Biological Crystallography

 

Acta Cryst. (2005). D61, 1563-1567  [ doi:10.1107/S0907444905028866 ]

Enhancing drop stability in protein crystallization by chemical patterning

V. Berejnov and R. E. Thorne

Synopsis: A simple method to increase the stability of drops used in protein crystallization is characterized with respect to drop size and composition. This method may improve crystallization outcomes and simplify crystallization apparatus.

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1568-1578  [ doi:10.1107/S0907444905029616 ]

Structure of murine angiogenin: features of the substrate- and cell-binding regions and prospects for inhibitor-binding studies

D. E. Holloway, G. B. Chavali, M. C. Hares, V. Subramanian and K. R. Acharya

Synopsis: The X-ray crystal structure of murine angiogenin indicates that the protein is a useful alternative to the human orthologue for the study of angiogenin structure-function relationships and that the crystals may be suitable for inhibitor-binding studies.

PDB references: 2bwk and 2bwl

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1579-1586  [ doi:10.1107/S0907444905029604 ]

Non-steroidal anti-inflammatory drugs as potent inhibitors of phospholipase A₂: structure of the complex of phospholipase A₂ with niflumic acid at 2.5  Å resolution

T. Jabeen, N. Singh, R. K. Singh, S. Sharma, R. K. Somvanshi, S. Dey and T. P. Singh

Synopsis: The crystal structure of the complex formed between phospholipase A₂ and niflumic acid has been determined at 2.5  Å resolution and refined to an R factor of 0.187. The structure revealed extensive interactions between niflumic acid and the residues of the substrate-binding site.

PDB reference: 1td7

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1587-1593  [ doi:10.1107/S0907444905029781 ]

Structure of a DNA duplex with all-AT base pairs

N. Valls, M. Richter and J. A. Subirana

Synopsis: The DNA fragment d(AAATATTT) has been crystallized as long columns of stacked duplexes in a helical arrangement. The columns show a pseudohexagonal organization in the crystal, with no direct interactions among them.

PDB reference: 2a2t

NDB reference: BD0088

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1594-1598  [ doi:10.1107/S0907444905030350 ]

Structure of Chlorobium vibrioforme 5-aminolaevulinic acid dehydratase complexed with a diacid inhibitor

L. Coates, G. Beaven, P. T. Erskine, S. I. Beale, S. P. Wood, P. M. Shoolingin-Jordan and J. B. Cooper

Synopsis: The structure of C. vibrioforme 5-aminolaevulinic acid dehydratase complexed with the irreversible inhibitor 4,7-dioxosebacic acid has been solved.

PDB reference: 2c1h

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1599-1602  [ doi:10.1107/S090744490503043X ]

Anatomy of a trans-cis peptide transition during least-squares refinement of rubrerythrin

R. E. Stenkamp

Synopsis: Least-squares refinement of rubrerythrin automatically converted a trans peptide to one with a cis conformation. The structural transition is characterized by small localized atomic shifts involving a non-ideal linear bond angle within the peptide.

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1603-1611  [ doi:10.1107/S0907444905030519 ]

Conformational flexibility of Mycobacterium tuberculosis thioredoxin reductase: crystal structure and normal-mode analysis

M. Akif, K. Suhre, C. Verma and S. C. Mande

Synopsis: The crystal structure of M. tuberculosis thioredoxin reductase has been determined to 3  Å resolution. Examination of TLS parameters and normal-mode analysis reveal interesting dynamic behaviour of the enzyme. Lack of involvement of the NADPH domain in crystal contacts suggests that this disorder might represent inherent flexibility of the NADPH domain in the structure.

PDB reference: 2a87

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1612-1625  [ doi:10.1107/S0907444905031963 ]

High-throughput phase-diagram mapping via powder diffraction: a case study of HEWL versus pH

S. Basso, A. N. Fitch, G. C. Fox, I. Margiolaki and J. P. Wright

Synopsis: 44 samples of tetragonal hen egg-white lysozyme were obtained as a series of polycrystalline precipitates at 277  K and room temperature in the pH range between 6.56 and 3.33. The precipitates were investigated by the collection of high-resolution powder X-ray diffraction data at 295  K.

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1626-1635  [ doi:10.1107/S0907444905032233 ]

Extending the resolution and phase-quality limits in automated model building with iterative refinement

P. Skubák, S. Ness and N. S. Pannu

Synopsis: A multivariate likelihood function extends the resolution and phase quality required for successful automated model building with iterative refinement in many test cases.

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1636-1642  [ doi:10.1107/S090744490503266X ]

Structure of aluminium-bound ovotransferrin at 2.15  Å resolution

K. Mizutani, B. Mikami, S. Aibara and M. Hirose

Synopsis: The crystal structure of aluminium-bound ovotransferrin has been determined at 2.15  Å resolution. The aluminium-bound form has almost the same overall structure and metal-coordination sites as the iron-bound form.

PDB reference: 2d3i

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1643-1648  [ doi:10.1107/S0907444905033494 ]

Three-dimensional model-free experimental error correction of protein crystal diffraction data with free-R test

Z.-Q. Fu

Synopsis: An algorithm is proposed to more generally and efficiently correct experimental error in X-ray crystal diffraction data.

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1649-1654  [ doi:10.1107/S0907444905034062 ]

Structure of Escherichia coli ribonucleotide reductase R2 in space group P6₁22

M. Sommerhalter, L. Saleh, J. M. Bollinger and A. C. Rosenzweig

Synopsis: A new crystal form of ribonucleotide reductase R2 from E. coli has been obtained and the structure of the dimanganese(II) form has been refined to 2.6  Å resolution. The crystallization conditions and structure are compared with previous results.

PDB reference: 2alx

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1655-1661  [ doi:10.1107/S0907444905034074 ]

The structure at 1.6  Å resolution of the protein product of the At4g34215 gene from Arabidopsis thaliana

E. Bitto, C. A. Bingman, J. G. McCoy, S. T. M. Allard, G. E. Wesenberg and G. N. Phillips

Synopsis: The crystal structure of the 28.3  kDa At4g34215 protein was determined at 1.6  Å resolution. The structure reveals a variation of the active site involved in the formation of an oxyanion hole that has not previously been described in the SGNH-hydrolase superfamily of enzymes.

PDB reference: 2apj

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1662-1669  [ doi:10.1107/S0907444905033202 ]

Tapping the Protein Data Bank for crystallization information

T. S. Peat, J. A. Christopher and J. Newman

Synopsis: Macromolecular crystallization data were collated while parsing information from the Protein Data Bank into a relational database. These data are an up-to-date but incomplete record of current crystallization trends.

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1670-1677  [ doi:10.1107/S0907444905029598 ]

Structure of BthA-I complexed with p-bromophenacyl bromide: possible correlations with lack of pharmacological activity

A. J. Magro, A. A. S. Takeda, A. M. Soares and M. R. M. Fontes

Synopsis: The crystal structure of an acidic phospholipase A₂ chemically modified with p-bromophenacyl revealed a novel oligomeric conformation. The abolition of pharmacological activities by the ligand may be related to these structural changes.

PDB reference: 1z76

Online 19 November 2005

 

Acta Cryst. (2005). D61, 1678-1681  [ doi:10.1107/S0907444905033937 ]

Conceptions and first results on the electrocrystallization behaviour of ferritin

A. Moreno and M. Rivera

Synopsis: The influence of an external applied potential on the growth of ferritin crystals from horse spleen is described.

Online 19 November 2005