Biological Crystallography

 

Acta Cryst. (2009). D65, 881-891  [ doi:10.1107/S0907444909016515 ]

ACORN2: new developments of the ACORN concept

E. J. Dodson and M. M. Woolfson

Synopsis: ACORN2, an improved, more effective version of ACORN, is described and its performance is illustrated by application to a number of known structures, starting with phases from either very small fragments, physical methods or molecular replacement. When the starting fragment is centrosymmetric and gives no definition of an enantiomorph, ACORN2 refinement resolves the problem and converges to a possible solution.

Online 14 August 2009

 

Acta Cryst. (2009). D65, 892-899  [ doi:10.1107/S0907444909018885 ]

A neutron crystallographic analysis of phosphate-free ribonuclease A at 1.7 Å resolution

D. Yagi, T. Yamada, K. Kurihara, Y. Ohnishi, M. Yamashita, T. Tamada, I. Tanaka, R. Kuroki and N. Niimura

Synopsis: A neutron crystallographic analysis of phosphate-free RNase A has been carried out at 1.7 Å resolution.

PDB reference: 3a1r

Online 6 August 2009

 

Acta Cryst. (2009). D65, 900-905  [ doi:10.1107/S0907444909020514 ]

Structure of the restriction-modification controller protein C.Esp1396I

N. Ball, S. D. Streeter, G. G. Kneale and J. E. McGeehan

Synopsis: The crystal structure of the free restriction-modification controller protein C.Esp1396I is reported.

PDB references: 3g5g and 3fya

Online 6 August 2009

 

Acta Cryst. (2009). D65, 906-912  [ doi:10.1107/S0907444909020927 ]

Rotational order-disorder structure of fluorescent protein FP480

S. Pletnev, K. S. Morozova, V. V. Verkhusha and Z. Dauter

Synopsis: An analysis of the rotational order-disorder structure of fluorescent protein FP480 is presented.

PDB references: 3h1o and 3h1r

Online 6 August 2009

 

Acta Cryst. (2009). D65, 913-920  [ doi:10.1107/S0907444909021489 ]

Cyclic olefin homopolymer-based microfluidics for protein crystallization and in situ X-ray diffraction

S. Emamzadah, T. J. Petty, V. De Almeida, T. Nishimura, J. Joly, J.-L. Ferrer and T. D. Halazonetis

Synopsis: A cyclic olefin homopolymer-based microfluidics system has been established for protein crystallization and in situ X-ray diffraction.

Online 6 August 2009

 

Acta Cryst. (2009). D65, 921-931  [ doi:10.1107/S0907444909021933 ]

Averaged kick maps: less noise, more signal...and probably less bias

J. Praznikar, P. V. Afonine, G. Guncar, P. D. Adams and D. Turk

Synopsis: Averaged kick maps are the sum of a series of individual kick maps, where each map is calculated from atomic coordinates modified by random shifts. These maps offer the possibility of an improved and less model-biased map interpretation.

Online 6 August 2009

 

Acta Cryst. (2009). D65, 932-941  [ doi:10.1107/S0907444909021817 ]

Structure of Hordeum vulgare NADPH-dependent thioredoxin reductase 2. Unwinding the reaction mechanism

K. G. Kirkensgaard, P. Hägglund, C. Finnie, B. Svensson and A. Henriksen

Synopsis: The first crystal structure of a cereal NTR, a protein involved in seed development and germination, has been determined. The structure is in a conformation that excludes NADPH binding and indicates that a domain reorientation facilitated by Trx binding precedes NADPH binding in the reaction mechanism.

PDB reference: 2whd

Online 14 August 2009

 

Acta Cryst. (2009). D65, 942-951  [ doi:10.1107/S0907444909022422 ]

Structure of the apo decarbamylated form of 2,3-diketo-5-methylthiopentyl-1-phosphate enolase from Bacillus subtilis

H. Tamura, Y. Saito, H. Ashida, Y. Kai, T. Inoue, A. Yokota and H. Matsumura

Synopsis: The crystal structure of the apo decarbamylated form of 2,3-diketo-5-methylthiopentyl-1-phosphate enolase has been solved at 2.3 Å resolution.

PDB reference: 2zvi

Online 14 August 2009

 

Acta Cryst. (2009). D65, 952-965  [ doi:10.1107/S0907444909022707 ]

Polarizable atomic multipole X-ray refinement: application to peptide crystals

M. J. Schnieders, T. D. Fenn, V. S. Pande and A. T. Brunger

Synopsis: A method to accelerate the computation of structure factors from an electron density described by anisotropic and aspherical atomic form factors via fast Fourier transformation is described for the first time.

