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Volume 68(Pt 4);  2012 April 1

Editorial

Manfred S. Weiss, Howard Einspahr, Ted Baker, Zbigniew Dauter

Editorial.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 365. Published online 2012 March 31. doi: 10.1107/S1744309112011852
PMCID:
PMC3325799

Scientific Comment

Bernhard Rupp

The structure factors deposited with PDB entry 3k78 show properties inconsistent with experimentally observed diffraction data, and without uncertainty represent calculated structure factors. The refinement of the 3k78 model against these structure factors leads to an isomorphous structure different from the deposited model with an implausibly small R value (0.019).

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 366–376. Published online 2012 March 31. doi: 10.1107/S1744309112008421
PMCID:
PMC3325800
Nadja Zaborsky, Marietta Brunner, Michael Wallner, Martin Himly, Tanja Karl, Robert Schwarzenbacher, Fatima Ferreira, Gernot Achatz

A response to the article by Rupp (2012), Acta Cryst. F68, 366–376.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 377. Published online 2012 March 31. doi: 10.1107/S1744309112008433
PMCID:
PMC3325801

Structural Communications

Irina E. Gulerez, Guennadi Kozlov, Angelika Rosenauer, Kalle Gehring

The structure of the third catalytic domain of the human protein disulfide isomerase ERp46 has been determined to 2.0 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 378–381. Published online 2012 March 27. doi: 10.1107/S1744309112005866
PMCID:
PMC3325802
D. C. Bensen, S. Rodriguez, J. Nix, M. L. Cunningham, L. W. Tari

The crystal structure of MurA from the marine Gram-negative bacterium Vibrio fischeri in complex with UNAG and the drug fosfomycin has been solved to a resolution of 1.93 Å.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 382–385. Published online 2012 March 27. doi: 10.1107/S1744309112006720
PMCID:
PMC3325803
Dongqing Pan, Yoshiyuki Matsuura

The crystal structures of the C-terminal domain of S. cerevisiae Avo1 and of its human orthologue Sin1 have been determined. The structures show that the C-termini of the two proteins have the PH-domain fold with a putative binding site for phosphoinositides.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 386–392. Published online 2012 March 27. doi: 10.1107/S1744309112007178
PMCID:
PMC3325804
Pradeep Kumar Mandal, Sarkarai Venkadesh, Namasivayam Gautham

The crystal structure of the tetradecanucleotide sequence d(CCCCGGTACCGGGG)2 as an A-DNA duplex and its interaction with a manganese ion are described.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 393–399. Published online 2012 March 27. doi: 10.1107/S174430911200869X
PMCID:
PMC3325805
Krithika Sundaram, Satoshi Endo, Toshiyuki Matsunaga, Nobutada Tanaka, Akira Hara, Ossama El-Kabbani

The 1.87 Å resolution crystal structure of the His269Arg mutant of rat aldose reductase-like protein (AKR1B14) complexed with NADPH is described.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 400–403. Published online 2012 March 27. doi: 10.1107/S1744309112008810
PMCID:
PMC3325806
Xavier Fradera, Bert Kazemier, Emma Carswell, Andrew Cooke, Arthur Oubrie, William Hamilton, Maureen Dempster, Stephan Krapp, Susanna Nagel, Anja Jestel

Two structures of factor XIa in complex with small synthetic inhibitors are reported. These are the first structures of factor XIa complexed to small non-basic inhibitors.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 404–408. Published online 2012 March 27. doi: 10.1107/S1744309112009037
PMCID:
PMC3325807
Victoria J. Jackson, Yuliana Yosaatmadja, Jack U. Flanagan, Christopher J. Squire

The structure of the nonsteroidal anti-inflammatory drug analogue 3-phenoxybenzoic acid bound to aldo–keto reductase 1C3 (AKR1C3) is presented as a lead for the discovery and development of novel agents for inhibiting AKR1C3, an anticancer target.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 409–413. Published online 2012 March 27. doi: 10.1107/S1744309112009049
PMCID:
PMC3325808
Michael E. Webb, Carina M. C. Lobley, Fatima Soliman, Mairi L. Kilkenny, Alison G. Smith, Tom L. Blundell, Chris Abell

The crystal structure of E. coli aspartate α-decarboxylase Asn72Ala reveals the structure of the previously unresolved C-terminus.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 414–417. Published online 2012 March 28. doi: 10.1107/S1744309112009487
PMCID:
PMC3325809
Vivian Cody, Jim Pace, Elizabeth Stewart

