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Volume 68(Pt 9);  2012 September 1

Structural Communications

Joel D. A. Tyndall, Hongqi Lue, Malcolm T. Rutledge, Jurgen Bernhagen, Mark B. Hampton, Sigurd M. Wilbanks

Macrophage migration inhibitory factor undergoes a localized conformational shift in response to covalent modification by phenethyl isothiocyanate, a natural compound with anti-inflammatory and anticancer properties. The inhibitor sits within a deep hydrophobic pocket and defines a potential target for the development of improved inhibitors.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 999–1002. Published online 2012 August 29. doi: 10.1107/S1744309112030552
PMCID:
PMC3433185
Haruhiko Sakuraba, Tomoyuki Kawai, Kazunari Yoneda, Toshihisa Ohshima

The crystal structure of an extremely thermostable UDP-glucose dehydrogenase from a hyperthermophile was determined.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1003–1007. Published online 2012 August 29. doi: 10.1107/S1744309112030667
PMCID:
PMC3433186
Marie Sofie Møller, Maher Abou Hachem, Birte Svensson, Anette Henriksen

The structure of barley limit dextrinase including all flexible loops has been traced at 1.9 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1008–1012. Published online 2012 August 29. doi: 10.1107/S1744309112031004
PMCID:
PMC3433187
Jochen Kuper, Kang Lan Tee, Matthias Wilmanns, Danilo Roccatano, Ulrich Schwaneberg, Tuck Seng Wong

Active-site Phe87 of cytochrome P450 BM3 protects the haem from DMSO molecule, thereby conferring higher organic co-solvent tolerance.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1013–1017. Published online 2012 August 29. doi: 10.1107/S1744309112031570
PMCID:
PMC3433188
I. G. Shabalin, P. J. Porebski, D. R. Cooper, M. Grabowski, O. Onopriyenko, S. Grimshaw, A. Savchenko, M. Chruszcz, W. Minor

The crystal structure of C. jejuni anabolic ornithine transcarbamoylase has been determined at a resolution of 2.7 Å in an unliganded state.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1018–1024. Published online 2012 August 29. doi: 10.1107/S1744309112031259
PMCID:
PMC3433189
Antonella Fioravanti, Bernard Clantin, Frédérique Dewitte, Zoé Lens, Alexis Verger, Emanuele G. Biondi, Vincent Villeret

The cell-cycle regulator ChpT of C. crescentus is a dimeric histidine phosphotransferase that resembles the typical structure of histidine kinases.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1025–1029. Published online 2012 August 29. doi: 10.1107/S1744309112033064
PMCID:
PMC3433190

Crystallization Communications

Kate Cameron, Victor D. Alves, Pedro Bule, Luís M. A Ferreira, Carlos M. G. A. Fontes, Shabir Najmudin

A complex of a mutated ScaB dockerin with the third ScaC cohesin from A. cellulolyticus has been crystallized and data were collected from two different crystal forms to 1.5 and 6.0 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1030–1033. Published online 2012 August 30. doi: 10.1107/S1744309112031922
PMCID:
PMC3433191
Ningna Xu, Shen Yu, Sébastien Moniot, Michael Weyand, Wulf Blankenfeldt

The ligand-binding domain of the transcription factor PqsR from P. aeruginosa has been crystallized and initial phases have been obtained using SAD data from seleno-l-methionine-labelled crystals.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1034–1039. Published online 2012 August 30. doi: 10.1107/S1744309112032538
PMCID:
PMC3433192
Sarah C. Atkinson, Con Dogovski, Renwick C. J. Dobson, Matthew A. Perugini

Dihydrodipicolinate synthase from the plant pathogen A. tumefaciens has been cloned, expressed, purified and crystallized in its unliganded form, in the presence of its substrate pyruvate and in the presence of pyruvate and the allosteric inhibitor lysine. Diffraction data for the crystals were collected to a maximum resolution of 1.40 Å.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1040–1047. Published online 2012 August 30. doi: 10.1107/S1744309112033052
PMCID:
PMC3433193
Pasqual Liauw, Tomohiro Mashiba, Marta Kopczak, Katrin Wiegand, Norifumi Muraki, Hisako Kubota, Yusuke Kawano, Masahiko Ikeuchi, Toshiharu Hase, Matthias Rögner, Genji Kurisu

The cloning, expression and crystallization of a thermophilic ferredoxin–NAD(P)+ reductase were successfully carried out and resulting crystals were suitable for structural determination.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1048–1051. Published online 2012 August 30. doi: 10.1107/S1744309112031910
PMCID:
PMC3433194
Mônika A. Coronado, Dessislava Georgieva, Friedrich Buck, Azat H. Gabdoulkhakov, Anwar Ullah, Patrick J. Spencer, Raghuvir K. Arni, Christian Betzel

Crotamine from C. durissus terrificus was crystallized and diffraction data were collected to a resolution of 1.9 Å.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1052–1054. Published online 2012 August 30. doi: 10.1107/S1744309112032721
PMCID:
PMC3433195
Sandip Basak, Asha Manikkoth Balakrishna, Malathy Sony Subramanian Manimekalai, Gerhard Grüber

