Pavol Skubák
Leiden University
Publications 24
#1Pavol Skubák (LEI: Leiden University)H-Index: 7
#2Demet Araç (U of C: University of Chicago)H-Index: 25
Last.Navraj S. Pannu (LEI: Leiden University)H-Index: 24
view all 13 authors...
Determining macromolecular structures from X-ray data with resolution worse than 3 A remains a challenge. Even if a related starting model is available, its incompleteness or its bias together with a low observation-to-parameter ratio can render the process unsuccessful or very time-consuming. Yet, many biologically important macromolecules, especially large macromolecular assemblies, membrane proteins and receptors, tend to provide crystals that diffract to low resolution. A new algorithm to ta...
Thus far, the application of phase-retrieval methods in crystallography has mainly been aimed at variants of charge flipping or structure-factor flipping. In this work, the relaxed averaged alternating reflections (RAAR) algorithm is applied to determine anomalously scattering substructures from single-wavelength anomalous diffraction (SAD) data of macromolecules. The algorithm has been implemented in a new program, PRASA, and has been shown to significantly outperform charge flipping in determi...
#1Liz Potterton (Ebor: University of York)H-Index: 4
#2Jon Agirre (Ebor: University of York)H-Index: 13
Last.Marcin Wojdyr (RAL: Rutherford Appleton Laboratory)H-Index: 6
view all 25 authors...
The CCP4 (Collaborative Computational Project, Number 4) software suite for macromolecular structure determination by X-ray crystallography groups brings together many programs and libraries that, by means of well established conventions, interoperate effectively without adhering to strict design guidelines. Because of this inherent flexibility, users are often presented with diverse, even divergent, choices for solving every type of problem. Recently, CCP4 introduced CCP4i2, a modern graphical ...
#1Guennadi Kozlov (McGill University)H-Index: 34
#2Kathy Wong (McGill University)H-Index: 4
Last.Kalle Gehring (McGill University)H-Index: 46
view all 9 authors...
Legionella pneumophila is a pathogen, causing severe pneumonia in humans called Legionnaires' disease. AnkC (LegA12) is a poorly characterized 495-residue effector protein conserved in multiple Legionella species. Here, we report the crystal structure of a C-terminally truncated AnkC (2-384) at 3.2 A resolution. The structure shows seven ankyrin repeats (ARs) with unique structural features. AnkC forms a dimer along the outer surface of loops between ARs. The dimer exists both in the crystal for...
#1Guennadi KozlovH-Index: 34
#2Kathy WongH-Index: 4
Last.Kalle GehringH-Index: 46
view all 8 authors...
#1Irene Díaz-Moreno (CSIC: Spanish National Research Council)H-Index: 20
#2Rinske Hulsker (LEI: Leiden University)H-Index: 5
Last.Marcellus Ubbink (LEI: Leiden University)H-Index: 26
view all 13 authors...
The rapid transfer of electrons in the photosynthetic redox chain is achieved by the formation of short-lived complexes of cytochrome b6f with the electron transfer proteins plastocyanin and cytochrome c6. A balance must exist between fast intermolecular electron transfer and rapid dissociation, which requires the formation of a complex that has limited specificity. The interaction of the soluble fragment of cytochrome f and cytochrome c6 from the cyanobacterium Nostoc sp. PCC 7119 was studied u...
#1Pavol Skubák (LEI: Leiden University)H-Index: 7
#2Navraj S. Pannu (LEI: Leiden University)H-Index: 24
#1Pavol Skubák (LEI: Leiden University)H-Index: 7
#2Navraj S. Pannu (LEI: Leiden University)H-Index: 24
X-ray crystallography is a routine technique used to solve protein structures, but is often limited by weak anomalous scattering signals and low-resolution data. Here, the authors develop a synergistic algorithm to significantly increase the success rate of structure solution when the signal is weak.
#1Navraj S. PannuH-Index: 24
#2Pavol SkubákH-Index: 7
Last.Marcellus UbbinkH-Index: 26
view all 5 authors...