Journal of Synchrotron Radiation

Volume 18, Part 1 (January 2011)


3rd International Symposium on Diffraction Structural Biology (ISDSB2010)

Paris-Sud/XI University, Orsay, France, 25-28th May 2010

[Buy print version] A printed copy of this issue is available for purchase


[Issue Author Index][Volume Author Index]
[Cover illustration] Cover illustration: Images from presentations given at ISDSB2010. Centre: 70S ribosome crystal structure (courtesy of V. Ramakrishnan). Top right: neutron crystallography nuclear density maps of a singly protonated (left) and doubly protonated (right) histidine in haemoglobin (courtesy of Y. Morimoto). Bottom right: X-ray tomography reconstruction of the yeast S. pombe (courtesy of C. Larabell). Left: small-angle X-ray scattering rigid-body fitting for [alpha]-crustacyanin (from Rhys et al., pages 79-83).

diffraction structural biology


 

[HTML version][PDF version][Supplementary Material]  [Open access]

J. Synchrotron Rad. (2011). 18, 1  [ doi:10.1107/S0909049510044912 ]

Diffraction structural biology - introductory overview

R. Fourme, J. R. Helliwell, J. E. Johnson, N. Sakabe and N. Yasuoka

Synopsis: An introductory overview to the special issue papers on diffraction structural biology in this issue of the journal.

Online 12 November 2010


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J. Synchrotron Rad. (2011). 18, 2-5  [ doi:10.1107/S0909049510036812 ]

Three-dimensional structural analysis of eukaryotic flagella/cilia by electron cryo-tomography

K. H. Bui, G. Pigino and T. Ishikawa

Synopsis: Based on the molecular architecture revealed by electron cryo-tomography, the mechanism of the bending motion of eukaryotic flagella/cilia is discussed.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 6-10  [ doi:10.1107/S0909049510028669 ]

Crystal structure of stable protein CutA1 from psychrotrophic bacterium Shewanella sp. SIB1

A. Sato, S. Yokotani, T. Tadokoro, S. Tanaka, C. Angkawidjaja, Y. Koga, K. Takano and S. Kanaya

Synopsis: The crystal structure of CutA1 from the psychrotrophic bacterium Shewanella sp. SIB1 in a trimeric form was determined at 2.7 Å resolution. This is the first crystal structure of a psychrotrophic CutA1.

PDB reference: 3ahp

Online 12 November 2010


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J. Synchrotron Rad. (2011). 18, 11-15  [ doi:10.1107/S0909049510028670 ]

UV LED lighting for automated crystal centring

L. M. G. Chavas, Y. Yamada, M. Hiraki, N. Igarashi, N. Matsugaki and S. Wakatsuki

Synopsis: A low-cost light-emitting diode (LED) UV source has been developed for facilitating macromolecular sample centring in the X-ray beam.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 16-19  [ doi:10.1107/S090904951003445X ]

Approach for growth of high-quality and large protein crystals

H. Matsumura, S. Sugiyama, M. Hirose, K. Kakinouchi, M. Maruyama, R. Murai, H. Adachi, K. Takano, S. Murakami, Y. Mori and T. Inoue

Synopsis: Three crystallization methods, including crystallization in the presence of a semi-solid agarose gel, top-seeded solution growth (TSSG) and a large-scale hanging-drop method, have previously been presented. In this study, crystallization has been further evaluated in the presence of a semi-solid agarose gel by crystallizing additional proteins. A novel crystallization method combining TSSG and the large-scale hanging-drop method has also been developed.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 20-23  [ doi:10.1107/S0909049510032449 ]

The alternating access mechanism of transport as observed in the sodium-hydantoin transporter Mhp1

S. Weyand, T. Shimamura, O. Beckstein, M. S. P. Sansom, S. Iwata, P. J. F. Henderson and A. D. Cameron

Synopsis: Crystal structures of a membrane protein transporter in three different conformational states provide insights into the transport mechanism.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 24-28  [ doi:10.1107/S090904951002772X ]

Crystallization and preliminary structural analysis of the giant haemoglobin from Glossoscolex paulistus at 3.2 Å

J. F. R. Bachega, L. Bleicher, E. R. Horjales, P. S. Santiago, R. C. Garratt and M. Tabak

Synopsis: Diffraction data to 3.2 Å from crystals of the 3.6 MDa erythrocruorin from a Brazilian earthworm represent the highest resolution reported to date for similar complexes. An unambiguous molecular replacement solution shows the particle to belong to the type I class.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 29-30  [ doi:10.1107/S0909049510030700 ]

