Acta Crystallographica Section D

Biological Crystallography

Volume 68, Part 10 (October 2012)



[Issue Author Index][Volume Author Index]
[Cover illustration] Cover illustration: CofA, a major pilin subunit of colonization factor antigen III from human enterotoxigenic Escherichia coli (p. 1418). Top view of the CofA filament model. The filament diameter is approximately 80 Å.

research papers


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Acta Cryst. (2012). D68, 1259-1271  [ doi:10.1107/S090744491202625X ]

The structures of T6, T3R3 and R6 bovine insulin: combining X-ray diffraction and absorption spectroscopy

C. G. Frankær, M. V. Knudsen, K. Norén, E. Nazarenko, K. Ståhl and P. Harris

Synopsis: X-ray absorption spectroscopy (XAS) was used in combination with protein crystallography to study the zinc sites in T6, T3R3 and R6 bovine insulin. The information obtained by XAS is highly accurate and complementary to that obtained from the crystal structures.

PDB references: 4e7t, 4e7u and 4e7v

Online 13 September 2012


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Acta Cryst. (2012). D68, 1272-1277  [ doi:10.1107/S090744491202639X ]

Contamination from an affinity column: an encounter with a new villain in the world of membrane-protein crystallization

P. Panwar, A. Deniaud and E. Pebay-Peyroula

Synopsis: Small crystals of contaminant protein led to the structure at 1.9 Å resolution of Strep-Tactin in complex with desthiobiotin. Trace amounts of Strep-Tactin were observed to be eluted from a Strep-Tactin column using several detergents, illustrating their possible role in the contamination when crystallizing membrane proteins.

PDB reference: 4dne

Online 13 September 2012


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Acta Cryst. (2012). D68, 1278-1289  [ doi:10.1107/S0907444912027047 ]

Structures of bovine, equine and leporine serum albumin

A. Bujacz

Synopsis: Four crystal structures of bovine, equine (two crystal forms) and leporine serum albumin have been determined at resolutions of 2.04-2.47 Å. The proteins were isolated from animal blood and additionally defatted and purified.

PDB references: 4f5t, 4f5s, 4f5u and 4f5v

Online 13 September 2012


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Acta Cryst. (2012). D68, 1290-1302  [ doi:10.1107/S0907444912026388 ]

The 1.2 Å resolution crystal structure of TcpG, the Vibrio cholerae DsbA disulfide-forming protein required for pilus and cholera-toxin production

P. M. Walden, B. Heras, K.-E. Chen, M. A. Halili, K. Rimmer, P. Sharma, M. J. Scanlon and J. L. Martin

Synopsis: The high-resolution crystal structure of TcpG identifies a short contact in the oxidized form.

PDB reference: 4dvc

Online 13 September 2012


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Acta Cryst. (2012). D68, 1303-1310  [ doi:10.1107/S0907444912027552 ]

Various cross-reactivity of the grass pollen group 4 allergens: crystallographic study of the Bermuda grass isoallergen Cyn d 4

T.-H. Huang, H.-J. Peng, S.-N. Su and S.-H. Liaw

Synopsis: The crystal structure of the naturally isolated pollen allergen Cyn d 4 from Bermuda grass provides a structural basis for the enhancement of protein stability by the conserved N-terminal segment, the function of the protein and the various cross-allergenicities of the grass pollen group 4 allergens.

PDB reference: 4dns

Online 13 September 2012


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Acta Cryst. (2012). D68, 1311-1319  [ doi:10.1107/S0907444912027965 ]

The structure of the ternary Eg5-ADP-ispinesib complex

S. K. Talapatra, A. W. Schüttelkopf and F. Kozielski

Synopsis: The complex between the motor protein Eg5 and the phase II clinical candidate ispinesib provides insights into the mechanism of action of this important class of inhibitors.

PDB reference: 4ap0

Online 13 September 2012


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Acta Cryst. (2012). D68, 1320-1328  [ doi:10.1107/S0907444912028351 ]

Structure of FabH and factors affecting the distribution of branched fatty acids in Micrococcus luteus

J. H. Pereira, E.-B. Goh, J. D. Keasling, H. R. Beller and P. D. Adams

Synopsis: In an effort to better understand the control of the formation of branched fatty acids in Micrococcus luteus, the structure of [beta]-ketoacyl-ACP synthase III, which catalyzes the initial step of fatty-acid biosynthesis, has been determined.

