Call for a crystallization ontology

Editorial.

On the need for an international effort to capture, share and use crystallization screening data

Development of an ontology for the description of crystallization experiments and results is proposed.

Structure of a bacterial cytoplasmic cyclophilin A in complex with a tetrapeptide

The crystal structure of the cytoplasmic cyclophilin A (CyPA) from the bacterium Azotobacter vinelandii complexed with a synthetic tetrapeptide has been determined by molecular replacement at 2 Å resolution.

Structural analysis of 3-iso­propylmalate de­hydrogenase from the obligate piezophile Shewanella benthica DB21MT-2 and the nonpiezophile Shewanella oneidensis MR-1

Structures of IPMDH from the obligate piezophile S. benthica DB21MT-2 (SbIPMDH) and the nonpiezophile S. oneidensis MR-1 (SoIPMDH) were determined at atmospheric pressure. Comparison of the structures revealed that SbIPMDH is in a more open conformation and has a larger internal cavity volume than SoIPMDH.

Structure of recombinant human carboxylesterase 1 isolated from whole cabbage looper larvae

Large quantities of recombinant human carboxylesterase 1 have been produced in an economical whole insect larvae system. The crystal structure of this enzyme is essentially identical to that produced by cell culture techniques.

Crystallization and X-ray structure analysis of a thermostable penicillin G acylase from Alcaligenes faecalis

A thermostable penicillin G acylase from A. faecalis has been crystallized in two space groups: C222₁ and P4₁2₁2. X-ray diffraction data were collected to 3.3 and 3.5 Å resolution, respectively.

Purification, crystallization and preliminary X-ray analysis of PPD6, a PsbP-domain protein from Arabidopsis thaliana

The PsbP-domain-containing protein PPD6 from A. thaliana was expressed, purified and crystallized.

Crystallization and preliminary X-ray crystallographic analysis of a blue-light-absorbing proteorhodopsin

A purified blue-light-absorbing proteorhodopsin D97N mutant protein (BPR_D97N) has been crystallized using the vapour-diffusion method.

Expression, purification, crystallization and preliminary crystallographic analysis of PilA from the nontypeable Haemophilus influenzae type IV pilus

In order to characterize the type IV pili of nontypeable Haemophilus influenzae, an attempt to solve the atomic structure of the major pilin subunit PilA was initiated. A 1.73 Å resolution X-ray diffraction data set was collected from native N-terminally truncated PilA (ΔN-PilA).

Crystallization and preliminary X-ray crystallographic studies of succinic semi­aldehyde de­hydrogenase from Streptococcus pyogenes

Succinic semialdehyde dehydrogenase (SSADH) from S. pyogenes was purified and crystallized. Crystals of native and NAD⁺-complexed SSADH diffracted to resolutions of 1.6 and 1.7 Å, respectively.

Purification, crystallization and preliminary X-ray diffraction analysis of enoyl-acyl carrier protein reductase (FabK) from Streptococcus mutans strain UA159

Enoyl-acyl carrier protein reductase (FabK) from S. mutans strain UA159 was cloned, overexpressed, purified and crystallized. X-ray diffraction data were collected to a resolution of 2.40 Å.

Purification, crystallization and preliminary X-ray crystallographic analysis of mammalian translation elongation factor eEF1A2

Translation elongation factor eEF1A2 was purified to homogeneity from rabbit muscles. Obtained crystals of eEF1A2 diffracted to 2.5 Å resolution and belonged to space group P6₁22 or P6₃22.

Crystallization and preliminary X-ray crystallographic studies of casein kinase I-like protein from rice

Casein kinase I-like protein from rice was crystallized. The crystals were found to belong to the monoclinic space group C2, with unit-cell parameters a = 108.83, b = 69.60, c = 55.85 Å, β = 109.47°. The crystals were obtained at 293 K and diffracted to a resolution of 2.0 Å.

Crystallization and preliminary X-ray diffraction characterization of the XccFimX^EAL–c-di-GMP and XccFimX^EAL–c-di-GMP–XccPilZ complexes from Xanthomonas campestris

Crystals of the XccFimX^EAL–c-di-GMP and SeMet-XccFimX^EAL–c-di-GMP–XccPilZ complexes from X. campestris diffracted to resolutions of 2.5 and 2.7 Å, respectively.

Crystallization and preliminary X-ray diffraction analysis of endoglucanase III from Trichoderma harzianum

T. harzianum endoglucanase III was expressed in P. pastoris, purified and crystalized. A native X-ray diffraction data set was collected.

