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Acta Crystallographica Section F

Structural Biology and Crystallization Communications

Volume 69, Part 4 (April 2013)



[Issue Author Index][Volume Author Index]
[Cover illustration] Cover illustration: The 1.58 Å resolution structure of the DNA-binding domain of bacteriophage SF6 small terminase (Benini et al., p. 376).

structural communications


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Acta Cryst. (2013). F69, 342-345  [ doi:10.1107/S1744309113003369 ]

Structure of the hypothetical DUF1811-family protein GK0453 from Geobacillus kaustophilus HTA426

B. Padmanabhan, Y. Nakamura, S. V. Antonyuk, R. W. Strange, S. S. Hasnain, S. Yokoyama and Y. Bessho

Synopsis: The gene encoding the hypothetical DUF1811-family protein GK0453 from G. kaustophilus was cloned and expressed. The crystal structure of the protein was determined by the molecular-replacement method and was refined to 2.2 Å resolution.

PDB reference: 2yxy

Online 28 March 2013


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Acta Cryst. (2013). F69, 346-354  [ doi:10.1107/S1744309113002674 ]

Organophosphorus acid anhydrolase from Alteromonas macleodii: structural study and functional relationship to prolidases

A. Stepánková, J. Dusková, T. Skálová, J. Hasek, T. Koval', L. H. Østergaard and J. Dohnálek

Synopsis: The structural study of a bacterial anhydrolase/dipeptidase closely related to human prolidase is reported.

PDB reference: 3rva

Online 28 March 2013


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Acta Cryst. (2013). F69, 355-357  [ doi:10.1107/S1744309113004910 ]

Crystallization and X-ray structure determination of a thermoalkalophilic lipase from Geobacillus SBS-4S

M. Tayyab, N. Rashid, C. Angkawidjaja, S. Kanaya and M. Akhtar

Synopsis: Crystallization and the structure determination at 1.6 Å resolution of LIPSBS, a thermoalkalophilic lipase from Geobacillus strain SBS-4S, are described. The crystals belonged to orthorhombic space group P212121.

PDB reference: 3auk

Online 28 March 2013


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Acta Cryst. (2013). F69, 358-361  [ doi:10.1107/S1744309113005575 ]

Structure of glutaminyl cyclase from Drosophila melanogaster in space group I4

P. Kolenko, B. Koch, J.-U. Rahfeld, S. Schilling, H.-U. Demuth and M. T. Stubbs

Synopsis: The structure of ligand-free glutaminyl cyclase from D. melanogaster has been determined in a novel crystal form belonging to space group I4.

PDB reference: 4fwu

Online 28 March 2013


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Acta Cryst. (2013). F69, 362-368  [ doi:10.1107/S1744309113004417 ]

Structure of Neisseria meningitidis lipoprotein GNA1162

X. Cai, J. Lu, Z. Wu, C. Yang, H. Xu, Z. Lin and Y. Shen

Synopsis: The crystal structure of GNA1162 from N. meningitidis has been determined at 1.89 Å resolution and its structural analysis provides important information on its function.

PDB reference: 4hrv

Online 28 March 2013


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Acta Cryst. (2013). F69, 369-375  [ doi:10.1107/S1744309113004211 ]

Investigating the active centre of the Scytalidium thermophilum catalase

Y. Yuzugullu, C. H. Trinh, L. Fairhurst, Z. B. Ogel, M. J. McPherson and A. R. Pearson

Synopsis: S. thermophilum produces a haem-containing catalase with phenol oxidase activity which is involved in H2O2 degradation and the oxidation of some diphenolic compounds in the absence of H2O2. The dimensions or volume of the main channel are critical in determining the rate of both movement of H2O2 into the active site and dioxygen binding, as has previously been proposed for other monofunctional catalases.

