Richard J Gildea, Aaron S Brewster, Roberto Alonso-Mori, Carina Glöckner, Julia Hellmich, Hartawan Laksmono, Raymond G Sierra, Benedikt Lassalle-Kaiser, Alyssa Lampe, Guangye Han, Sheraz Gul, Dörte DiFiore, Despina Milathianaki, Alan R Fry, Alan Miahnahri, William E White, Donald W Schafer, M Marvin Seibert, Jason E Koglin, Dimosthenis Sokaras, Tsu-Chien Weng, Jonas Sellberg, Matthew J Latimer, Pieter Glatzel, Petrus H Zwart, Ralf W Grosse-Kunstleve, Michael J Bogan, Marc Messerschmidt, Garth J Williams, Sébastien Boutet, Johannes Messinger, Athina Zouni, Junko Yano, Uwe Bergmann, Vittal K Yachandra, Paul D Adams, Nicholas K Sauter

    journal-article http://dx.doi.org/10.1038/nmeth.2887 Hattne, J. et al., 2014. Accurate macromolecular structures using minimal measurements from X-ray free-electron lasers. Nature Methods, 11(5), pp.545–548. Available at: http://dx.doi.org/10.1038/nmeth.2887. Johan Hattne and Nathaniel Echols …

  15. Opacity effects in a solid-density aluminium plasma created by photo-excitation with an X-ray laser

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    14 Mar 2014 | BioXFEL Publications | Contributor(s): D.S. Rackstraw, S.M. Vinko, O. Ciricosta, B.I. Cho, K. Engelhorn, H.-K. Chung, C.R.D. Brown, T. Burian, J. Chalupský, R.W. Falcone, C. Graves, V. Hájková, A. Higginbotham, L. Juha, J. Krzywinski, H.J. Lee, M. Messerschmidt, C. Murphy, Y. Ping, A. Scherz, W. Schlotter, S. Toleikis, J.J. Turner, L. Vysin, T. Wang, B. Wu, U. Zastrau, D. Zhu, B. Nagler, R.W. Lee, P.A. Heimann, J.S. Wark

    http://dx.doi.org/10.1016/j.hedp.2014.02.003 journal-article Rackstraw, D.S. et al., 2014. Opacity effects in a solid-density aluminium plasma created by photo-excitation with an X-ray laser. High Energy Density Physics, 11, pp.59–69. Available at: http://dx.doi.org/10.1016/j.hedp.2014.02.003. …

  16. An integrated approach for thermal stabilization of a mesophilic adenylate kinase

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    11 Mar 2014 | BioXFEL Publications | Contributor(s): Sojin Moon, Du-kyo Jung, George Phillips, Euiyoung Bae

    http://dx.doi.org/10.1002/prot.24549 journal-article Moon, S. et al., 2014. An integrated approach for thermal stabilization of a mesophilic adenylate kinase. Proteins: Structure, Function, and Bioinformatics, 82(9), pp.1947–1959. Available at: http://dx.doi.org/10.1002/prot.24549. Sojin Moon …

  17. X-Ray Diffraction from Isolated and Strongly Aligned Gas-Phase Molecules with a Free-Electron Laser

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    05 Mar 2014 | BioXFEL Publications | Contributor(s): Jochen Küpper, Stephan Stern, Lotte Holmegaard, Frank Filsinger, Arnaud Rouzée, Artem Rudenko, Per Johnsson, Andrew V. Martin, Marcus Adolph, Andrew Aquila, Saša Bajt, Anton Barty, Christoph Bostedt, John Bozek, Carl Caleman, Ryan Coffee, Nicola Coppola, Tjark Delmas, Sascha Epp, Benjamin Erk, Lutz Foucar, Tais Gorkhover, Lars Gumprecht, Andreas Hartmann, Robert Hartmann, Günter Hauser, Peter Holl, Andre Hömke, Nils Kimmel, Faton Krasniqi, Kai-Uwe Kühnel, Jochen Maurer, Marc Messerschmidt, Robert Moshammer, Christian Reich, Benedikt Rudek, Robin Santra, Ilme Schlichting, Carlo Schmidt, Sebastian Schorb, Joachim Schulz, Heike Soltau, John Spence, Dmitri Starodub, Lothar Strüder, Jan Thøgersen, Marc J. J. Vrakking, Georg Weidenspointner, Thomas A. White, Cornelia Wunderer, Gerard Meijer, Joachim Ullrich, Henrik Stapelfeldt, Daniel Rolles, Henry Chapman

    http://dx.doi.org/10.1103/physrevlett.112.083002 Jochen Küpper and Stephan Stern and Lotte Holmegaard and Frank Filsinger and Arnaud Rouzée and Artem Rudenko and Per Johnsson and Andrew V. Martin and Marcus Adolph and Andrew Aquila and Saša Bajt and Anton Barty and Christoph Bostedt and John …

  18. Purification and Biophysical Characterization of the CapA Membrane Protein FTT0807 fromFrancisella tularensis

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    04 Mar 2014 | BioXFEL Publications | Contributor(s): Jose M. Martin-Garcia, Debra T. Hansen, James D Zook, Andrey V. Loskutov, Mark D. Robida, Felicia M. Craciunescu, Kathryn F. Sykes, Rebekka M. Wachter, Petra Fromme, James P. Allen

    http://dx.doi.org/10.1021/bi401644s journal-article Martin-Garcia, J.M. et al., 2014. Purification and Biophysical Characterization of the CapA Membrane Protein FTT0807 fromFrancisella tularensis. Biochemistry, 53(12), pp.1958–1970. Available at: http://dx.doi.org/10.1021/bi401644s. Jose M. …

  19. Insulator-based dielectrophoresis of mitochondria

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    04 Mar 2014 | BioXFEL Publications | Contributor(s): Jinghui Luo, Bahige G. Abdallah, Gregory G. Wolken, Edgar A. Arriaga, Alexandra Ros

    journal-article http://dx.doi.org/10.1063/1.4866852 Luo, J. et al., 2014. Insulator-based dielectrophoresis of mitochondria. Biomicrofluidics, 8(2), p.021801. Available at: http://dx.doi.org/10.1063/1.4866852. Jinghui Luo and Bahige G. Abdallah and Gregory G. Wolken and Edgar A. Arriaga and …

  20. Lipidic cubic phase injector facilitates membrane protein serial femtosecond crystallography

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    14 Feb 2014 | BioXFEL Publications | Contributor(s): Uwe Weierstall, Daniel James, Chong Wang, Thomas A. White, Dingjie Wang, Wei Liu, John Spence, R. Bruce Doak, Garrett Charles Nelson, Petra Fromme, Raimund Fromme, Ingo Grotjohann, Christopher Kupitz, Nadia Zatsepin, Haiguang Liu, Shibom Basu, Daniel Wacker, Gye Won Han, Vsevolod Katritch, Sébastien Boutet, Marc Messerschmidt, Garth J. Williams, Jason E. Koglin, M. Marvin Seibert, Markus Klinker, Cornelius Gati, Robert L. Shoeman, Anton Barty, Henry Chapman, Richard Kirian, Kenneth R. Beyerlein, Raymond C. Stevens, Dianfan Li, Syed T. A. Shah, Nicole Howe, Martin Caffrey, Vadim Cherezov

    journal-article Uwe Weierstall and Daniel James and Chong Wang and Thomas A. White and Dingjie Wang and Wei Liu and John C. H. Spence and R. Bruce Doak and Garrett Nelson and Petra Fromme and Raimund Fromme and Ingo Grotjohann and Christopher Kupitz and Nadia A. Zatsepin and Haiguang Liu and …

  21. Femtosecond X-ray diffraction from two-dimensional protein crystals

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    10 Feb 2014 | BioXFEL Publications | Contributor(s): Matthias Frank, David B. Carlson, Mark S. Hunter, Garth J. Williams, Marc Messerschmidt, Nadia Zatsepin, Anton Barty, W. Henry Benner, Kaiqin Chu, Alexander T. Graf, Stefan Hau-Riege, Richard Kirian, Celestino Padeste, Tommaso Pardini, Bill Pedrini, Brent W. Segelke, M. Marvin Seibert, John Spence, Ching-Ju Tsai, Stephen M. Lane, Xiao-Dan Li, Gebhard F.X. Schertler, Sebastien Boutet, Matthew Coleman, James E. Evans