Online 14 August 2009

 

Acta Cryst. (2009). D65, 966-973  [ doi:10.1107/S0907444909023695 ]

Application of general formulas for the correction of a lattice-translocation defect in crystals of a lentiviral integrase in complex with LEDGF

S. Hare, P. Cherepanov and J. Wang

Synopsis: Corrections for lattice-translocation defects (LTDs) remove the intensity modulation introduced by LTD and decompose the composite structure that is statistically averaged from two LTD-related structures into the original unscrambled structure.

Online 14 August 2009

 

Acta Cryst. (2009). D65, 974-979  [ doi:10.1107/S0907444909023634 ]

Structure of the single-stranded DNA-binding protein from Streptomyces coelicolor

Z. Stefanic, D. Vujaklija and M. Luic

Synopsis: The first crystal structure of a single-stranded DNA-binding protein from a member of the genus Streptomyces has been solved and refined at 2.1 Å resolution. It shows variations in quaternary structure that have previously only been found in mycobacterial SSBs.

PDB reference: 3eiv

Online 14 August 2009

 

Acta Cryst. (2009). D65, 980-988  [ doi:10.1107/S0907444909025153 ]

Analysis of lattice-translocation disorder in the layered hexagonal structure of carboxysome shell protein CsoS1C

Y. Tsai, M. R. Sawaya and T. O. Yeates

Synopsis: A hexagonal layered structure leads to lattice-translocation disorder in crystals of a carboxysome shell protein. Approaches are described for handling translocation problems. In addition, a rare situation is uncovered in which the rotational symmetry in intensity data and in Patterson maps exceeds the rotational symmetry of the crystal itself.

PDB reference: 3h8y

Online 14 August 2009

 

Acta Cryst. (2009). D65, 989-1000  [ doi:10.1107/S0907444909025013 ]

Structure and epimerase activity of anthocyanidin reductase from Vitis vinifera

M. Gargouri, C. Manigand, C. Maugé, T. Granier, B. Langlois d'Estaintot, O. Cala, I. Pianet, K. Bathany, J. Chaudière and B. Gallois

Synopsis: Recombinant grape anthocyanidin reductase synthesizes the naturally rare flavan-3-ol epimers with 2S configuration. Its 2.2 Å resolution crystal structure explains the inactivity of the enzyme in the presence of high salt concentrations.

PDB references: 2rh8 and 3hfs

Online 14 August 2009

 

Acta Cryst. (2009). D65, 1001-1003  [ doi:10.1107/S0907444909020320 ]

Automatic implementation of precise grid screens: the four-corners method

D. N. Hennessy, B. Narayanan and J. M. Rosenberg

Synopsis: An efficient and accurate method has been developed for the preparation of the customized crystallization grid screens employed in protein crystallizations.

Online 14 August 2009

 

Acta Cryst. (2009). D65, 1004-1006  [ doi:10.1107/S0907444909026821 ]

To scavenge or not to scavenge: that is the question

E. Nowak, A. Brzuszkiewicz, M. Dauter, Z. Dauter and G. Rosenbaum

Synopsis: Analysis of a series of diffraction data sets measured from several native as well as nicotinic acid-soaked crystals of trypsin suggests that this potential scavenger does not have any statistically significant effect on the amount of radiation damage incurred in the crystals on X-ray irradiation at 100 K.

Online 14 August 2009

    

Acta Cryst. (2009). D65, 1007-1008  [ doi:10.1107/S0907444909023051 ]

Comment on Microfibrillar structure of type I collagen in situ by Orgel et al. (2006), Proc. Natl Acad. Sci. USA, 103, 9001-9005

K. Okuyama, H. P. Bächinger, K. Mizuno, S. Boudko, J. Engel, R. Berisio and L. Vitagliano

Synopsis: Comment on Microfibrillar structure of type I collagen in situ by Orgel et al. (2006), Proc. Natl Acad. Sci. USA, 103, 9001-9005.

Online 14 August 2009

 

Acta Cryst. (2009). D65, 1009-1010  [ doi:10.1107/S0907444909028741 ]

On the packing structure of collagen: response to Okuyama et al.'s comment on Microfibrillar structure of type I collagen in situ

J. P. R. O. Orgel

Synopsis: A response to the comment on Microfibrillar structure of type I collagen in situ [Okuyama et al. (2009), Acta Cryst. D65, 1007-1008].

Online 14 August 2009

 

Acta Cryst. (2009). D65, 1011-1012  [ doi:10.1107/S0907444909018836 ]

Protein Crystallography - A Concise Guide

Online 14 August 2009