PDB references: 4b31, 4b40, 4b2y and 4b5k

Online 28 March 2013


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Acta Cryst. (2013). F69, 376-381  [ doi:10.1107/S1744309113004399 ]

The 1.58 Å resolution structure of the DNA-binding domain of bacteriophage SF6 small terminase provides new hints on DNA binding

S. Benini, M. Chechik, M. Ortiz Lombardía, S. Polier, A. Leech, M. B. Shevtsov and J. C. Alonso

Synopsis: The crystal structure of the bacteriophage SF6 small terminase DNA-binding domain has been solved at 1.58 Å resolution. A model for the interaction of G1P with the DNA is proposed.

PDB reference: 2cmp

Online 28 March 2013


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Acta Cryst. (2013). F69, 382-386  [ doi:10.1107/S1744309113005678 ]

Structure of a filament of stacked octamers of human DMC1 recombinase

L. Du and Y. Luo

Synopsis: Octameric rings of DMC1 stacked into filaments in the crystal. Similar DMC1-DNA filaments have been observed previously using electron microscopy.

PDB reference: 4hyy

Online 28 March 2013


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Acta Cryst. (2013). F69, 387-392  [ doi:10.1107/S1744309113004971 ]

Structure of PCNA from Drosophila melanogaster

K. Wang, Z. Shi, M. Zhang and D. Cheng

Synopsis: Proliferating cell nuclear antigen (PCNA) plays essential roles in DNA replication, DNA repair, cell-cycle regulation and chromatin metabolism. The PCNA from Drosophila melanogaster (DmPCNA) has been purified and crystallized.

PDB reference: 4hk1

Online 28 March 2013


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Acta Cryst. (2013). F69, 393-398  [ doi:10.1107/S1744309113005708 ]

Deer mouse hemoglobin exhibits a lowered oxygen affinity owing to mobility of the E helix

N. Inoguchi, J. R. Oshlo, C. Natarajan, R. E. Weber, A. Fago, J. F. Storz and H. Moriyama

Synopsis: The deer mouse, Peromyscus maniculatus, exhibits altitude-associated variation in hemoglobin oxygen affinity. To examine the structural basis of this functional variation, the structure of the hemoglobin has been solved.

PDB reference: 4h2l

Online 28 March 2013


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Acta Cryst. (2013). F69, 399-404  [ doi:10.1107/S1744309113005939 ]

Structure of an atypical FeoB G-domain reveals a putative domain-swapped dimer

C. N. Deshpande, A. P. McGrath, J. Font, A. P. Guilfoyle, M. J. Maher and M. Jormakka

Synopsis: FeoB is a transmembrane protein involved in ferrous iron uptake in prokaryotic organisms. Here, the structure of the cytoplasmic domain of FeoB from Gallionella capsiferriformans is reported.

PDB references: 3w5i and 3w5j

Online 29 March 2013


crystallization communications


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Acta Cryst. (2013). F69, 405-407  [ doi:10.1107/S1744309113003783 ]

Overexpression, crystallization and preliminary X-ray crystallographic analysis of hypothetical protein SAV0479 from Staphylococcus aureus Mu50

C. Pathak, S.-B. Jang, H. Im, H.-J. Yoon and B.-J. Lee

Synopsis: SAV0479 protein from methicillin- and vancomycin-resistant S. aureus Mu50 was overexpressed and preliminary crystallographic analysis was performed. Diffraction data were collected to a resolution of 2.8 Å. Two Hiramatsu et al. (1997) references, Hiramatsu, Aritaka et al. and Hiramatsu, Hanaki et al. Please indicate in text which is meant

Online 28 March 2013


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Acta Cryst. (2013). F69, 408-411  [ doi:10.1107/S1744309113003989 ]

Cloning, expression, purification, crystallization and preliminary X-ray diffraction analysis of the mitochondrial tryparedoxin peroxidase from Leishmania braziliensis

M. A. B. de Morais, T. A. C. B. de Souza and M. T. Murakami

Synopsis: The tryparedoxin peroxidase from L. braziliensis was crystallized and diffraction data were collected to a maximum resolution of 3.3 Å.