    X-ray diffraction patterns from two-dimensional (2-D) protein crystals obtained using femtosecond X-ray pulses from an X-ray free-electron laser (XFEL) are presented. To date, it has not been possible to acquire transmission X-ray diffraction patterns from individual 2-D protein crystals due to …

  22. Draft Genome Sequence of the Filamentous Cyanobacterium Leptolyngbya sp. Strain Heron Island J, Exhibiting Chromatic Acclimation

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    07 Feb 2014 | BioXFEL Publications | Contributor(s): R. Paul, R. E. Jinkerson, K. Buss, J. Steel, R. Mohr, W. R. Hess, M. Chen, P. Fromme

    journal-article http://dx.doi.org/10.1128/genomea.01166-13 Paul, R. et al., 2014. Draft Genome Sequence of the Filamentous Cyanobacterium Leptolyngbya sp. Strain Heron Island J, Exhibiting Chromatic Acclimation. Genome Announcements, 2(1), pp.e01166–13–e01166–13. Available at: …

  23. Diffuse X-Ray Scattering to Model Protein Motions

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    04 Feb 2014 | BioXFEL Publications | Contributor(s): Michael E. Wall, Paul D. Adams, James S. Fraser, Nicholas K. Sauter

    http://dx.doi.org/10.1016/j.str.2014.01.002 journal-article Wall, M.E. et al., 2014. Diffuse X-Ray Scattering to Model Protein Motions. Structure, 22(2), pp.182–184. Available at: http://dx.doi.org/10.1016/j.str.2014.01.002. Michael E. Wall and Paul D. Adams and James S. Fraser and …

  24. Crystallography: Sources of inspiration

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    28 Jan 2014 | BioXFEL Publications | Contributor(s): Sean McSweeney, Petra Fromme

    http://dx.doi.org/10.1038/505620a Sean McSweeney and Petra Fromme McSweeney, S. & Fromme, P., 2014. Crystallography: Sources of inspiration. Nature, 505(7485), pp.620–621. Available at: http://dx.doi.org/10.1038/505620a. journal-article

  25. A tRNA splicing operon: Archease endows RtcB with dual GTP/ATP cofactor specificity and accelerates RNA ligation

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    16 Jan 2014 | BioXFEL Publications | Contributor(s): Kevin K. Desai, Chin L. Cheng, Craig A. Bingman, George Phillips, Ronald T. Raines

    http://dx.doi.org/10.1093/nar/gkt1375 journal-article Desai, K.K. et al., 2014. A tRNA splicing operon: Archease endows RtcB with dual GTP/ATP cofactor specificity and accelerates RNA ligation. Nucleic Acids Research, 42(6), pp.3931–3942. Available at: http://dx.doi.org/10.1093/nar/gkt1375. …

  26. Optical measurements of long-range protein vibrations

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    16 Jan 2014 | BioXFEL Publications | Contributor(s): Gheorghe Acbas, Katherine A. Niessen, Edward Snell, A.G. Markelz

    journal-article http://dx.doi.org/10.1038/ncomms4076 Acbas, G. et al., 2014. Optical measurements of long-range protein vibrations. Nature Communications, 5. Available at: http://dx.doi.org/10.1038/ncomms4076. Gheorghe Acbas and Katherine A. Niessen and Edward H. Snell and A.G. Markelz

  27. Direct phasing in femtosecond nanocrystallography. I. Diffraction characteristics

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    15 Jan 2014 | BioXFEL Publications | Contributor(s): Joe Chen, John Spence, Rick P. Millane

    X-ray free-electron lasers solve a number of difficulties in protein crystallography by providing intense but ultra-short pulses of X-rays, allowing collection of useful diffraction data from nanocrystals. Whereas the diffraction from large crystals corresponds only to samples of the Fourier …

  28. Direct phasing in femtosecond nanocrystallography. II. Phase retrieval

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    15 Jan 2014 | BioXFEL Publications | Contributor(s): Joe Chen, John Spence, Rick P. Millane

    X-ray free-electron laser diffraction patterns from protein nanocrystals provide information on the diffracted amplitudes between the Bragg reflections, offering the possibility of direct phase retrieval without the use of ancillary experimental diffraction data [Spenceet al.(2011).Opt. Express,19, …

  29. Integrated description of protein dynamics from room-temperature X-ray crystallography and NMR

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    13 Jan 2014 | BioXFEL Publications | Contributor(s): R. B. Fenwick, H. Van Den Bedem, J. S. Fraser, P. E. Wright

    http://dx.doi.org/10.1073/pnas.1323440111 journal-article Fenwick, R.B. et al., 2014. Integrated description of protein dynamics from room-temperature X-ray crystallography and NMR. Proceedings of the National Academy of Sciences, 111(4), pp.E445–E454. Available at: …

  30. Selective trapping of single mammalian breast cancer cells by insulator-based dielectrophoresis

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    09 Jan 2014 | BioXFEL Publications | Contributor(s): Sanchari Bhattacharya, Tzu-Chiao Chao, Nethmi Ariyasinghe, Yvette Ruiz, Douglas Lake, Robert Ros, Alexandra Ros

    http://dx.doi.org/10.1007/s00216-013-7598-2 journal-article Bhattacharya, S. et al., 2014. Selective trapping of single mammalian breast cancer cells by insulator-based dielectrophoresis. Analytical and Bioanalytical Chemistry, 406(7), pp.1855–1865. Available at: …

  31. Protein structural ensembles are revealed by redefining X-ray electron density noise

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    21 Dec 2013 | BioXFEL Publications | Contributor(s): P. T. Lang, J. M. Holton, J. S. Fraser, T. Alber

    http://dx.doi.org/10.1073/pnas.1302823110 journal-article Lang, P.T. et al., 2013. Protein structural ensembles are revealed by redefining X-ray electron density noise. Proceedings of the National Academy of Sciences, 111(1), pp.237–242. Available at: http://dx.doi.org/10.1073/pnas.1302823110. …

  32. Serial Femtosecond Crystallography of G Protein-Coupled Receptors

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    19 Dec 2013 | BioXFEL Publications | Contributor(s): W. Liu, D. Wacker, C. Gati, G. W. Han, D. James, D. Wang, G. Nelson, U. Weierstall, V. Katritch, A. Barty, N. A. Zatsepin, D. Li, M. Messerschmidt, S. Boutet, G. J. Williams, J. E. Koglin, M. M. Seibert, C. Wang, S. T. A. Shah, S. Basu, R. Fromme, C. Kupitz, K. N. Rendek, I. Grotjohann, P. Fromme, R. A. Kirian, K. R. Beyerlein, T. A. White, H. N. Chapman, M. Caffrey, J. C. H. Spence, R. C. Stevens, V. Cherezov

    http://dx.doi.org/10.1126/science.1244142 W. Liu and D. Wacker and C. Gati and G. W. Han and D. James and D. Wang and G. Nelson and U. Weierstall and V. Katritch and A. Barty and N. A. Zatsepin and D. Li and M. Messerschmidt and S. Boutet and G. J. Williams and J. E. Koglin and M. M. Seibert and …