PDB reference: 4ewp

Online 18 September 2012


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Acta Cryst. (2012). D68, 1329-1338  [ doi:10.1107/S090744491202848X ]

Structural insight into the ISC domain of VibB from Vibrio cholerae at atomic resolution: a snapshot just before the enzymatic reaction

S. Liu, C. Zhang, N. Li, B. Niu, M. Liu, X. Liu, T. Wei, D. Zhu, Y. Huang, S. Xu and L. Gu

Synopsis: The structure of the VibB ISC domain in complex with isochorismate was determined at atomic resolution. The positions of both of the catalytic waters are significantly affected by the mutation of Asp35 and Lys118.

PDB references: 3tb4 and 3tg2

Online 13 September 2012


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Acta Cryst. (2012). D68, 1339-1345  [ doi:10.1107/S0907444912028491 ]

The accessory domain changes the accessibility and molecular topography of the catalytic interface in monomeric GH39 [beta]-xylosidases

C. Ramos Santos, C. C. Polo, J. M. Corrêa, R. C. G. Simão, F. A. V. Seixas and M. T. Murakami

Synopsis: Structural insights into a new class of monomeric GH39 [beta]-xylosidases.

PDB reference: 4ekj

Online 18 September 2012


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Acta Cryst. (2012). D68, 1346-1358  [ doi:10.1107/S0907444912028776 ]

Pattern prediction and coordination geometry analysis from cadmium-binding proteins: a computational approach

R. Jesu Jaya Sudan and C. Sudandiradoss

Synopsis: Short-length motifs that were identified from partially conserved cadmium-binding sequences resemble the structural patterns identified from cadmium architecture and are postulated to have a higher probability of coordinating to cadmium.

Online 18 September 2012


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Acta Cryst. (2012). D68, 1359-1370  [ doi:10.1107/S0907444912029101 ]

Structural characterization and comparison of three acyl-carrier-protein synthases from pathogenic bacteria

A. S. Halavaty, Y. Kim, G. Minasov, L. Shuvalova, I. Dubrovska, J. Winsor, M. Zhou, O. Onopriyenko, T. Skarina, L. Papazisi, K. Kwon, S. N. Peterson, A. Joachimiak, A. Savchenko and W. F. Anderson

Synopsis: The structural characterization of acyl-carrier-protein synthase (AcpS) from three different pathogenic microorganisms is reported. One interesting finding of the present work is a crystal artifact related to the activity of the enzyme, which fortuitously represents an opportunity for a strategy to design a potential inhibitor of a pathogenic AcpS.

PDB references: 3f09, 3hyk and 3qmn

Online 13 September 2012


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Acta Cryst. (2012). D68, 1371-1379  [ doi:10.1107/S0907444912029599 ]

Crystallization, dehydration and experimental phasing of WbdD, a bifunctional kinase and methyltransferase from Escherichia coli O9a

G. Hagelueken, H. Huang, K. Harlos, B. Clarke, C. Whitfield and J. H. Naismith

Synopsis: The optimization of WbdD crystals using a novel dehydration protocol and experimental phasing at 3.5 Å resolution by cross-crystal averaging followed by molecular replacement of electron density into a non-isomorphous 3.0 Å resolution native data set are reported.

Online 18 September 2012


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Acta Cryst. (2012). D68, 1380-1392  [ doi:10.1107/S0907444912030594 ]

Structural polymorphism of c-di-GMP bound to an EAL domain and in complex with a type II PilZ-domain protein

K.-H. Chin, W.-T. Kuo, Y.-J. Yu, Y.-T. Liao, M.-T. Yang and S.-H. Chou

Synopsis: The crystal structures of XccFimXEAL-c-di-GMP and XccFimXEAL-c-di-GMP-XccPilZ complexes have been determined to a resolution of 2.50 and 2.70 Å, respectively. The two c-d-GMP in the two complexes are found to adopt a novel conformation.

