Acta Crystallographica Section D

Biological Crystallography

Volume 67, Part 12 (December 2011)



[Issue Author Index][Volume Author Index]
[Cover illustration] Cover illustration: The two-dimensional organization of Zn2+-cross-linked human transthyretin L55P dimers as observed from the crystal packing (p. 1035). The Zn2+-binding sites are highlighted and also the other residues from crystal-contact interactions, namely His56, Ala37 and Asp39. Dimers lying on different sides of this bilayer-like assembly are coloured differently. In this arrangement, the [beta]-strands from symmetry-related monomers have the same orientation and all the [beta]-strands are almost perpendicular to the vertical direction in the paper plane, configuring a cross-[beta] structure.

research papers


thumbnail of article figure

[HTML version][PDF version][Supplementary Material]  [Buy article online]

Acta Cryst. (2011). D67, 997-1008  [ doi:10.1107/S090744491104039X ]

The structure and inhibition of a GGDEF diguanylate cyclase complexed with (c-di-GMP)2 at the active site

C.-Y. Yang, K.-H. Chin, M.L.-C. Chuah, Z.-X. Liang, A.H.-J. Wang and S.-H. Chou

Synopsis: The crystal structure of the XCC4471GGDEF-c-di-GMP complex reveals detailed interactions between a c-di-GMP dimer with a significant number of highly conserved residues around the active site. This structure may serve as a good model for designing lead compounds for blocking DGC activities in a cell and for treating biofilm-related chronic diseases.

PDB reference: 3qyy

Online 18 November 2011


thumbnail of article figure

[HTML version][PDF version]  [Buy article online]

Acta Cryst. (2011). D67, 1009-1016  [ doi:10.1107/S0907444911041102 ]

Role of the MotB linker in the assembly and activation of the bacterial flagellar motor

J. O'Neill, M. Xie, M. Hijnen and A. Roujeinikova

Synopsis: The crystallographic analysis of a series of N-terminally truncated H. pylori MotB variants is presented. This analysis reveals how the structure responds to linker separation and suggests the mechanism of MotB activation, which entails linker unfolding and rotational displacement of MotB transmembrane helices.

PDB references: 3s0y, 3s02, 3s03, 3s06, 3s0h and 3s0w

Online 5 November 2011


thumbnail of article figure

[HTML version][PDF version]  [Buy article online]

Acta Cryst. (2011). D67, 1017-1022  [ doi:10.1107/S0907444911042971 ]

Structural and functional characterization of Mycobacterium tuberculosis triosephosphate isomerase

S. E. Connor, G. C. Capodagli, M. K. Deaton and S. D. Pegan

Synopsis: The structure of M. tuberculosis triosephosphate isomerase (MtTPI) was elucidated in the apo form as well as bound to the reaction-intermediate analog phosphoglycolohydroxamate (PGH). The enzymatic parameters for the conversion of dihydroxyacetone phosphate to D-glyceraldehyde-3-phosphate by MtTPI were also obtained as well as the binding constant for the reaction-intermediate analog PGH.

PDB references: 3ta6 and 3tao

Online 5 November 2011


thumbnail of article figure

[HTML version][PDF version]  [Buy article online]

Acta Cryst. (2011). D67, 1023-1027  [ doi:10.1107/S0907444911043435 ]

Structural analysis of interdomain mobility in ribosomal L1 proteins

S. Tishchenko, E. Nikonova, O. Kostareva, A. Gabdulkhakov, W. Piendl, N. Nevskaya, M. Garber and S. Nikonov

Synopsis: It is shown that interdomain mobility in bacterial ribosomal L1 proteins emerges from their amino-acid sequences and consequently the closed conformation should be characteristic of the structures of all bacterial L1 proteins in the isolated state.

PDB reference: 3tg8

Online 5 November 2011


thumbnail of article figure

[HTML version][PDF version][Supplementary Material]  [Buy article online]

Acta Cryst. (2011). D67, 1028-1034  [ doi:10.1107/S090744491104385X ]

Structure of E69Q mutant of human muscle fructose-1,6-bisphosphatase

M. Zarzycki, R. Kolodziejczyk, E. Maciaszczyk-Dziubinska, R. Wysocki, M. Jaskolski and A. Dzugaj

Synopsis: Human muscle fructose-1,6-bisphosphatase has been characterized in complex with its allosteric inhibitor AMP and in addition with the enzymatic reaction product [alpha]-fructose 6-phosphate bound in the active site.