Structural data for the ternary complex of P. carinii DHFR with NADPH and the potent inhibitor PY1014 reveal conformational changes that help to explain the weaker potency and selectivity of the pyrido[2,3-d]pyrimidine scaffold compared with the homologous pyrimidine series of antifolates.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 418–423. Published online 2012 March 28. doi: 10.1107/S1744309112008688
PMCID:
PMC3325810

Crystallization Communications

Kim Langmach Hein, Poul Nissen, Jens Preben Morth

A PacL homologue from L. monocytogenes has been purified and crystallized. The crystals diffracted to 3.2 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 424–427. Published online 2012 March 27. doi: 10.1107/S1744309112004046
PMCID:
PMC3325811
J. A. Gavira, J. Lacal, J. L. Ramos, J. M. García-Ruiz, T. Krell, E. Pineda-Molina

The crystallization of the ligand-binding domain of the methyl-accepting chemotaxis protein chemoreceptor McpS (McpS-LBD) is reported.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 428–431. Published online 2012 March 27. doi: 10.1107/S1744309112004940
PMCID:
PMC3325812
Takumi Shirouzono, Mami Chirifu, Chiharu Nakamura, Yuriko Yamagata, Shinji Ikemizu

Interleukin-23 (IL-23), a member of the IL-12 family, is a heterodimeric cytokine composed of p19 and p40 subunits. Human p19 and p40 subunits were cloned and coexpressed in N-acetylglucosaminyltransferase I-negative 293S cells. The glycosylated human IL-23 was purified and crystallized by the hanging-drop vapour-diffusion method.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 432–435. Published online 2012 March 27. doi: 10.1107/S1744309112005295
PMCID:
PMC3325813
Tatiana B. Cereija, Ana C. Figueiredo, Daniele de Sanctis, Aparecida S. Tanaka, Pedro José Barbosa Pereira

The N-terminal Kunitz domain of boophilin, a specific thrombin inhibitor, was crystallized. The orthorhombic crystals had an unusually low solvent content and diffracted to beyond 0.87 Å resolution at a synchrotron source.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 436–439. Published online 2012 March 27. doi: 10.1107/S1744309112005532
PMCID:
PMC3325814
Ji Young Yoon, Chan Ryang Park, Hyung Ho Lee, Se Won Suh

Pyridoxal biosynthesis lyase PdxS from P. horikoshii has been overexpressed and crystallized. X-ray diffraction data have been collected to 2.61 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 440–442. Published online 2012 March 27. doi: 10.1107/S1744309112005829
PMCID:
PMC3325815
Yu Liang, Siew Hua Choo, Michael Rossbach, Nithya Baburajendran, Paaventhan Palasingam, Prasanna R Kolatkar

Crystals of the SCAN domain of Zfp206 are tetragonal, belonging to space group I422 with unit-cell parameters a = 67.57, c = 87.54 Å and one molecule in the asymmetric unit, and diffract to 1.85 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 443–447. Published online 2012 March 27. doi: 10.1107/S1744309112006070
PMCID:
PMC3325816
Chin-Feng Liu, Chao-Hung Kao, Yen-Chao Su, Yeh Chen

The wild type BFPvv has been crystallized for the first time in order to obtain its tertiary structure and to further understand how chromophore formation occurs via a different oxygen-independent mechanism.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 448–450. Published online 2012 March 27. doi: 10.1107/S1744309112006355
PMCID:
PMC3325817
Andrzej Łyskowski, Kerstin Steiner, Ivan Hajnal, Georg Steinkellner, Helmut Schwab, Karl Gruber

Recombinant AciX9_0562 from Acidobacterium sp. MP5ACTX9 containing sequence motifs characteristic of the RmlC-type cupins superfamily and containing Pfam motif PF07883 has been successfully cloned, expressed and purified, and crystallized in a number of conditions from the Morpheus protein crystallization screen.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 451–454. Published online 2012 March 28. doi: 10.1107/S1744309112006550
PMCID:
PMC3325818
Karin E. van Straaten, Francoise H. Routier, David A. R. Sanders

UDP-galactopyranose mutase from A. fumigatus was crystallized and structure solution is in progress.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 455–459. Published online 2012 March 28. doi: 10.1107/S1744309112006914
PMCID:
PMC3325819
Shuangshuang Lu, Shugang Yao, Rong Chen, Nianzhi Zhang, Jianmin Chen, Feng Gao, Chun Xia