Online 28 March 2013


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Acta Cryst. (2013). F69, 412-415  [ doi:10.1107/S1744309113004004 ]

Crystallization and preliminary crystallographic analysis of the first condensation domain of viomycin synthetase

K. Bloudoff and T. M. Schmeing

Synopsis: The expression, purification and crystallization of the first condensation domain of viomycin synthetase are reported. An initial data set from these crystals extends to 2.9 Å resolution.

Online 28 March 2013


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Acta Cryst. (2013). F69, 416-420  [ doi:10.1107/S1744309113004065 ]

Crystallization and preliminary crystallographic study of oligomers of the haemolytic lectin CEL-III from the sea cucumber Cucumaria echinata

H. Unno, K. Hisamatsu, T. Nagao, Y. Tateya, N. Matsumoto, S. Goda and T. Hatakeyama

Synopsis: Oligomers of the haemolytic lectin CEL-III from the marine invertebrate C. echinata were crystallized and data were collected to 3.3 Å resolution using synchrotron radiation.

Online 28 March 2013


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Acta Cryst. (2013). F69, 421-424  [ doi:10.1107/S1744309113004077 ]

Purification, crystallization and preliminary crystallographic analysis of a 4-thiouridine synthetase-RNA complex

P.-T. Naumann, C. T. Lauhon and R. Ficner

Synopsis: A complex of the tRNA-modifying enzyme 4-thiouridine synthetase and RNA was crystallized.

Online 28 March 2013


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Acta Cryst. (2013). F69, 425-429  [ doi:10.1107/S1744309113005356 ]

Crystallization and preliminary X-ray diffraction analysis of a DING protein from Pseudomonas aeruginosa PA14

A. Djeghader, G. Gotthard, A. Suh, D. Gonzalez, K. Scott, M. Elias and E. Chabriere

Synopsis: A DING protein from P. aeruginosa strain PA14, named PA14DING or LapC, has been crystallized. The crystals belonged to the monoclinic space group P21 and diffracted to 1.9 Å resolution.

Online 28 March 2013


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Acta Cryst. (2013). F69, 430-434  [ doi:10.1107/S1744309113004260 ]

Crystallization and preliminary crystallographic analysis of Axe2, an acetylxylan esterase from Geobacillus stearothermophilus

S. Lansky, O. Alalouf, V. Solomon, A. Alhassid, L. Govada, N. E. Chayan, H. Belrhali, Y. Shoham and G. Shoham

Synopsis: The serine acetylxylan esterase from G. stearothermophilus (Axe2) has been crystallized in the tetragonal space group I422. Complete diffraction data sets have been measured for the selenomethionine derivative (SAD data, 1.70 Å resolution) and the wild-type enzyme (1.85 Å resolution) to be used for a full three-dimensional structural analysis of the Axe2 protein.

Online 28 March 2013


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Acta Cryst. (2013). F69, 435-437  [ doi:10.1107/S1744309113005642 ]

Crystallization and preliminary X-ray crystallographic studies of the CARD domain of human CARMA1

J. H. Park and H. H. Park

Synopsis: The CARD domain of human CARMA1 was crystallized. The crystals belonged to space group P212121, with unit-cell parameters a = 45.73, b = 53.37, c = 91.89 Å. The crystals were obtained at 293 K and diffracted to a resolution of 3.2 Å.

Online 28 March 2013


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Acta Cryst. (2013). F69, 438-440  [ doi:10.1107/S174430911300554X ]

Crystallization and preliminary X-ray diffraction analysis of the secreted protein Athe_0614 from Caldicellulosiruptor bescii

H. Yokoyama, T. Yamashita, N. Horikoshi, H. Kurumizaka and W. Kagawa

Synopsis: The Athe_0614 protein secreted by the anaerobic, extremely thermophilic and cellulolytic bacterium C. bescii was crystallized. A diffraction data set was collected to 2.7 Å resolution.