PDB references: 3ifa and 3ifc

Online 18 November 2011


thumbnail of article figure

[HTML version][PDF version]  [Buy article online]

Acta Cryst. (2011). D67, 1035-1044  [ doi:10.1107/S090744491104491X ]

Structural insights into a zinc-dependent pathway leading to Leu55Pro transthyretin amyloid fibrils

A. F. Castro-Rodrigues, L. Gales, M. J. Saraiva and A. M. Damas

Synopsis: The crystal structure of the TTR L55P-Zn2+ complex reveals two different tetrahedral Zn2+-binding sites that lead to a bidimensional array of monomers with a cross-[beta] structure. Biophysical characterization of TTR L55P fibril formation under conditions similar to those in which crystals were obtained confirms the role of Zn2+ as an amyloid enhancer.

PDB reference: 3ssg

Online 5 November 2011


thumbnail of article figure

[HTML version][PDF version]  [Buy article online]

Acta Cryst. (2011). D67, 1045-1053  [ doi:10.1107/S0907444911045033 ]

Structural basis for the DNA-binding activity of the bacterial [beta]-propeller protein YncE

W. Kagawa, T. Sagawa, H. Niki and H. Kurumizaka

Synopsis: Crystal structures of the E. coli YncE protein and its complex with DNA are presented. The structures provide a novel DNA binding mechanism for [beta]-propeller-nucleic acid interactions.

PDB references: 3vgz and 3vh0

Online 5 November 2011


thumbnail of article figure

[HTML version][PDF version][Supplementary Material]  [Buy article online]

Acta Cryst. (2011). D67, 1054-1064  [ doi:10.1107/S0907444911045264 ]

Structure of indole-3-glycerol phosphate synthase from Thermus thermophilus HB8: implications for thermal stability

B. Bagautdinov and K. Yutani

Synopsis: The crystal structure of indole-3-glycerol phosphate synthase (IGPS) from the thermophilic bacterium T. thermophilus was determined at 1.8 Å resolution. The study highlights the presence of additional salt bridges and stabilization-centre clusters as major contributing factors to the thermal stability of the thermophilic IGPS and thus provides new insights for protein engineering to design thermostable proteins.

PDB reference: 1vc4

Online 18 November 2011


thumbnail of article figure

[HTML version][PDF version][Supplementary Material]  [Open access]

Acta Cryst. (2011). D67, 1065-1072  [ doi:10.1107/S0907444911046300 ]

The structure of Serratia marcescens Lip, a membrane-bound component of the type VI secretion system

V. A. Rao, S. M. Shepherd, G. English, S. J. Coulthurst and W. N. Hunter

Synopsis: The high-resolution crystal structure of S. marcescens Lip reveals a new member of the transthyretin family of proteins. Lip, a core component of the type VI secretion apparatus, is localized to the outer membrane and is positioned to interact with other proteins forming this complex system.

PDB reference: 4a1r

Online 18 November 2011


short communications


thumbnail of article figure

[HTML version][PDF version]  [Buy article online]

Acta Cryst. (2011). D67, 1073-1075  [ doi:10.1107/S0907444911046105 ]

Deprotonated imidodiphosphate in AMPPNP-containing protein structures

M. Dauter and Z. Dauter

Synopsis: In certain AMPPNP-containing protein structures, the nitrogen bridging the two terminal phosphate groups can be deprotonated.

Online 18 November 2011


addenda and errata


 

[HTML version][PDF version]  [Open access]

Acta Cryst. (2011). D67, 1076  [ doi:10.1107/S0907444911045860 ]

Crystallographic analysis of human hemoglobin elucidates the structural basis of the potent and dual antisickling activity of pyridyl derivatives of vanillin. Corrigendum

O. Abdulmalik, M. S. Ghatge, F. N. Musayev, A. Parikh, Q. Chen, J. Yang, I. Nnamani, R. Danso-Danquah, D. N. Eseonu, T. Asakura, D. J. Abraham, J. Venitz and M. K. Safo

Synopsis: A correction to the paper by Abdulmalik et al. [(2011), Acta Cryst. D67, 920-928].

Online 5 November 2011


 

[HTML version][PDF version]  [Open access]

Acta Cryst. (2011). D67, 1077  [ doi:10.1107/S0907444911048633 ]

The unique structure of carbonic anhydrase [alpha]CA1 from Chlamydomonas reinhardtii. Corrigendum

K. Suzuki, S.-Y. Yang, S. Shimizu, E. C. Morishita, J. Jiang, F. Zhang, M. M. Hoque, Y. Sato, M. Tsunoda, T. Sekiguchi and A. Takénaka

Synopsis: A correction to the paper by Suzuki et al. [(2011). Acta Cryst. D67, 894-901].

Online 18 November 2011


Copyright © International Union of Crystallography
IUCr Webmaster