User profiles for Hafumi Nishi
Hafumi NishiGraduate school of information sciences, Tohoku University Verified email at ecei.tohoku.ac.jp Cited by 1535 |
Molecular mechanisms of disease-causing missense mutations
Genetic variations resulting in a change of amino acid sequence can have a dramatic effect
on stability, hydrogen bond network, conformational dynamics, activity and many other …
on stability, hydrogen bond network, conformational dynamics, activity and many other …
[HTML][HTML] Physicochemical mechanisms of protein regulation by phosphorylation
Phosphorylation offers a dynamic way to regulate protein activity and subcellular localization,
which is achieved through its reversibility and fast kinetics. Adding or removing a dianionic …
which is achieved through its reversibility and fast kinetics. Adding or removing a dianionic …
Caught in self-interaction: evolutionary and functional mechanisms of protein homooligomerization
K Hashimoto, H Nishi, S Bryant… - Physical biology, 2011 - iopscience.iop.org
Many soluble and membrane proteins form homooligomeric complexes in a cell which are
responsible for the diversity and specificity of many pathways, may mediate and regulate …
responsible for the diversity and specificity of many pathways, may mediate and regulate …
[PDF][PDF] Phosphorylation in protein-protein binding: effect on stability and function
H Nishi, K Hashimoto, AR Panchenko - Structure, 2011 - cell.com
Posttranslational modifications offer a dynamic way to regulate protein activity, subcellular
localization, and stability. Here we estimate the effect of phosphorylation on protein binding …
localization, and stability. Here we estimate the effect of phosphorylation on protein binding …
[HTML][HTML] Cancer missense mutations alter binding properties of proteins and their interaction networks
Many studies have shown that missense mutations might play an important role in carcinogenesis.
However, the extent to which cancer mutations might affect biomolecular interactions …
However, the extent to which cancer mutations might affect biomolecular interactions …
New tools and functions in data‐out activities at Protein Data Bank Japan (PDBj)
…, H Wako, S Endo, Y Tsuchiya, H Sato, H Nishi… - Protein …, 2018 - Wiley Online Library
The Protein Data Bank Japan (PDBj), a member of the worldwide Protein Data Bank (wwPDB),
accepts and processes the deposited data of experimentally determined biological …
accepts and processes the deposited data of experimentally determined biological …
Regulation of protein–protein binding by coupling between phosphorylation and intrinsic disorder: analysis of human protein complexes
H Nishi, JH Fong, C Chang, SA Teichmann… - Molecular …, 2013 - pubs.rsc.org
Phosphorylation offers a dynamic way to regulate protein activity, subcellular localization,
and stability. The majority of signaling pathways involve an extensive set of protein–protein …
and stability. The majority of signaling pathways involve an extensive set of protein–protein …
[HTML][HTML] Crosstalk between signaling pathways provided by single and multiple protein phosphorylation sites
Cellular fate depends on the spatiotemporal separation and integration of signaling processes
that can be provided by phosphorylation events. In this study, we identify the crucial …
that can be provided by phosphorylation events. In this study, we identify the crucial …
Evolutionary, physicochemical, and functional mechanisms of protein homooligomerization
H Nishi, K Hashimoto, T Madej… - Progress in molecular …, 2013 - Elsevier
Protein homooligomers afford several important benefits for the cell; they mediate and
regulate gene expression, activity of many enzymes, ion channels, receptors, and cell–cell …
regulate gene expression, activity of many enzymes, ion channels, receptors, and cell–cell …
Selection of target-binding proteins from the information of weakly enriched phage display libraries by deep sequencing and machine learning
Despite the advances in surface-display systems for directed evolution, variants with high
affinity are not always enriched due to undesirable biases that increase target-unrelated …
affinity are not always enriched due to undesirable biases that increase target-unrelated …