  33. Structure of a photosynthetic reaction centre determined by serial femtosecond crystallography

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    19 Dec 2013 | BioXFEL Publications | Contributor(s): Linda C. Johansson, David Arnlund, Gergely Katona, Thomas A. White, Anton Barty, Daniel P. DePonte, Robert L. Shoeman, Cecilia Wickstrand, Amit Sharma, Garth J. Williams, Andrew Aquila, Michael J. Bogan, Carl Caleman, Jan Davidsson, R Bruce Doak, Matthias Frank, Raimund Fromme, Lorenzo Galli, Ingo Grotjohann, Mark S. Hunter, Stephan Kassemeyer, Richard Kirian, Christopher Kupitz, Mengning Liang, Lukas Lomb, Erik Malmerberg, Andrew V. Martin, Marc Messerschmidt, Karol Nass, Lars Redecke, M Marvin Seibert, Jennie Sjöhamn, Jan Steinbrener, Francesco Stellato, Dingjie Wang, Weixaio Y. Wahlgren, Uwe Weierstall, Sebastian Westenhoff, Nadia Zatsepin, Sébastien Boutet, John Spence, Ilme Schlichting, Henry Chapman, Petra Fromme, Richard Neutze

    http://dx.doi.org/10.1038/ncomms3911 Linda C. Johansson and David Arnlund and Gergely Katona and Thomas A. White and Anton Barty and Daniel P. DePonte and Robert L. Shoeman and Cecilia Wickstrand and Amit Sharma and Garth J. Williams and Andrew Aquila and Michael J. Bogan and Carl Caleman and Jan …

  34. Vibrational Excitations and Low-Energy Electronic Structure of Epoxide-Decorated Graphene

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    17 Dec 2013 | BioXFEL Publications | Contributor(s): E. C. Mattson, J. E. Johns, K. Pande, R. A. Bosch, S. Cui, M. Gajdardziska-Josifovska, M. Weinert, J. H. Chen, M. C. Hersam, C. J. Hirschmugl

    journal-article http://dx.doi.org/10.1021/jz4025386 Mattson, E.C. et al., 2014. Vibrational Excitations and Low-Energy Electronic Structure of Epoxide-Decorated Graphene. The Journal of Physical Chemistry Letters, 5(1), pp.212–219. Available at: http://dx.doi.org/10.1021/jz4025386. E. C. …

  35. Flavin reduction activates Drosophila cryptochrome

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    02 Dec 2013 | BioXFEL Publications | Contributor(s): A. T. Vaidya, D. Top, C. C. Manahan, J. M. Tokuda, S. Zhang, L. Pollack, M. W. Young, B. R. Crane

    http://dx.doi.org/10.1073/pnas.1313336110 journal-article Vaidya, A.T. et al., 2013. Flavin reduction activates Drosophila cryptochrome. Proceedings of the National Academy of Sciences, 110(51), pp.20455–20460. Available at: http://dx.doi.org/10.1073/pnas.1313336110. A. T. Vaidya and D. Top …

  36. The crystal structure of BlmI as a model for nonribosomal peptide synthetase peptidyl carrier proteins

    0.0 out of 5 stars 

    26 Nov 2013 | BioXFEL Publications | Contributor(s): Jeremy R. Lohman, Ming Ma, Marianne E. Cuff, Lance Bigelow, Jessica Bearden, Gyorgy Babnigg, Andrzej Joachimiak, George Phillips, Ben Shen

    http://dx.doi.org/10.1002/prot.24485 journal-article Lohman, J.R. et al., 2013. The crystal structure of BlmI as a model for nonribosomal peptide synthetase peptidyl carrier proteins. Proteins: Structure, Function, and Bioinformatics, 82(7), pp.1210–1218. Available at: …

  37. De novo protein crystal structure determination from X-ray free-electron laser data

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    22 Nov 2013 | BioXFEL Publications | Contributor(s): Thomas R. M. Barends, Lutz Foucar, Sabine Botha, R. Bruce Doak, Robert L. Shoeman, Karol Nass, Jason E. Koglin, Garth J. Williams, Sébastien Boutet, Marc Messerschmidt, Ilme Schlichting

    http://dx.doi.org/10.1038/nature12773 journal-article Barends, T.R.M. et al., 2013. De novo protein crystal structure determination from X-ray free-electron laser data. Nature, 505(7482), pp.244–247. Available at: http://dx.doi.org/10.1038/nature12773. Thomas R. M. Barends and Lutz Foucar and …

  38. Insights into the mechanism of X-ray-induced disulfide-bond cleavage in lysozyme crystals based on EPR, optical absorption and X-ray diffraction studies

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    19 Nov 2013 | BioXFEL Publications | Contributor(s): Kristin A. Sutton, Paul J. Black, Kermit R. Mercer, Elspeth F. Garman, Robin L. Owen, Edward Snell, William A. Bernhard

    Electron paramagnetic resonance (EPR) and online UV–visible absorption microspectrophotometry with X-ray crystallography have been used in a complementary manner to follow X-ray-induced disulfide-bond cleavage. Online UV–visible spectroscopy showed that upon X-irradiation, disulfide …

  39. Protein energy landscapes determined by five-dimensional crystallography

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    19 Nov 2013 | BioXFEL Publications | Contributor(s): Marius Schmidt, Vukica Srajer, Robert Henning, Hyotcherl Ihee, Namrta Purwar, Jason Tenboer, Shailesh Tripathi

    Free-energy landscapes decisively determine the progress of enzymatically catalyzed reactions [Cornish-Bowden (2012),Fundamentals of Enzyme Kinetics, 4th ed.]. Time-resolved macromolecular crystallography unifies transient-state kinetics with structure determination [Moffat (2001),Chem. Rev.101, …

  40. Toward unsupervised single-shot diffractive imaging of heterogeneous particles using X-ray free-electron lasers

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    14 Nov 2013 | BioXFEL Publications | Contributor(s): Hyung Joo Park, N. Duane Loh, Raymond G. Sierra, Christina Y. Hampton, Dmitri Starodub, Andrew V. Martin, Anton Barty, Andrew Aquila, Joachim Schulz, Jan Steinbrener, Robert L. Shoeman, Lukas Lomb, Stephan Kassemeyer, Christoph Bostedt, John Bozek, Sascha W. Epp, Benjamin Erk, Robert Hartmann, Daniel Rolles, Artem Rudenko, Benedikt Rudek, Lutz Foucar, Nils Kimmel, Georg Weidenspointner, Guenter Hauser, Peter Holl, Emanuele Pedersoli, Mengning Liang, Mark S. Hunter, Lars Gumprecht, Nicola Coppola, Cornelia Wunderer, Heinz Graafsma, Filipe R.N.C. Maia, Tomas Ekeberg, Max Hantke, Holger Fleckenstein, Helmut Hirsemann, Karol Nass, Herbert J. Tobias, George R. Farquar, W. Henry Benner, Stefan Hau-Riege, Christian Reich, Andreas Hartmann, Heike Soltau, Stefano Marchesini, Sasa Bajt, Miriam Barthelmess, Lothar Strueder, Joachim Ullrich, Philip Bucksbaum, Matthias Frank, Ilme Schlichting, Henry Chapman, Michael J. Bogan, Veit Elser

    journal-article http://dx.doi.org/10.1364/oe.21.028729 Park, H.J. et al., 2013. Toward unsupervised single-shot diffractive imaging of heterogeneous particles using X-ray free-electron lasers. Optics Express, 21(23), p.28729. Available at: http://dx.doi.org/10.1364/oe.21.028729. Hyung Joo Park …

  41. Mighty small: Observing and modeling individual microbes becomes big science

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    05 Nov 2013 | BioXFEL Publications | Contributor(s): J.-U. Kreft, C. M. Plugge, V. Grimm, C. Prats, J. H. J. Leveau, T. Banitz, S. Baines, J. Clark, A. Ros, I. Klapper, C. J. Topping, A. J. Field, A. Schuler, E. Litchman, F. L. Hellweger

    journal-article http://dx.doi.org/10.1073/pnas.1317472110 Kreft, J.-U. et al., 2013. Mighty small: Observing and modeling individual microbes becomes big science. Proceedings of the National Academy of Sciences, 110(45), pp.18027–18028. Available at: http://dx.doi.org/10.1073/pnas.1317472110. …

  42. Crystallization of the Large Membrane Protein Complex Photosystem I in a Microfluidic Channel

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    05 Nov 2013 | BioXFEL Publications | Contributor(s): Bahige G. Abdallah, Christopher Kupitz, Petra Fromme, Alexandra Ros

    http://dx.doi.org/10.1021/nn402515q Bahige G. Abdallah and Christopher Kupitz and Petra Fromme and Alexandra Ros Abdallah, B.G. et al., 2013. Crystallization of the Large Membrane Protein Complex Photosystem I in a Microfluidic Channel. ACS Nano, 7(12), pp.10534–10543. Available at: …

