[HTML][HTML] Homology modeling in the time of collective and artificial intelligence

T Hameduh, Y Haddad, V Adam, Z Heger - Computational and Structural …, 2020 - Elsevier
Homology modeling is a method for building protein 3D structures using protein primary
sequence and utilizing prior knowledge gained from structural similarities with other …

Structure of SpoT reveals evolutionary tuning of catalysis via conformational constraint

H Tamman, K Ernits, M Roghanian, A Ainelo… - Nature chemical …, 2023 - nature.com
Stringent factors orchestrate bacterial cell reprogramming through increasing the level of the
alarmones (p) ppGpp. In Beta-and Gammaproteobacteria, SpoT hydrolyzes (p) ppGpp to …

Molecular basis of the dual role of the Mlh1-Mlh3 endonuclease in MMR and in meiotic crossover formation

J Dai, A Sanchez, C Adam, L Ranjha… - Proceedings of the …, 2021 - National Acad Sciences
In budding yeast, the MutL homolog heterodimer Mlh1-Mlh3 (MutLγ) plays a central role in
the formation of meiotic crossovers. It is also involved in the repair of a subset of mismatches …

Unveiling the role of novel carbohydrate‐binding modules in laminarin interaction of multimodular proteins from marine Bacteroidota during phytoplankton blooms

MK Zühlke, E Ficko‐Blean, D Bartosik… - Environmental …, 2024 - Wiley Online Library
Abstract Laminarin, a β (1, 3)‐glucan, serves as a storage polysaccharide in marine
microalgae such as diatoms. Its abundance, water solubility and simple structure make it an …

A High‐Affinity Calmodulin‐Binding Site in the CyaA Toxin Translocation Domain is Essential for Invasion of Eukaryotic Cells

A Voegele, M Sadi, DP O'Brien, P Gehan… - Advanced …, 2021 - Wiley Online Library
The molecular mechanisms and forces involved in the translocation of bacterial toxins into
host cells are still a matter of intense research. The adenylate cyclase (CyaA) toxin from …

Study of the DnaB: DciA interplay reveals insights into the primary mode of loading of the bacterial replicative helicase

S Marsin, Y Adam, C Cargemel, J Andreani… - Nucleic acids …, 2021 - academic.oup.com
Replicative helicases are essential proteins that unwind DNA in front of replication forks.
Their loading depends on accessory proteins and in bacteria, DnaC and DnaI are well …

[HTML][HTML] Molecular interactions of PCSK9 with an inhibitory nanobody, CAP1 and HLA-C: Functional regulation of LDLR levels

CF Gaillard, ABD Ouadda, L Ciccone, E Girard… - Molecular …, 2023 - Elsevier
Objective The liver-derived circulating PCSK9 enhances the degradation of the LDL
receptor (LDLR) in endosomes/lysosomes. PCSK9 inhibition or silencing is presently used …

Structural characterization of the RH1-LZI tandem of JIP3/4 highlights RH1 domains as a cytoskeletal motor-binding motif

F Vilela, C Velours, M Chenon, M Aumont-Nicaise… - Scientific Reports, 2019 - nature.com
Abstract JIP3 and JIP4 (JNK-interacting proteins 3 and 4) are adaptors for cargo recruitment
by dynein/dynactin and kinesin1 motors. Both are dimers that are stabilised by two sections …

Disordered regions and folded modules in CAF-1 promote histone deposition in Schizosaccharomyces pombe

F Ouasti, M Audin, K Freon, JP Quivy, M Tachekort… - Elife, 2024 - elifesciences.org
Genome and epigenome integrity in eukaryotes depends on the proper coupling of histone
deposition with DNA synthesis. This process relies on the evolutionary conserved histone …

Solution X-Ray scattering for membrane proteins

M Baranowski, J Pérez - Biophysics of Membrane Proteins: Methods and …, 2020 - Springer
While X-ray crystallography remains the most popular and productive technique for protein
structure determination, it very often produces incomplete models, either due to truncations …