Structure analysis of group I plant nucleases

J. Dohnálek, T. Koval', P. Lipovová, T. Podzimek and J. Matousek

Synopsis: Structural properties of plant nuclease TBN1 are studied using synchrotron radiation to explain its specificity, role of glycosylation and to contribute to potential application in cancer treatment.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 31-36  [ doi:10.1107/S0909049510041695 ]

A new paradigm for macromolecular crystallography beamlines derived from high-pressure methodology and results

R. Fourme, E. Girard, A.-C. Dhaussy, K. Medjoubi, T. Prangé, I. Ascone, M. Mezouar and R. Kahn

Synopsis: Macromolecular crystallography at high pressure (HPMX) is a mature technique. Shorter X-ray wavelengths increase data collection efficiency on cryocooled crystals. Extending applications and exploiting spin-off of HPMX will require dedicated synchrotron radiation beamlines based on a new paradigm.

Online 12 November 2010


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J. Synchrotron Rad. (2011). 18, 37-40  [ doi:10.1107/S0909049510033601 ]

Single-crystal Raman spectroscopy and X-ray crystallography at beamline X26-C of the NSLS

D. Stoner-Ma, J. M. Skinner, D. K. Schneider, M. Cowan, R. M. Sweet and A. M. Orville

Synopsis: The collection of absorption and Raman spectroscopic data correlated with X-ray diffraction data allows investigators to understand the atomic structure as well as the electronic and vibrational characteristics of their samples, to identify transiently formed intermediates and to explore mechanistic questions. Raman spectroscopy instrumentation at beamline X26-C at the NSLS is currently available to the general user population.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 41-44  [ doi:10.1107/S0909049510036022 ]

Biomolecular solution X-ray scattering at the National Synchrotron Light Source

M. Allaire and L. Yang

Synopsis: A new beamline for simultaneous SAXS/WAXS of biomolecules in solution is described.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 45-49  [ doi:10.1107/S0909049510036009 ]

Structural insights and ab initio sequencing within the DING proteins family

M. Elias, D. Liebschner, G. Gotthard and E. Chabriere

Synopsis: DING proteins constitute a recently discovered protein family that is ubiquitous in eukaryotes. The structural insights and the physiological involvements of these intriguing proteins are hereby deciphered.

Online 5 November 2010


 

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J. Synchrotron Rad. (2011). 18, 50-52  [ doi:10.1107/S0909049510032450 ]

Protein surface shielding agents in protein crystallization

J. Hasek

Synopsis: The crystallization process can be controlled by protein surface shielding agents blocking undesirable competitive adhesion modes during non-equilibrium processes of deposition of protein molecules on the surface of growing crystalline blocks. The hypothesis is based on a number of experimental proofs from diffraction experiments and also retrieved from the Protein Data Bank.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 53-57  [ doi:10.1107/S0909049510029948 ]

Research and development of an electron beam focusing system for a high-brightness X-ray generator

T. Sakai, S. Ohsawa, N. Sakabe, T. Sugimura and M. Ikeda

Synopsis: In order to minimize the size of the X-ray source for a U-shaped rotating anticathode X-ray generator, the electron beam is focused over a short distance by a combined-function bending magnet. Simulation predicts that the beam brightness will reach almost 500 kW mm-2 for a 120 keV/75 mA beam.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 58-61  [ doi:10.1107/S0909049510034989 ]

Detection of the reaction intermediates catalyzed by a copper amine oxidase

M. Kataoka, H. Oya, A. Tominaga, M. Otsu, T. Okajima, K. Tanizawa and H. Yamaguchi

Synopsis: Consecutive temporal analyses of enzyme structure have been performed during reactions in order to clarify the structure-based reaction mechanism. Four intermediate structures have been determined.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 62-65  [ doi:10.1107/S0909049510027718 ]

Purine nucleoside phosphorylase from Schistosoma mansoni in complex with ribose-1-phosphate

H. D'Muniz Pereira, G. Oliva and R. C. Garratt

Synopsis: A binary complex between a low-molecular-weight purine nucleoside phosphorylase and ribose-1-phosphate is described for the first time and comparisons with known ternary complexes are drawn.