  43. Surface coatings for microfluidic-based biomedical devices

    0.0 out of 5 stars 

    01 Nov 2013 | BioXFEL Publications | Contributor(s): B.G. Abdallah, A. Ros

    http://dx.doi.org/10.1533/9780857097040.1.63 book-chapter Abdallah, B.G. & Ros, A., 2013. Surface coatings for microfluidic-based biomedical devices. Microfluidic Devices for Biomedical Applications, pp.63–99. Available at: http://dx.doi.org/10.1533/9780857097040.1.63. B.G. Abdallah and A. Ros

  44. High-Resolution NMR Reveals Secondary Structure and Folding of Amino Acid Transporter from Outer Chloroplast Membrane

    0.0 out of 5 stars 

    29 Oct 2013 | BioXFEL Publications | Contributor(s): James D Zook, Trivikram R. Molugu, Neil E. Jacobsen, Guangxin Lin, Jürgen Soll, Brian R. Cherry, Michael F. Brown, Petra Fromme

    http://dx.doi.org/10.1371/journal.pone.0078116 journal-article Zook, J.D. et al., 2013. High-Resolution NMR Reveals Secondary Structure and Folding of Amino Acid Transporter from Outer Chloroplast Membrane O. Y. Dmitriev, ed. PLoS ONE, 8(10), p.e78116. Available at: …

  45. Six-Helix Bundle and Triangle DNA Origami Insulator-Based Dielectrophoresis

    0.0 out of 5 stars 

    24 Oct 2013 | BioXFEL Publications | Contributor(s): Lin Gan, Tzu-Chiao Chao, Fernanda Camacho-Alanis, Alexandra Ros

    http://dx.doi.org/10.1021/ac402493u journal-article Gan, L. et al., 2013. Six-Helix Bundle and Triangle DNA Origami Insulator-Based Dielectrophoresis. Analytical Chemistry, 85(23), pp.11427–11434. Available at: http://dx.doi.org/10.1021/ac402493u. Lin Gan and Tzu-Chiao Chao and Fernanda …

  46. Eukaryotic RNA Polymerase II

    0.0 out of 5 stars 

    22 Oct 2013 | BioXFEL Publications | Contributor(s): David Bushnell, Roger Kornberg

    book-chapter http://dx.doi.org/10.1007/978-3-642-39796-7_12 Bushnell, D.A. & Kornberg, R.D., 2013. Eukaryotic RNA Polymerase II. Nucleic Acids and Molecular Biology, pp.277–287. Available at: http://dx.doi.org/10.1007/978-3-642-39796-7_12. David A. Bushnell and Roger D. Kornberg

  47. Combined single cell AFM manipulation and TIRFM for probing the molecular stability of multilayer fibrinogen matrices

    0.0 out of 5 stars 

    18 Oct 2013 | BioXFEL Publications | Contributor(s): W. Christenson, I. Yermolenko, B. Plochberger, F. Camacho-Alanis, A. Ros, T.P. Ugarova, R. Ros

    http://dx.doi.org/10.1016/j.ultramic.2013.10.009 journal-article Christenson, W. et al., 2014. Combined single cell AFM manipulation and TIRFM for probing the molecular stability of multilayer fibrinogen matrices. Ultramicroscopy, 136, pp.211–215. Available at: …

  48. workspace

    0.0 out of 5 stars 

    17 Oct 2013 | Tools

    workspace

  49. Ab-initio phasing using nanocrystal shape transforms with incomplete unit cells

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    01 Oct 2013 | BioXFEL Publications | Contributor(s): Haiguang Liu, Nadia Zatsepin, John Spence

    X-ray free electron lasers are used in measuring diffraction patterns from nanocrystals in the `diffract-before-destroy' mode by outrunning radiation damage. The finite-sized nanocrystals provide an opportunity to recover intensity between Bragg spots by removing the modulating function that …

  50. Architecture of an RNA Polymerase II Transcription Pre-Initiation Complex

    0.0 out of 5 stars 

    27 Sep 2013 | BioXFEL Publications | Contributor(s): K. Murakami, H. Elmlund, N. Kalisman, D. A. Bushnell, C. M. Adams, M. Azubel, D. Elmlund, Y. Levi-Kalisman, X. Liu, B. J. Gibbons, M. Levitt, R. D. Kornberg

    http://dx.doi.org/10.1126/science.1238724 journal-article Murakami, K. et al., 2013. Architecture of an RNA Polymerase II Transcription Pre-Initiation Complex. Science, 342(6159), pp.1238724–1238724. Available at: http://dx.doi.org/10.1126/science.1238724. K. Murakami and H. Elmlund and N. …

  51. Efficient Computation of k-Nearest Neighbour Graphs for Large High-Dimensional Data Sets on GPU Clusters

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    23 Sep 2013 | BioXFEL Publications | Contributor(s): Ali Dashti, Ivan Komarov, Roshan M. D’Souza

    http://dx.doi.org/10.1371/journal.pone.0074113 journal-article Dashti, A., Komarov, I. & D’Souza, R.M., 2013. Efficient Computation of k-Nearest Neighbour Graphs for Large High-Dimensional Data Sets on GPU Clusters A. Gursoy, ed. PLoS ONE, 8(9), p.e74113. Available at: …

  52. Spectroscopic Studies of Model Photo-Receptors: Validation of a Nanosecond Time-Resolved Micro-Spectrophotometer Design Using Photoactive Yellow Protein and α-Phycoerythrocyanin

    0.0 out of 5 stars 

    16 Sep 2013 | BioXFEL Publications | Contributor(s): Namrta Purwar, Jason Tenboer, Shailesh Tripathi, Marius Schmidt

    http://dx.doi.org/10.3390/ijms140918881 journal-article Purwar, N. et al., 2013. Spectroscopic Studies of Model Photo-Receptors: Validation of a Nanosecond Time-Resolved Micro-Spectrophotometer Design Using Photoactive Yellow Protein and α-Phycoerythrocyanin. International Journal of Molecular …

  53. Dielectrophoretic Sorting of Membrane Protein Nanocrystals

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    04 Sep 2013 | BioXFEL Publications | Contributor(s): Bahige G. Abdallah, Tzu-Chiao Chao, Christopher Kupitz, Petra Fromme, Alexandra Ros

    http://dx.doi.org/10.1021/nn403760q Bahige G. Abdallah and Tzu-Chiao Chao and Christopher Kupitz and Petra Fromme and Alexandra Ros Abdallah, B.G. et al., 2013. Dielectrophoretic Sorting of Membrane Protein Nanocrystals. ACS Nano, 7(10), pp.9129–9137. Available at: …

  54. Automated identification of functional dynamic contact networks from X-ray crystallography

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    05 Aug 2013 | BioXFEL Publications | Contributor(s): Henry Van Den Bedem, Gira Bhabha, Kun Yang, Peter E Wright, James Fraser

    http://dx.doi.org/10.1038/nmeth.2592 journal-article Van den Bedem, H. et al., 2013. Automated identification of functional dynamic contact networks from X-ray crystallography. Nature Methods, 10(9), pp.896–902. Available at: http://dx.doi.org/10.1038/nmeth.2592. Henry van den Bedem and Gira …

  55. Valence electron energy-loss spectroscopy study of ZrSiO4 and ZrO2

    0.0 out of 5 stars 

    16 Jul 2013 | BioXFEL Publications | Contributor(s): Nan Jiang, John Spence

    journal-article http://dx.doi.org/10.1016/j.ultramic.2013.06.021 Jiang, N. & Spence, J.C.H., 2013. Valence electron energy-loss spectroscopy study of ZrSiO4 and ZrO2. Ultramicroscopy, 134, pp.68–76. Available at: http://dx.doi.org/10.1016/j.ultramic.2013.06.021. Nan Jiang and John C.H. Spence