The S. cerevisiae V-ATPase subunit F (F1–94) protein and the selenomethionyl form of its I69M mutant protein were produced, purified and crystallized. X-ray diffraction data were collected to resolutions of 2.64 and 2.3 Å, respectively, and the crystals belonged to the orthorhombic space group C2221.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1055–1059. Published online 2012 August 30. doi: 10.1107/S1744309112032526
PMCID:
PMC3433196
Kaoru Suzuki, Naomi Ohbayashi, Jiandong Jiang, Xiaoxue Zhang, M. Mominul Hoque, Masaru Tsunoda, Kazutaka Murayama, Haruo Tanaka, Akio Takénaka

The mature protein of the potent anti-HIV lectin actinohivin has been crystallized with high reproducibility in a new form without packing disorder.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1060–1063. Published online 2012 August 30. doi: 10.1107/S1744309112031077
PMCID:
PMC3433197
Natalia Díaz Torres, Guillermo González, Shyamasri Biswas, Kathleen M. Scott, Robert McKenna

Single crystals of α-carbonic anhydrase from T. crunogena XCL-2 have been grown and were shown to diffract X-rays to 2.6 Å resolution. The crystals belonged to space group C2, with unit-cell parameters a = 127.1, b = 102.2, c = 105.0 Å, β = 127.3°

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1064–1066. Published online 2012 August 30. doi: 10.1107/S1744309112031053
PMCID:
PMC3433198
Hui-Min Qin, Takuya Miyakawa, Akira Nakamura, You-Lin Xue, Takashi Kawashima, Takuya Kasahara, Makoto Hibi, Jun Ogawa, Masaru Tanokura

Diffraction data were collected to a limiting resolution of 2.4 Å from a crystal of selenomethionyl-labelled SadA, an l-amino-acid dioxygenase.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1067–1069. Published online 2012 August 30. doi: 10.1107/S1744309112031508
PMCID:
PMC3433199
Seung-Joo Yeo, Jae-Hee Jeong, Sun-Nam Yu, Yeon-Gil Kim

YgjG is a putrescine:2-oxoglutarate aminotransferase that belongs to the class III aminotransferases. In this study, YgjG from E. coli was overexpressed, purified and crystallized using the hanging-drop vapour-diffusion method.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1070–1072. Published online 2012 August 30. doi: 10.1107/S1744309112030886
PMCID:
PMC3433200
Danh Phung, Magdah Ganash, Svetlana E. Sedelnikova, Toril Lindbäck, Per Einar Granum, Peter J. Artymiuk

The NheA component of the B. cereus Nhe toxin was overexpressed in E. coli, purified and crystallized. Diffraction data were collected and processed to 2.05 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1073–1076. Published online 2012 August 31. doi: 10.1107/S1744309112030813
PMCID:
PMC3433201
Young-Cheul Shin, Tae-Ho Jang, Jong Hwan Yoon, Ju-Hong Jeon, Hyun Ho Park

Rab6A′(Q72L), a constitutively active GTP-binding form of Rab6A, was purified and crystallized. The crystals were found to belong to space group P22121, with unit-cell parameters a = 36.84, b = 96.78, c = 109.99 Å. The crystals were obtained at 293 K and diffracted to a resolution of 1.9 Å.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1077–1080. Published online 2012 August 31. doi: 10.1107/S1744309112030874
PMCID:
PMC3433202
Min Woo Sung, Tylan Watts, Pingwei Li

AIM2 is an innate immune sensor of microbial double-stranded DNA. The HIN-200 domain of mouse AIM2 bound to a 15 bp and an 18 bp dsDNA were crystallized and diffract to about 4.0 Å.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1081–1084. Published online 2012 August 31. doi: 10.1107/S174430911203103X
PMCID:
PMC3433203
Ryohei Nomoto, Takeaki Tezuka, Ken-ichi Miyazono, Masaru Tanokura, Sueharu Horinouchi, Yasuo Ohnishi

A Streptomyces homologue of the mycobacterial integration host factor mIHF was heterologously produced, purified and crystallized in the presence of a 16-mer duplex DNA by the sitting-drop vapour-diffusion method. The best crystal diffracted X-rays to 2.22 Å resolution and belonged to space group C2.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1085–1088. Published online 2012 August 31. doi: 10.1107/S1744309112030631
PMCID:
PMC3433204
Linda Reinhard, Jochen Mueller-Dieckmann, Manfred S. Weiss

M. tuberculosis succinyl-diaminopimelate desuccinylase, the enzyme which catalyzes the seventh step of the lysine-biosynthesis pathway, has been cloned, expressed, purified and crystallized. Preliminary X-ray diffraction analysis indicated the presence of pseudo-merohedral twinning in space group P21, resulting in possible emulation of space group C2221.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1089–1093. Published online 2012 August 31. doi: 10.1107/S174430911203062X
PMCID:
PMC3433205
Eduard Baquero, Linda Buonocore, John K. Rose, Stéphane Bressanelli, Yves Gaudin, Aurélie A. Albertini