PDB references: 4f3h and 4f48

Online 18 September 2012


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Acta Cryst. (2012). D68, 1393-1399  [ doi:10.1107/S0907444912031459 ]

CrystalDirect: a new method for automated crystal harvesting based on laser-induced photoablation of thin films

F. Cipriani, M. Röwer, C. Landret, U. Zander, F. Felisaz and J. A. Márquez

Synopsis: A new crystallization support and associated method designed to fully automate the process of crystal harvesting is presented. In this system, crystals are grown on an ultrathin film that can be excised by laser photoablation and directly attached to a pin for X-ray diffraction experiments.

Online 18 September 2012


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Acta Cryst. (2012). D68, 1400-1408  [ doi:10.1107/S0907444912034129 ]

Structure of a thermophilic cyanobacterial b6f-type Rieske protein

S. Veit, K. Takeda, Y. Tsunoyama, D. Rexroth, M. Rögner and K. Miki

Synopsis: The crystal structure of the extrinsic soluble domain of PetC, the Rieske subunit of the cytochrome b6f complex, from the thermophilic cyanobacterium T. elongatus has been determined at 2.0 Å resolution. Its surface revealed a deep pocket possibly oriented towards the membrane surface within the full complex, with properties suggesting a binding site for a hydrophobic compound.

PDB reference: 3azc

Online 18 September 2012


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Acta Cryst. (2012). D68, 1409-1417  [ doi:10.1107/S0907444912034166 ]

Structure of the autophagic E2 enzyme Atg10

S. B. Hong, B.-W. Kim, J. H. Kim and H. K. Song

Synopsis: The structure of the autophagic E2 conjugating enzyme Atg10 has been determined at 2.7 Å resolution. Unique features of Atg10 compared with other E2 enzymes, including Atg3, another autophagic E2 enzyme, are described.

PDB reference: 4ebr

Online 18 September 2012


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Acta Cryst. (2012). D68, 1418-1429  [ doi:10.1107/S0907444912034464 ]

Structure of the CFA/III major pilin subunit CofA from human enterotoxigenic Escherichia coli determined at 0.90 Å resolution by sulfur-SAD phasing

S. Fukakusa, K. Kawahara, S. Nakamura, T. Iwashita, S. Baba, M. Nishimura, Y. Kobayashi, T. Honda, T. Iida, T. Taniguchi and T. Ohkubo

Synopsis: The structure of CofA, a major pilin subunit of colonization factor antigen III, is reported.

PDB reference: 3vor

Online 13 September 2012


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Acta Cryst. (2012). D68, 1430-1436  [ doi:10.1107/S0907444912034658 ]

How good can our beamlines be?

D. Liebschner, M. Dauter, G. Rosenbaum and Z. Dauter

Synopsis: A repetitive measurement of the same diffraction image allows to judge the performance of a data collection facility.

Online 18 September 2012


addenda and errata


 

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Acta Cryst. (2012). D68, 1437  [ doi:10.1107/S0907444912037869 ]

Structure of Escherichia coli BamB and its interaction with POTRA domains of BamA. Addendum

C. Dong, X. Yang, H.-F. Hou, Y.-Q. Shen and Y.-H. Dong

Synopsis: An addendum to the article by Dong et al. [(2012), Acta Cryst. D68, 1134-1139].

Online 18 September 2012


 

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Acta Cryst. (2012). D68, 1438  [ doi:10.1107/S090744491203898X ]

Structural and functional studies of ReP1-NCXSQ, a protein regulating the squid nerve Na+/Ca2+. Erratum

A. Cousido-Siah, D. Ayoub, G. Berberián, M. Bollo, A. Van Dorsselaer, F. Debaene, R. DiPolo, T. Petrova, C. Schulze-Briese, V. Olieric, A. Esteves, A. Mitschler, S. Sanglier-Cianférani, L. Beaugé and A. Podjarny

Synopsis: An erratum to the article by Cousido-Siah et al. [(2012), Acta Cryst. D68, 1098-1107].

Online 18 September 2012


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