  56. Fiber Diffraction without Fibers

    0.0 out of 5 stars 

    27 Jun 2013 | BioXFEL Publications | Contributor(s): H.-C. Poon, P. Schwander, M. Uddin, D. K. Saldin

    http://dx.doi.org/10.1103/physrevlett.110.265505 journal-article Poon, H.-C. et al., 2013. Fiber Diffraction without Fibers. Physical Review Letters, 110(26). Available at: http://dx.doi.org/10.1103/physrevlett.110.265505. H.-C. Poon and P. Schwander and M. Uddin and D. K. Saldin

  57. Casimir torque between birefringent plates with metamaterials

    0.0 out of 5 stars 

    26 Jun 2013 | BioXFEL Publications | Contributor(s): Xiang Chen, John Spence

    journal-article http://dx.doi.org/10.1002/pssa.201329144 Chen, X. & Spence, J.C.H., 2013. Casimir torque between birefringent plates with metamaterials. physica status solidi (a), p.n/a–n/a. Available at: http://dx.doi.org/10.1002/pssa.201329144. Xiang Chen and John C. H. Spence

  58. The extraction of single-particle diffraction patterns from a multiple-particle diffraction pattern

    0.0 out of 5 stars 

    17 Jun 2013 | BioXFEL Publications | Contributor(s): A.V. Martin, A.J. Morgan, T. Ekeberg, N.D. Loh, F.R.N.C. Maia, F. Wang, J.C.H. Spence, H.N. Chapman

    http://dx.doi.org/10.1364/oe.21.015102 journal-article Martin, A.V. et al., 2013. The extraction of single-particle diffraction patterns from a multiple-particle diffraction pattern. Optics Express, 21(13), p.15102. Available at: http://dx.doi.org/10.1364/oe.21.015102. A.V. Martin and A.J. …

  59. Crystallographic data processing for free-electron laser sources

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    14 Jun 2013 | BioXFEL Publications | Contributor(s): Thomas A. White, Anton Barty, Francesco Stellato, James Holton, Richard Kirian, Nadia Zatsepin, Henry Chapman

    A processing pipeline for diffraction data acquired using the `serial crystallography' methodology with a free-electron laser source is described with reference to the crystallographic analysis suiteCrystFELand the pre-processing programCheetah. A detailed analysis of the nature and impact of …

  60. A Brief History of Electron Microdiffraction

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    09 Jun 2013 | BioXFEL Publications | Contributor(s): J. C. H. Spence, J. M. Zuo

    http://dx.doi.org/10.1007/978-1-4899-2353-0_1 book-chapter Spence, J.C.H. & Zuo, J.M., 1992. A Brief History of Electron Microdiffraction. Electron Microdiffraction, pp.1–5. Available at: http://dx.doi.org/10.1007/978-1-4899-2353-0_1. J. C. H. Spence and J. M. Zuo

  61. Structure, Dynamics, and Specificity of Endoglucanase D from Clostridium cellulovorans

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    08 Jun 2013 | BioXFEL Publications | Contributor(s): Christopher M. Bianchetti, Phillip Brumm, Robert W. Smith, Kevin Dyer, Greg L. Hura, Thomas J. Rutkoski, George Phillips

    journal-article http://dx.doi.org/10.1016/j.jmb.2013.05.030 Bianchetti, C.M. et al., 2013. Structure, Dynamics, and Specificity of Endoglucanase D from Clostridium cellulovorans. Journal of Molecular Biology, 425(22), pp.4267–4285. Available at: http://dx.doi.org/10.1016/j.jmb.2013.05.030. …

  62. Ultrafast Three-Dimensional Imaging of Lattice Dynamics in Individual Gold Nanocrystals

    0.0 out of 5 stars 

    24 May 2013 | BioXFEL Publications | Contributor(s): J. N. Clark, L. Beitra, G. Xiong, A. Higginbotham, D. M. Fritz, H. T. Lemke, D. Zhu, M. Chollet, G. J. Williams, M. Messerschmidt, B. Abbey, R. J. Harder, A. M. Korsunsky, J. S. Wark, I. K. Robinson

    http://dx.doi.org/10.1126/science.1236034 journal-article Clark, J.N. et al., 2013. Ultrafast Three-Dimensional Imaging of Lattice Dynamics in Individual Gold Nanocrystals. Science, 341(6141), pp.56–59. Available at: http://dx.doi.org/10.1126/science.1236034. J. N. Clark and L. Beitra and G. …

  63. Sensing the wavefront of x-ray free-electron lasers using aerosol spheres

    0.0 out of 5 stars 

    13 May 2013 | BioXFEL Publications | Contributor(s): N. Duane Loh, Dmitri Starodub, Lukas Lomb, Christina Y. Hampton, Andrew V. Martin, Raymond G. Sierra, Anton Barty, Andrew Aquila, Joachim Schulz, Jan Steinbrener, Robert L. Shoeman, Stephan Kassemeyer, Christoph Bostedt, John Bozek, Sascha W. Epp, Benjamin Erk, Robert Hartmann, Daniel Rolles, Artem Rudenko, Benedikt Rudek, Lutz Foucar, Nils Kimmel, Georg Weidenspointner, Guenter Hauser, Peter Holl, Emanuele Pedersoli, Mengning Liang, Mark S. Hunter, Lars Gumprecht, Nicola Coppola, Cornelia Wunderer, Heinz Graafsma, Filipe R.N.C. Maia, Tomas Ekeberg, Max Hantke, Holger Fleckenstein, Helmut Hirsemann, Karol Nass, Thomas A. White, Herbert J. Tobias, George R. Farquar, W. Henry Benner, Stefan Hau-Riege, Christian Reich, Andreas Hartmann, Heike Soltau, Stefano Marchesini, Sasa Bajt, Miriam Barthelmess, Lothar Strueder, Joachim Ullrich, Philip Bucksbaum, Matthias Frank, Ilme Schlichting, Henry Chapman, Michael J. Bogan

    journal-article http://dx.doi.org/10.1364/oe.21.012385 Loh, N.D. et al., 2013. Sensing the wavefront of x-ray free-electron lasers using aerosol spheres. Optics Express, 21(10), p.12385. Available at: http://dx.doi.org/10.1364/oe.21.012385. N. Duane Loh and Dmitri Starodub and Lukas Lomb and …

  64. Mix and Inject: Reaction Initiation by Diffusion for Time-Resolved Macromolecular Crystallography

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    12 May 2013 | BioXFEL Publications | Contributor(s): Marius Schmidt

    Time-resolved macromolecular crystallography unifies structure determination with chemical kinetics, since the structures of transient states and chemical and kinetic mechanisms can be determined simultaneously from the same data. To start a reaction in an enzyme, typically, an initially inactive …

  65. Three-dimensional single-particle imaging using angular correlations from X-ray laser data

    0.0 out of 5 stars 

    07 May 2013 | BioXFEL Publications | Contributor(s): Haiguang Liu, Billy K. Poon, Dilano Saldin, John Spence, Peter H. Zwart

    http://dx.doi.org/10.1107/s0108767313006016 journal-article Liu, H. et al., 2013. Three-dimensional single-particle imaging using angular correlations from X-ray laser data. Acta Crystallographica Section A Foundations of Crystallography, 69(4), pp.365–373. Available at: …

  66. Integrated nonlinear optical imaging microscope for on-axis crystal detection and centering at a synchrotron beamline

    0.0 out of 5 stars 

    02 May 2013 | BioXFEL Publications | Contributor(s): Jeremy T. Madden, Scott J. Toth, Christopher M. Dettmar, Justin A. Newman, Robert A. Oglesbee, Hartmut G. Hedderich, R. Michael Everly, Michael Becker, Judith A. Ronau, Susan K. Buchanan, Vadim Cherezov, Marie E. Morrow, Shenglan Xu, Dale Ferguson, Oleg Makarov, Chittaranjan Das, Robert Fischetti, Garth J. Simpson

    http://dx.doi.org/10.1107/s0909049513007942 Nonlinear optical (NLO) instrumentation has been integrated with synchrotron X-ray diffraction (XRD) for combined single-platform analysis, initially targeting applications for automated crystal centering. Second-harmonic-generation microscopy and …