A crystal of nurse shark β2-microglobulin diffracted to 2.3 Å resolution and belonged to space group P3221, with unit-cell parameters a = b = 88.230, c = 67.146 Å and two molecules per asymmetric unit. The Matthews coefficient V M was calculated to be about 3.28 Å3 Da−1, corresponding to 62.5% solvent content.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 460–463. Published online 2012 March 28. doi: 10.1107/S1744309112006811
PMCID:
PMC3325820
Marcelo Augusto dos Reis, Antonio Marcos Saraiva, Marcelo Leite dos Santos, Anete Pereira de Souza, Ricardo Aparicio

The crystallization and preliminary analysis of two crystal forms of survival protein E from X. fastidiosa are reported.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 464–467. Published online 2012 March 28. doi: 10.1107/S1744309112007129
PMCID:
PMC3325821
David B. Ascher, Galina Polekhina, Michael W. Parker

The luminal domain of human endoplasmic reticulum aminopeptidase 2 has been expressed, purified and crystallized. The crystals belonged to the orthorhombic space group P21212 and diffracted anisotropically to 3.3 Å resolution in the best direction on an in-house source.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 468–471. Published online 2012 March 28. doi: 10.1107/S1744309112006963
PMCID:
PMC3325822
Marta Toth, Sergei B. Vakulenko, Clyde A. Smith

AAC(6′)-Im is an N-acetyltransferase enzyme responsible for aminoglycoside resistance in E. faecium and E. coli isolates. Crystals of the kanamycin complex of this enzyme have been prepared and preliminary X-ray diffraction experiments have been undertaken.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 472–475. Published online 2012 March 28. doi: 10.1107/S1744309112007117
PMCID:
PMC3325823
Shoko Hashimoto, Len Ito, Masaki Okumura, Tomohisa Shibano, Marina Nawata, Takashi Kumasaka, Hiroshi Yamaguchi, Susumu Imaoka

Protein disulfide isomerase (PDI) is known to bind to the thyroid hormone triiodothyronine (T3). Here, the expression, crystallization and preliminary X-ray studies of the b and b′ domains of rat PDI in ligand-free and T3-complexed states are reported.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 476–478. Published online 2012 March 28. doi: 10.1107/S1744309112007439
PMCID:
PMC3325824
Xingliang Zhang, Wei Wu, Zhongzhou Chen

Crystals of the abscisic acid receptor PYL3 and of the PYL3–pyrabactin complex were obtained and optimized in order to obtain high-quality diffraction data. Diffraction data sets were collected and processed to 2.5 and 1.83 Å resolution, respectively.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 479–482. Published online 2012 March 28. doi: 10.1107/S1744309112007506
PMCID:
PMC3325825
Huizheng Wang, Jie Zhu, Weiwei Song, Xiuguo Zhang

An inactive MaoC-like hydratase mutant from P. capsici was obtained and purified, and the purified mutant was cocrystallized in the presence of the substrate crotonyl-CoA.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 483–485. Published online 2012 March 28. doi: 10.1107/S1744309112007671
PMCID:
PMC3325826
Charlotte Robin, Lionel Beaurepaire, Mélanie Chenon, Isabelle Jupin, Stéphane Bressanelli

Diffraction-quality crystals of the turnip yellow mosaic virus proteinase/ubiquitin hydrolase could only be obtained from a protein preparation that was heavily contaminated with E. coli 30S ribosomal S15 protein. Crystal packing reveals the basis of this observation.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 486–490. Published online 2012 March 28. doi: 10.1107/S1744309112008445
PMCID:
PMC3325827
Ken-ichi Miyazono, Tsubasa Koura, Keiko Kubota, Takuya Yoshida, Yasunari Fujita, Kazuko Yamaguchi-Shinozaki, Masaru Tanokura

OsAREB8 from rice (O. sativa), a member of the AREB/ABF family of bZIP transcription factors, was expressed, purified and crystallized using the sitting-drop vapour-diffusion method. A crystal of OsAREB8 in complex with its cognate DNA diffracted X-rays to 3.65 Å resolution.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 491–494. Published online 2012 March 28. doi: 10.1107/S1744309112009384
PMCID:
PMC3325828

Laboratory Communications

Anja Burkhardt, Martin Warmer, Saravanan Panneerselvam, Armin Wagner, Athina Zouni, Carina Glöckner, Rudolph Reimer, Heinrich Hohenberg, Alke Meents

Protein crystals were vitrified using high-pressure freezing in their mother liquor at 210 MPa and 77 K without cryoprotectants or oil coating. The method was successfully applied to photosystem II, which is representative of a membrane protein with a large unit cell and weak crystal contacts.

Acta Crystallogr Sect F Struct Biol Cryst Commun. 2012 April 1; 68(Pt 4): 495–500. Published online 2012 March 31. doi: 10.1107/S1744309112009670
PMCID:
PMC3325829

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