Chandipura virus glycoprotein ectodomain (Gth) was purified and crystallized at pH 7.5. X-ray diffraction data set was collected to a resolution of 3.1 Å.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1094–1097. Published online 2012 August 31. doi: 10.1107/S1744309112030151
PMCID:
PMC3433206
Min-Kyu Kim, Young Jun An, Chang-Sook Jeong, Sun-Shin Cha

In order to investigate its structure and function, the medium-chain dehydrogenase/reductase superfamily YncB-like protein from V. vulnificus was expressed, purified and crystallized. X-ray diffraction analyses of YncB and the YncB–NADP(H) complex are reported at resolutions of 1.85 and 1.81 Å, respectively.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1098–1101. Published online 2012 August 31. doi: 10.1107/S1744309112030527
PMCID:
PMC3433207
Akito Kawai, Shigesada Higuchi, Masaru Tsunoda, Kazuo T. Nakamura, Shuichi Miyamoto

Uracil-DNA glycosylase from S. tokodaii strain 7 was overexpressed and purified. Crystals of the apo form and of a complex with uracil were obtained.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1102–1105. Published online 2012 August 31. doi: 10.1107/S1744309112030278
PMCID:
PMC3433208
L. Pereira, I. H. Saraiva, R. Coelho, D. K. Newman, R. O. Louro, C. Frazão

Crystals of the R. ferrooxidans SW2 iron oxidoreductase FoxE were obtained and the phase problem was solved by Fe SAD at 2.44 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1106–1108. Published online 2012 August 31. doi: 10.1107/S174430911203271X
PMCID:
PMC3433209
Stephen Quirk

The Vitis vinifera dual-activity fucose and nucleotide-sugar metabolizing enzyme l-fucokinase:GDP-fucose pyrophosphorylase (FKP) has been purified to homogeneity and the 118.8 kDa monomeric protein has been crystallized by vapor diffusion in Zeppezauer tubes at 277 K.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1109–1112. Published online 2012 August 31. doi: 10.1107/S1744309112033155
PMCID:
PMC3433210
Przemyslaw Nogly, Rute Castro, Matteo de Rosa, Ana Rute Neves, Helena Santos, Margarida Archer

α-Phosphoglucomutase from L. lactis, a homologue of human phosphomannomutase 1, was produced and crystallized. X-ray diffraction data were collected to 1.5 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1113–1115. Published online 2012 August 31. doi: 10.1107/S1744309112032629
PMCID:
PMC3433211
Orly Salama-Alber, Yair Gat, Raphael Lamed, Linda J. W. Shimon, Edward A. Bayer, Felix Frolow

The cloning, expression, purification, crystallization and preliminary X-ray characterization of a trimodular type III cohesin–dockerin complex from the R. flavefaciens cellulosome system are described.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1116–1119. Published online 2012 August 31. doi: 10.1107/S1744309112033088
PMCID:
PMC3433212
Tal Keren-Kaplan, Gali Prag

A novel reconstitution system for the modification and purification of ubiquitylated proteins yielded the first diffracting crystals of a ubiquitylated substrate, namely Rpn10.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1120–1123. Published online 2012 August 31. doi: 10.1107/S1744309112034331
PMCID:
PMC3433213
Myoung-Ki Hong, Jae Jin Lee, Xing Wu, Jin-Kwang Kim, Byeong Chul Jeong, Tan-Viet Pham, Seung-Hwan Kim, Sang Hee Lee, Lin-Woo Kang

The SFC-1 gene from S. fonticola was cloned and SFC-1 was expressed, purified and crystallized. X-ray diffraction data were collected from an SFC-1 crystal to 1.6 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1124–1127. Published online 2012 August 31. doi: 10.1107/S1744309112033702
PMCID:
PMC3433214
Yuzuru Itoh, Shun-ichi Sekine, Shigeyuki Yokoyama

The bacterial selenocysteine synthase SelA from Aquifex aeolicus was crystallized and the diffraction resolution was improved by lysine-residue methylation, truncation of N-terminal region (ΔN), and Lys-to-Ala point mutations. Phases were determined by using a selenomethionine-substituted crystal of the ΔN mutant.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1128–1133. Published online 2012 August 31. doi: 10.1107/S1744309112033519
PMCID:
PMC3433215

Laboratory Communications

Magdalena N. Wojtas, Nicola G. A. Abrescia

RNA polymerase from S. shibatae in complex with DNA was crystallized using a nanoseeding method. Native RNAP crystals underwent an ad hoc procedure for DNA binding; one of these crystals diffracted to 4.3 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 September 1; 68(Pt 9): 1134–1138. Published online 2012 August 31. doi: 10.1107/S1744309112033507
PMCID:
PMC3433216

Articles from Acta Crystallographica Section F: Structural Biology and Crystallization Communications are provided here courtesy of International Union of Crystallography