  67. Exploring Adsorption and Reactivity of NH3on Reduced Graphene Oxide

    0.0 out of 5 stars 

    28 Apr 2013 | BioXFEL Publications | Contributor(s): Eric C. Mattson, Kanupriya Pande, Miriam Unger, Shumao Cui, Ganhua Lu, M. Gajdardziska-Josifovska, Michael Weinert, Junhong Chen, Carol J. Hirschmugl

    journal-article http://dx.doi.org/10.1021/jp3122853 Mattson, E.C. et al., 2013. Exploring Adsorption and Reactivity of NH3on Reduced Graphene Oxide. The Journal of Physical Chemistry C, 117(20), pp.10698–10707. Available at: http://dx.doi.org/10.1021/jp3122853. Eric C. Mattson and Kanupriya …

  68. Crystal structure of the protein fromArabidopsis thalianagene At5g06450, a putative DnaQ-like exonuclease domain-containing protein with homohexameric assembly

    0.0 out of 5 stars 

    24 Apr 2013 | BioXFEL Publications | Contributor(s): David W. Smith, Mi Ra Han, Joon Sung Park, Kyung Rok Kim, Taeho Yeom, Ji Yeon Lee, Do Jin Kim, Craig A. Bingman, Hyun-Jung Kim, Kyubong Jo, Byung Woo Han, George Phillips

    http://dx.doi.org/10.1002/prot.24315 journal-article Smith, D.W. et al., 2013. Crystal structure of the protein fromArabidopsis thalianagene At5g06450, a putative DnaQ-like exonuclease domain-containing protein with homohexameric assembly. Proteins: Structure, Function, and Bioinformatics, 81(9), …

  69. An Extension of 3D Zernike Moments for Shape Description and Retrieval of Maps Defined in Rectangular Solids

    0.0 out of 5 stars 

    23 Apr 2013 | BioXFEL Publications | Contributor(s): Atilla Sit, Julie C Mitchell, George Phillips, Stephen J Wright

    http://dx.doi.org/10.2478/mlbmb-2013-0004 journal-article Sit, A. et al., 2013. An Extension of 3D Zernike Moments for Shape Description and Retrieval of Maps Defined in Rectangular Solids. Molecular Based Mathematical Biology, 1. Available at: http://dx.doi.org/10.2478/mlbmb-2013-0004. Atilla …

  70. Polyelectrolyte properties of single stranded DNA measured using SAXS and single molecule FRET: Beyond the wormlike chain model

    0.0 out of 5 stars 

    20 Apr 2013 | BioXFEL Publications | Contributor(s): Steve P. Meisburger, Julie L. Sutton, Huimin Chen, Suzette A. Pabit, Serdal Kirmizialtin, Ron Elber, Lois Pollack

    http://dx.doi.org/10.1002/bip.22265 journal-article Meisburger, S.P. et al., 2013. Polyelectrolyte properties of single stranded DNA measured using SAXS and single molecule FRET: Beyond the wormlike chain model. Biopolymers, p.n/a–n/a. Available at: http://dx.doi.org/10.1002/bip.22265. Steve …

  71. Towards protein-crystal centering using second-harmonic generation (SHG) microscopy

    0.0 out of 5 stars 

    18 Apr 2013 | BioXFEL Publications | Contributor(s): David J. Kissick, Christopher M. Dettmar, Michael Becker, Anne M. Mulichak, Vadim Cherezov, Stephan L. Ginell, Kevin P. Battaile, Lisa J. Keefe, Robert F. Fischetti, Garth J. Simpson

    http://dx.doi.org/10.1107/s0907444913002746 journal-article Kissick, D.J. et al., 2013. Towards protein-crystal centering using second-harmonic generation (SHG) microscopy. Acta Crystallographica Section D Biological Crystallography, 69(5), pp.843–851. Available at: …

  72. T box RNA decodes both the information content and geometry of tRNA to affect gene expression

    0.0 out of 5 stars 

    15 Apr 2013 | BioXFEL Publications | Contributor(s): J. C. Grigg, Y. Chen, F. J. Grundy, T. M. Henkin, L. Pollack, A. Ke

    http://dx.doi.org/10.1073/pnas.1222214110 journal-article Grigg, J.C. et al., 2013. T box RNA decodes both the information content and geometry of tRNA to affect gene expression. Proceedings of the National Academy of Sciences, 110(18), pp.7240–7245. Available at: …

  73. AutoDrug: fully automated macromolecular crystallography workflows for fragment-based drug discovery

    0.0 out of 5 stars 

    10 Apr 2013 | BioXFEL Publications | Contributor(s): Yingssu Tsai, Scott E. McPhillips, Ana González, Timothy M. McPhillips, Daniel Zinn, Aina E. Cohen, Michael D. Feese, David Bushnell, Theresa Tiefenbrunn, C. David Stout, Bertram Ludaescher, Britt Hedman, Keith O. Hodgson, S. Michael Soltis

    journal-article http://dx.doi.org/10.1107/s0907444913001984 Tsai, Y. et al., 2013. AutoDrug: fully automated macromolecular crystallography workflows for fragment-based drug discovery. Acta Crystallographica Section D Biological Crystallography, 69(5), pp.796–803. Available at: …

  74. Structures of the Noncanonical RNA Ligase RtcB Reveal the Mechanism of Histidine Guanylylation

    0.0 out of 5 stars 

    28 Mar 2013 | BioXFEL Publications | Contributor(s): Kevin K. Desai, Craig A. Bingman, George Phillips, Ronald T. Raines

    http://dx.doi.org/10.1021/bi4002375 journal-article Desai, K.K. et al., 2013. Structures of the Noncanonical RNA Ligase RtcB Reveal the Mechanism of Histidine Guanylylation. Biochemistry, 52(15), pp.2518–2525. Available at: http://dx.doi.org/10.1021/bi4002375. Kevin K. Desai and Craig A. …

  75. PNA-Peptide Assembly in a 3D DNA Nanocage at Room Temperature

    0.0 out of 5 stars 

    25 Mar 2013 | BioXFEL Publications | Contributor(s): Justin D. Flory, Sandip Shinde, Su Lin, Yan Liu, Hao Yan, Giovanna Ghirlanda, Petra Fromme

    http://dx.doi.org/10.1021/ja400762c journal-article Flory, J.D. et al., 2013. PNA-Peptide Assembly in a 3D DNA Nanocage at Room Temperature. Journal of the American Chemical Society, 135(18), pp.6985–6993. Available at: http://dx.doi.org/10.1021/ja400762c. Justin D. Flory and Sandip Shinde and …

  76. Crystal structure of SsfS6, the putativeC-glycosyltransferase involved in SF2575 biosynthesis

    0.0 out of 5 stars 

    23 Mar 2013 | BioXFEL Publications | Contributor(s): Fengbin Wang, Maoquan Zhou, Shanteri Singh, Ragothaman M. Yennamalli, Craig A. Bingman, Jon S. Thorson, George Phillips

    http://dx.doi.org/10.1002/prot.24289 journal-article Wang, F. et al., 2013. Crystal structure of SsfS6, the putativeC-glycosyltransferase involved in SF2575 biosynthesis. Proteins: Structure, Function, and Bioinformatics, 81(7), pp.1277–1282. Available at: http://dx.doi.org/10.1002/prot.24289. …

  77. Structure Determination from Disordered Ensembles of Identical Particles

    0.0 out of 5 stars 

    22 Mar 2013 | BioXFEL Publications | Contributor(s): Richard Kirian, Dilano Saldin

    http://dx.doi.org/10.1080/08940886.2013.771070 journal-article Kirian, R.A. & Saldin, D.K., 2013. Structure Determination from Disordered Ensembles of Identical Particles. Synchrotron Radiation News, 26(2), pp.20–25. Available at: http://dx.doi.org/10.1080/08940886.2013.771070. Richard A. …