Crystallization and preliminary X-ray analysis of FlgA, a periplasmic protein essential for flagellar P-ring assembly

Salmonella FlgA, a periplasmic chaperone essential for flagellar P-ring assembly, has been expressed and purified and the crystals have been characterized by X-ray diffraction.

Recombinant expression and purification of the tomato defensin TPP3 and its preliminary X-ray crystallographic analysis

TPP3 is a class II plant defensin from tomato. Here, the expression, purification, crystallization and preliminary X-ray crystallographic analysis of recombinant TPP3 are reported in order to define its structure and function in relation to other class II plant defensins.

Crystallization and preliminary X-ray analysis of alginate importer from Sphingomonas sp. A1

Alginate importer from Sphingomonas sp. A1 is a member of the ABC transporter superfamily that directly transports alginate polysaccharide into the cytoplasm. Crystals of alginate importer in complex with the periplasmic binding protein AlgQ2 diffracted X-rays to 3.3 Å resolution.

Crystallization and preliminary X-ray diffraction of the surfactant protein Lv-ranaspumin from the frog Leptodactylus vastus

The purification, crystallization and MS analysis of a natural surfactant protein from the frog L. vastus are described.

Crystallization and preliminary X-ray studies of an electron-transfer complex of ferredoxin and ferredoxin-dependent glutamate synthase from the cyanobacterium Leptolyngbya boryana

Cocrystallization of ferredoxin and glutamate synthase was successfully carried out and the resulting crystals were demonstrated to be suitable for structural determination of an electron-transfer complex of these two proteins.

Crystallization and preliminary X-ray analysis of a hyperthermophilic endoglucanase from Pyrococcus furiosus

A hyperthermostable endoglucanase from P. furiosus expressed as a truncated form without the N-terminal amino acids was crystallized. The crystal diffracted to a resolution of 1.07 Å.

Expression, purification, crystallization and preliminary X-ray diffraction analysis of a galactose 1-phosphate uridylyltransferase from the hyperthermophilic archaeon Pyrobaculum aerophilum

A galactose 1-phosphate uridylyltransferase from a hyperthermophilic archaeon was successfully isolated and crystallized.

Crystallization and preliminary X-ray crystallographic analysis of the catalytic domain of human di­hydrouridine synthase

The catalytic domain of human Dus2-like enzyme was purified and crystallized, and data were collected to 1.9 Å resolution.

Crystallization and preliminary X-ray crystallographic characterization of a cyclic nucleotide-binding homology domain from the mouse EAG potassium channel

The crystallization conditions and preliminary crystal characterization of the cytoplasmic cyclic nucleotide-binding homology domain from the mouse EAG potassium channel are reported.

Crystallization and preliminary crystallographic analysis of Arabidopsis thaliana BRI1-associated kinase 1 (BAK1) cytoplasmic domain

The cytoplasmic domain of BRI1-associated kinase 1 from A. thaliana has been overexpressed in E. coli, purified and crystallized. Diffraction data were collected to 2.6 Å resolution.

Crystallization and preliminary X-ray analysis of the subclass B3 metallo-β-lactamase SMB-1 that confers carbapenem resistance

The subclass B3 metallo-β-lactamase SMB-1 was crystallized by the hanging-drop vapour-diffusion method. Two types of crystals belonging to space group P3₁ were obtained.

Cloning, purification, crystallization and preliminary X-ray analysis of the Burkholderia pseudomallei L1 ribosomal protein

The L1 ribosomal protein from B. pseudomallei has been overexpressed, purified and crystallized in a form suitable for X-ray analysis.

Overproduction, purification and crystallization of PfTic22, a component of the import apparatus from the apicoplast of Plasmodium falciparum

The crystallization of Tic22 from P. falciparum is reported.

Expression, purification and crystallization of an indole prenyltransferase from Aspergillus fumigatus

Residues 38–440 of CdpNPT from A. fumigatus were overexpressed in E. coli, purified and crystallized. Diffraction data have been collected to a resolution of 2.5 Å.

Purification, crystallization and preliminary X-ray diffraction analysis of the Fyn SH2 domain and its complex with a phosphotyrosine peptide

The SH2 domain of the human protein tyrosine kinase Fyn has been expressed, purified and crystallized in the unbound state and in complex with a high-affinity phosphotyrosine peptide.