Online 28 March 2013


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Acta Cryst. (2013). F69, 441-444  [ doi:10.1107/S1744309113005745 ]

Cloning, expression, purification, crystallization and preliminary crystallographic analysis of the N-terminal domain of serine glutamate repeat A (SgrA) protein from Enterococcus faecium

R. Nagarajan, A. P. A. Hendrickx and K. Ponnuraj

Synopsis: The putative ligand-binding region of serine glutamate repeat A (SgrA) protein from E. faecium was overexpressed, purified and crystallized, and its preliminary X-ray diffraction analysis is reported at 3.3 Å resolution.

Online 28 March 2013


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Acta Cryst. (2013). F69, 445-448  [ doi:10.1107/S1744309113006210 ]

Sample preparation, crystallization and structure solution of HisC from Mycobacterium tuberculosis

N. Nasir, R. Vyas and B. K. Biswal

Synopsis: HisC from M. tuberculosis was overexpressed in M. smegmatis, purified and crystallized, and its structure was solved.

Online 28 March 2013


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Acta Cryst. (2013). F69, 449-452  [ doi:10.1107/S1744309113006088 ]

Preliminary crystallographic analysis of the kinase domain of SAD-1, a protein essential for presynaptic differentiation in Caenorhabditis elegans

X. Yan and Y. Shen

Synopsis: The kinase domain of SAD-1 from C. elegans has been overexpressed in Escherichia coli BL21 (DE3) cells and purified to homogeneity using nickel-nitrilotriacetic acid metal-affinity, ion-exchange and gel-filtration chromatography. Diffraction-quality crystals were grown using the sitting-drop vapour-diffusion technique.

Online 28 March 2013


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Acta Cryst. (2013). F69, 453-455  [ doi:10.1107/S1744309113006246 ]

Purification, crystallization and preliminary X-ray analysis of TP0435 (Tp17) from the syphilis spirochete Treponema pallidum

C. A. Brautigam, R. K. Deka and M. V. Norgard

Synopsis: The soluble portion of TP0435, a putative periplasmic lipoprotein from the syphilis spirochete T. pallidum, has been purified and crystallized in a rhombohedral space group. A complete native data set has been collected to 2.4 Å resolution.

Online 28 March 2013


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Acta Cryst. (2013). F69, 456-459  [ doi:10.1107/S1744309113006143 ]

Expression, purification, crystallization and preliminary X-ray analysis of tannase from Lactobacillus plantarum

M. Wu, X. Peng, H. Wen, Q. Wang, Q. Chen, W. J. McKinstry and B. Ren

Synopsis: A recombinant form of tannase from L. plantarum was purified and crystallized. A native data set has been collected to 1.65 Å resolution.

Online 28 March 2013


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Acta Cryst. (2013). F69, 460-462  [ doi:10.1107/S1744309113006490 ]

Purification, crystallization and preliminary X-ray diffraction analysis of the effector protein MoHrip1 from Magnaporthe oryzae

C. Zhang, X. Liu, D. Qiu and H. Zeng

Synopsis: The expression, purification, crystallization and data collection and processing of the effector protein MoHrip1 from M. oryzae are reported.

Online 28 March 2013


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Acta Cryst. (2013). F69, 463-467  [ doi:10.1107/S1744309113007094 ]

Purification, crystallization and preliminary X-ray diffraction analysis of effector protein MoHrip2 from Magnaporthe oryzae

M. Liu, X. Liu, H. Zeng and D. Qiu

Synopsis: A novel effector protein was recombinantly expressed, purified and crystallized. The structure was solved using the selenium SAD method.

Online 29 March 2013


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Acta Cryst. (2013). F69, 468-471  [ doi:10.1107/S1744309113007082 ]

Crystallization and preliminary X-ray crystallographic studies of the coiled-coil domain of PIST

Y.-C. Shin, E. K. Seo, J.-H. Jeon and H. H. Park

Synopsis: The coiled-coil domain of human PIST was crystallized at 293 K and diffracted to a resolution of 4.0 Å. The crystals were found to belong to space group P6222 or P6422, with unit-cell parameters a = b = 85.19, c = 240.09 Å, [gamma] = 120.00°.

Online 29 March 2013


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