  78. Development of coherent scattering and diffractive imaging and the COSMIC facility at the Advanced Light Source

    0.0 out of 5 stars 

    22 Mar 2013 | BioXFEL Publications | Contributor(s): D Shapiro, S Roy, R Celestre, W Chao, D Doering, M Howells, S Kevan, D Kilcoyne, J Kirz, S Marchesini, K A Seu, A Schirotzek, J Spence, T Tyliszczak, T Warwick, D Voronov, H A Padmore

    http://dx.doi.org/10.1088/1742-6596/425/19/192011 journal-article Shapiro, D. et al., 2013. Development of coherent scattering and diffractive imaging and the COSMIC facility at the Advanced Light Source. Journal of Physics: Conference Series, 425(19), p.192011. Available at: …

  79. Allosteric Activation Transitions in Enzymes and Biomolecular Motors: Insights from Atomistic and Coarse-Grained Simulations

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    06 Mar 2013 | BioXFEL Publications | Contributor(s): Michael D. Daily, Haibo Yu, George Phillips, Qiang Cui

    http://dx.doi.org/10.1007/128_2012_409 book-chapter Daily, M.D. et al., 2013. Allosteric Activation Transitions in Enzymes and Biomolecular Motors: Insights from Atomistic and Coarse-Grained Simulations. Topics in Current Chemistry, pp.139–164. Available at: …

  80. Flexible Backbone Sampling Methods to Model and Design Protein Alternative Conformations

    0.0 out of 5 stars 

    18 Feb 2013 | BioXFEL Publications | Contributor(s): Noah Ollikainen, Colin A. Smith, James Fraser, Tanja Kortemme

    http://dx.doi.org/10.1016/b978-0-12-394292-0.00004-7 book-chapter Ollikainen, N. et al., 2013. Flexible Backbone Sampling Methods to Model and Design Protein Alternative Conformations. Methods in Protein Design, pp.61–85. Available at: http://dx.doi.org/10.1016/b978-0-12-394292-0.00004-7. Noah …

  81. Role of Ion Valence in the Submillisecond Collapse and Folding of a Small RNA Domain

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    12 Feb 2013 | BioXFEL Publications | Contributor(s): Suzette A. Pabit, Julie L. Sutton, Huimin Chen, Lois Pollack

    http://dx.doi.org/10.1021/bi3016636 journal-article Pabit, S.A. et al., 2013. Role of Ion Valence in the Submillisecond Collapse and Folding of a Small RNA Domain. Biochemistry, 52(9), pp.1539–1546. Available at: http://dx.doi.org/10.1021/bi3016636. Suzette A. Pabit and Julie L. Sutton and …

  82. Protein dielectrophoresis: Advances, challenges, and applications

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    11 Feb 2013 | BioXFEL Publications | Contributor(s): Asuka Nakano, Alexandra Ros

    http://dx.doi.org/10.1002/elps.201200482 journal-article Nakano, A. & Ros, A., 2013. Protein dielectrophoresis: Advances, challenges, and applications. ELECTROPHORESIS, 34(7), pp.1085–1096. Available at: http://dx.doi.org/10.1002/elps.201200482. Asuka Nakano and Alexandra Ros

  83. Coordinating the impact of structural genomics on the human α-helical transmembrane proteome

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    05 Feb 2013 | BioXFEL Publications | Contributor(s): Ursula Pieper, Avner Schlessinger, Edda Kloppmann, Geoffrey A Chang, James J Chou, Mark E Dumont, Brian G Fox, Petra Fromme, Wayne A Hendrickson, Michael G Malkowski, Douglas C Rees, David L Stokes, Michael H B Stowell, Michael C Wiener, Burkhard Rost, Robert Stroud, Raymond C Stevens, Andrej Sali

    journal-article http://dx.doi.org/10.1038/nsmb.2508 Pieper, U. et al., 2013. Coordinating the impact of structural genomics on the human α-helical transmembrane proteome. Nature Structural & Molecular Biology, 20(2), pp.135–138. Available at: http://dx.doi.org/10.1038/nsmb.2508. Ursula Pieper …

  84. Volume-conserving trans–cis isomerization pathways in photoactive yellow protein visualized by picosecond X-ray crystallography

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    01 Feb 2013 | BioXFEL Publications | Contributor(s): Yang Ouk Jung, Jae Hyuk Lee, Joonghan Kim, Marius Schmidt, Keith Moffat, Vukica Šrajer, Hyotcherl Ihee

    http://dx.doi.org/10.1038/nchem.1565 journal-article Jung, Y.O. et al., 2013. Volume-conserving trans–cis isomerization pathways in photoactive yellow protein visualized by picosecond X-ray crystallography. Nature Chemistry, 5(3), pp.212–220. Available at: …

  85. Purification and SAXS Analysis of the Integrin Linked Kinase, PINCH, Parvin (IPP) Heterotrimeric Complex

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    31 Jan 2013 | BioXFEL Publications | Contributor(s): Amy L. Stiegler, Thomas D. Grant, Joseph Luft, David A. Calderwood, Edward Snell, Titus J. Boggon

    http://dx.doi.org/10.1371/journal.pone.0055591 journal-article Stiegler, A.L. et al., 2013. Purification and SAXS Analysis of the Integrin Linked Kinase, PINCH, Parvin (IPP) Heterotrimeric Complex B. Kobe, ed. PLoS ONE, 8(1), p.e55591. Available at: …

  86. Crystallization of a self-assembled three-dimensional DNA nanostructure

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    30 Jan 2013 | BioXFEL Publications | Contributor(s): Kimberly N. Rendek, Raimund Fromme, Ingo Grotjohann, Petra Fromme

    journal-article http://dx.doi.org/10.1107/s1744309112052128 Rendek, K.N. et al., 2013. Crystallization of a self-assembled three-dimensional DNA nanostructure. Acta Crystallographica Section F Structural Biology and Crystallization Communications, 69(2), pp.141–146. Available at: …

  87. Secondary Structure and Folding of Amino Acid Transporter from Outer Chloroplast Membrane

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    29 Jan 2013 | BioXFEL Publications | Contributor(s): James D Zook, Trivikram R. Moulgu, Neil Jacobsen, Guangxin Lin, Brian Cherry, Michael F. Brown, Petra Fromme

    http://dx.doi.org/10.1016/j.bpj.2012.11.1248 journal-article Zook, J.D. et al., 2013. Secondary Structure and Folding of Amino Acid Transporter from Outer Chloroplast Membrane. Biophysical Journal, 104(2), p.221a. Available at: http://dx.doi.org/10.1016/j.bpj.2012.11.1248. James D. Zook and …

  88. Dielectrophoresis of lambda-DNA using 3D carbon electrodes

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    24 Jan 2013 | BioXFEL Publications | Contributor(s): Rodrigo Martinez-Duarte, Fernanda Camacho-Alanis, Philippe Renaud, Alexandra Ros

    http://dx.doi.org/10.1002/elps.201200447 journal-article Martinez-Duarte, R. et al., 2013. Dielectrophoresis of lambda-DNA using 3D carbon electrodes. ELECTROPHORESIS, 34(7), pp.1113–1122. Available at: http://dx.doi.org/10.1002/elps.201200447. Rodrigo Martinez-Duarte and Fernanda …

  89. Relative Stability of Human Centrins and Its Relationship to Calcium Binding

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    24 Jan 2013 | BioXFEL Publications | Contributor(s): Belinda Pastrana-Ríos, Myrna Reyes, Jessica De Orbeta, Verónica Meza, Daniel Narváez, Ana María Gómez, Aslin Marie Rodriguez Nassif, Ruth Almodovar, Adalberto Díaz Casas, José Robles, Ana María Ortiz, Lizbeth Irizarry, Melissa Campbell, Mara Colón

    journal-article http://dx.doi.org/10.1021/bi301417z Pastrana-Ríos, B. et al., 2013. Relative Stability of Human Centrins and Its Relationship to Calcium Binding. Biochemistry, 52(7), pp.1236–1248. Available at: http://dx.doi.org/10.1021/bi301417z. Belinda Pastrana-Ríos and Myrna Reyes and …