PDB reference: 3fb1

Online 12 November 2010


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J. Synchrotron Rad. (2011). 18, 66-69  [ doi:10.1107/S0909049510033595 ]

Structure of the inhibitor complex of old yellow enzyme from Trypanosoma cruzi

K. Yamaguchi, N. Okamoto, K. Tokuoka, S. Sugiyama, N. Uchiyama, H. Matsumura, K. Inaka, Y. Urade and T. Inoue

Synopsis: The structures of old yellow enzyme from Trypanosoma cruzi which produces prostaglandin F2[alpha] from PGH2 have been determined in the presence or absence of menadione.

Online 12 November 2010


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[HTML version][PDF version]  [Open access]

J. Synchrotron Rad. (2011). 18, 70-73  [ doi:10.1107/S0909049510036010 ]

Microcrystallography, high-pressure cryocooling and BioSAXS at MacCHESS

U. Englich, I. A. Kriksunov, R. A. Cerione, M. J. Cook, R. Gillilan, S. M. Gruner, Q. Huang, C. U. Kim, W. Miller, S. Nielsen, D. Schuller, S. Smith and D. M. E. Szebenyi

Synopsis: Three research initiatives pursued by the Macromolecular Diffraction Facility at the Cornell High Energy Synchrotron Source (MacCHESS) are presented.

Online 5 November 2010


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J. Synchrotron Rad. (2011). 18, 74-78  [ doi:10.1107/S0909049510036824 ]

Using lanthanoid complexes to phase large macromolecular assemblies

R. Talon, R. Kahn, M. A. Durá, O. Maury, F. M. D. Vellieux, B. Franzetti and E. Girard

Synopsis: A lanthanoid complex, [Eu(DPA)3]3-, was used to obtain experimental phases at 4.0 Å resolution of PhTET1-12s, a large self-compartmentalized homo-dodecameric protease complex of 444 kDa.

Online 5 November 2010


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[HTML version][PDF version][Supplementary Material]  [Open access]

J. Synchrotron Rad. (2011). 18, 79-83  [ doi:10.1107/S0909049510034977 ]

Deriving the ultrastructure of [alpha]-crustacyanin using lower-resolution structural and biophysical methods

N. H. Rhys, M.-C. Wang, T. A. Jowitt, J. R. Helliwell, J. G. Grossmann and C. Baldock

Synopsis: The structure of [alpha]-crustacyanin has been determined to 30 Å resolution using negative-stain electron microscopy (EM) single-particle averaging and modelling with the [beta]-crustacyanin dimer from the crystal structure (Protein Data Bank code 1gka), guided by PISA protein subunit interface calculations for 1gka, and compared with the protein arrangements observed in the crystal lattice of 1gka. This [alpha]-crustacyanin EM model has been checked against SAXS experimental data, including comparison with rigid-body models calculated from the SAXS data, and finally with analytical ultracentrifugation measurements.

Online 5 November 2010


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[HTML version][PDF version]  [Open access]

J. Synchrotron Rad. (2011). 18, 84-87  [ doi:10.1107/S0909049510035995 ]

Optimization of salt concentration in PEG-based crystallization solutions

M. Yamanaka, K. Inaka, N. Furubayashi, M. Matsushima, S. Takahashi, H. Tanaka, S. Sano, M. Sato, T. Kobayashi and T. Tanaka

Synopsis: Optimal salt concentration in a PEG-based crystallization solution is important for successful crystal growth and can be predicted prior to performing crystallization experiments.

Online 5 November 2010


 

[HTML version][PDF version]  [Open access]

J. Synchrotron Rad. (2011). 18, 88-91  [ doi:10.1107/S0909049510037076 ]

Improvement in the quality of hematopoietic prostaglandin D synthase crystals in a microgravity environment

H. Tanaka, T. Tsurumura, K. Aritake, N. Furubayashi, S. Takahashi, M. Yamanaka, E. Hirota, S. Sano, M. Sato, T. Kobayashi, T. Tanaka, K. Inaka and Y. Urade

Synopsis: Crystals of hematopoietic prostaglandin D synthase grown in microgravity show improved quality.

Online 5 November 2010


current events


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J. Synchrotron Rad. (2011). 18, 92-93  [ doi:10.1107/S0909049510051599 ]

Current events

Online 16 December 2010


international union of crystallography


 

[HTML version][PDF version]  [Open access]

J. Synchrotron Rad. (2011). 18, 94-98  [ doi:10.1107/S090904951004728X ]

Notes for authors 2011

Online 16 December 2010


 

J. Synchrotron Rad. (2011). 18, 99

forthcoming meetings and short courses


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