A new pentameric structure of rotavirus NSP4 revealed by molecular replacement

A systematic approach by the molecular-replacement method with a dimeric search model using the program Phaser led to an unexpected pentameric structure of the NSP4:95–146 region of the ST3 strain of rotavirus, in contrast to the previously reported tetramers.

Application of DEN refinement and automated model building to a difficult case of molecular-replacement phasing: the structure of a putative succinyl-diaminopimelate desuccinylase from Corynebacterium glutamicum

DEN refinement and automated model building with AutoBuild were used to determine the structure of a putative succinyl-diaminopimelate desuccinylase from C. glutamicum. This difficult case of molecular-replacement phasing shows that the synergism between DEN refinement and AutoBuild outperforms standard refinement protocols.

Improved crystallographic models through iterated local density-guided model deformation and reciprocal-space refinement

A density-based procedure is described for improving a homology model that is locally accurate but differs globally. The model is deformed to match the map and refined, yielding an improved starting point for density modification and further model-building.

Severe diffraction anisotropy, rotational pseudosymmetry and twinning complicate the refinement of a pentameric coiled-coil structure of NSP4 of rotavirus

An account of the detection of severe diffraction anisotropy, rotational pseudosymmetry and twinning during the refinement of the rotaviral nonstructural protein NSP4 and a description of corrections for these factors leading to successful refinement of the structure are presented.