  90. From Systems to Structure: Bridging Networks and Mechanism

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    24 Jan 2013 | BioXFEL Publications | Contributor(s): James S. Fraser, John D. Gross, Nevan J. Krogan

    journal-article http://dx.doi.org/10.1016/j.molcel.2013.01.003 Fraser, J.S., Gross, J.D. & Krogan, N.J., 2013. From Systems to Structure: Bridging Networks and Mechanism. Molecular Cell, 49(2), pp.222–231. Available at: http://dx.doi.org/10.1016/j.molcel.2013.01.003. James S. Fraser and …

  91. Structure of the Bifunctional Acyltransferase/Decarboxylase LnmK from the Leinamycin Biosynthetic Pathway Revealing Novel Activity for a Double-Hot-Dog Fold

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    15 Jan 2013 | BioXFEL Publications | Contributor(s): Jeremy R. Lohman, Craig A. Bingman, George Phillips, Ben Shen

    http://dx.doi.org/10.1021/bi301652y journal-article Lohman, J.R. et al., 2013. Structure of the Bifunctional Acyltransferase/Decarboxylase LnmK from the Leinamycin Biosynthetic Pathway Revealing Novel Activity for a Double-Hot-Dog Fold. Biochemistry, 52(5), pp.902–911. Available at: …

  92. Formation and Fate of a Complete 31-Protein RNA Polymerase II Transcription Preinitiation Complex

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    10 Jan 2013 | BioXFEL Publications | Contributor(s): Kenji Murakami, Guillermo Calero, Christopher R. Brown, Xin Liu, Ralph E. Davis, Hinrich Boeger, Roger Kornberg

    journal-article http://dx.doi.org/10.1074/jbc.m112.433623 Murakami, K. et al., 2013. Formation and Fate of a Complete 31-Protein RNA Polymerase II Transcription Preinitiation Complex. Journal of Biological Chemistry, 288(9), pp.6325–6332. Available at: http://dx.doi.org/10.1074/jbc.m112.433623. …

  93. Breaking the Radiation Damage Limit with Cryo-SAXS

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    08 Jan 2013 | BioXFEL Publications | Contributor(s): Steve P. Meisburger, Matthew Warkentin, Huimin Chen, Jesse B. Hopkins, Richard E. Gillilan, Lois Pollack, Robert E. Thorne

    http://dx.doi.org/10.1016/j.bpj.2012.11.3817 journal-article Meisburger, S.P. et al., 2013. Breaking the Radiation Damage Limit with Cryo-SAXS. Biophysical Journal, 104(1), pp.227–236. Available at: http://dx.doi.org/10.1016/j.bpj.2012.11.3817. Steve P. Meisburger and Matthew Warkentin and …

  94. Phasing coherently illuminated nanocrystals bounded by partial unit cells

    5.0 out of 5 stars 

    31 Dec 2012 | Publications | Contributor(s): R. Kirian, R. Bean, K. Beyerlein, O. Yevanof, T. White, A. Barty, Henry Chapman

    With the use of highly coherent femtosecond X-ray pulses from a free-electron laser, it is possible to record protein nanocrystal diffraction patterns with far more information than is present in conventional crystallographic diffraction data. It has been suggested that diffraction phases may be …

  95. Natively Inhibited Trypanosoma brucei Cathepsin B Structure Determined by Using an X-ray Laser

    0.0 out of 5 stars 

    30 Nov 2012 | BioXFEL Publications | Contributor(s): L. Redecke, K. Nass, D. P. DePonte, T. A. White, D. Rehders, A. Barty, F. Stellato, M. Liang, T. R. M. Barends, S. Boutet, G. J. Williams, M. Messerschmidt, M. M. Seibert, A. Aquila, D. Arnlund, S. Bajt, T. Barth, M. J. Bogan, C. Caleman, T.-C. Chao, R. B. Doak, H. Fleckenstein, M. Frank, R. Fromme, L. Galli, I. Grotjohann, M. S. Hunter, L. C. Johansson, S. Kassemeyer, G. Katona, R. A. Kirian, R. Koopmann, C. Kupitz, L. Lomb, A. V. Martin, S. Mogk, R. Neutze, R. L. Shoeman, J. Steinbrener, N. Timneanu, D. Wang, U. Weierstall, N. A. Zatsepin, J. C. H. Spence, P. Fromme, I. Schlichting, M. Duszenko, C. Betzel, H. N. Chapman

    http://dx.doi.org/10.1126/science.1229663 journal-article Redecke, L. et al., 2013. Natively Inhibited Trypanosoma brucei Cathepsin B Structure Determined by Using an X-ray Laser. Science, 339(6116), pp.227–230. Available at: http://dx.doi.org/10.1126/science.1229663. L. Redecke and K. Nass …

  96. Subcongenic Analyses Reveal Complex Interactions between Distal Chromosome 4 Genes Controlling Diabetogenic B Cells and CD4 T Cells in Nonobese Diabetic Mice

    0.0 out of 5 stars 

    26 Jun 2012 | BioXFEL Publications | Contributor(s): J. Stolp, Y.-G. Chen, S. L. Cox, V. Henck, W. Zhang, S.-W. Tsaih, H. Chapman, T. Stearns, D. V. Serreze, P. A. Silveira

    http://dx.doi.org/10.4049/jimmunol.1200120 journal-article Stolp, J. et al., 2012. Subcongenic Analyses Reveal Complex Interactions between Distal Chromosome 4 Genes Controlling Diabetogenic B Cells and CD4 T Cells in Nonobese Diabetic Mice. The Journal of Immunology, 189(3), pp.1406–1417. …

  97. X-ray crystal structure of the transmembrane beta-domain from intimin from EHEC strain O157:H7

    0.0 out of 5 stars 

    12 Jun 2012 | BioXFEL Publications | Contributor(s): J.W. Fairman, N. Dautin, D. Wojtowicz, L. Wei, N. Noinaj, T.J. Barnard, E. Udho, A. Finkelstein, T.M. Przytycka, V. Cherezov, S.K. Buchanan

    http://dx.doi.org/10.2210/pdb4e1s/pdb component Fairman, J.W. et al., 2012. X-ray crystal structure of the transmembrane beta-domain from intimin from EHEC strain O157:H7. Available at: http://dx.doi.org/10.2210/pdb4e1s/pdb. J.W. Fairman and N. Dautin and D. Wojtowicz and L. Wei and N. Noinaj …

  98. X-ray crystal structure of the transmembrane beta-domain from invasin from Yersinia pseudotuberculosis

    0.0 out of 5 stars 

    12 Jun 2012 | BioXFEL Publications | Contributor(s): J.W. Fairman, N. Dautin, D. Wojtowicz, L. Wei, N. Noinaj, T.J. Barnard, E. Udho, A. Finkelstein, T.M. Przytycka, V. Cherezov, S.K. Buchanan

    http://dx.doi.org/10.2210/pdb4e1t/pdb component Fairman, J.W. et al., 2012. X-ray crystal structure of the transmembrane beta-domain from invasin from Yersinia pseudotuberculosis. Available at: http://dx.doi.org/10.2210/pdb4e1t/pdb. J.W. Fairman and N. Dautin and D. Wojtowicz and L. Wei and N. …

  99. Bacterial phytochromes: More than meets the light

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    21 Jan 2011 | BioXFEL Publications | Contributor(s): Michele E. Auldridge, Katrina T. Forest

    http://dx.doi.org/10.3109/10409238.2010.546389 journal-article Auldridge, M.E. & Forest, K.T., 2011. Bacterial phytochromes: More than meets the light. Critical Reviews in Biochemistry and Molecular Biology, 46(1), pp.67–88. Available at: http://dx.doi.org/10.3109/10409238.2010.546389. Michele …

  100. The Coherent X-ray Imaging Data Bank

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    31 Dec 2010 | Publications | Contributor(s): F. R. N. C. Maia

    www.cxidb.org The Coherent X-ray Imaging Data Bank (CXIDB) is a database offering scientists access to data from Coherent X-ray Imaging (CXI) experiments, including serial femtosecond crystallography and single particle imaging. www.cxidb.org The Coherent X-ray Imaging Data Bank Filipe R …