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Oota Lab
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A bioinformatics lab that uses computation to uncover the structures and functions of proteins.
AboutAbout the lab
Understanding the wonders of life through theory and computation
The Oota Lab studies bioinformatics with the aim of understanding the wonders of life phenomena theoretically.
Its main research subjects are protein sequences, three-dimensional structures, interactions and association, and functions, as well as genomes.
The lab's main methods are database analysis and simulation, and it also pursues research using artificial intelligence and machine learning.
The lab basically does not conduct experiments, and each member works on their own research theme.
Key terms
- Bioinformatics
- The field that uses computers to investigate life phenomena. This lab uses database analysis and simulation.
- Hub protein
- A protein that interacts with many other proteins in a protein-protein interaction network.
- Motion Tree
- An original method developed by this lab to describe changes in the three-dimensional structure of proteins.
ResearchResearch themes
Using methods of structural bioinformatics, this lab studies how a protein sequence folds into its unique three-dimensional structure and how that structure gives rise to a specific function. Its approaches include database analysis of biological information, statistical analysis, and simulation.
*Illustrative imageStructural changes in protein complexes
Many proteins function as complexes, and some undergo structural changes when they function. Using its original method, Motion Tree, the lab studies the relationship between structural changes in complexes and their functions.
*Illustrative imageProperties of hub proteins
The lab studies hub proteins, which interact with many proteins in interaction networks. It has found that proteins with multiple subcellular localizations tend to become hubs, and it also studies links to intrinsically disordered proteins and post-translational modifications.
*Illustrative imageProtein association and interactions
Some proteins become active only when they associate to form a quaternary structure. Using databases, the lab studies what determines their association states, interaction partners, and forms.
MembersFaculty
The members of the Oota Lab are faculty, postdoctoral researchers, collaborating researchers, and master's students.As of 2025
- ProfessorMotonori Oota
- Assistant ProfessorRyotaro Koike
VoicesStudent voices
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Report an errorAbout the images
The top and research theme images are illustrative and were not taken at the lab. They are cropped from Wikimedia Commons images. Cropped CC BY-SA images are provided under the same CC BY-SA license as the original (version shown on each line).
- Top image: “Protein ARF4 (2) PDB 1z6x” Emw / CC BY-SA 3.0 (cropped)
- Structural changes in protein complexes: “Structure of the human exon junction complex with a trapped DEAD-box helicase bound to RNA PDB 2hyi” Emw / CC BY-SA 3.0 (cropped)
- Properties of hub proteins: “Multiplex Human HIV-1 protein-protein interaction network (edge-colored visualization)” Dedalus1234 / CC BY-SA 4.0 (cropped)
- Protein association and interactions: “Glutamine Synthetase Filament” Rkott / CC BY-SA 4.0 (cropped)
- Related lab (Yamanishi Lab): “Benomyl-3D-molecular-model-engraved-render-CAS” MolGod Scientific / CC BY-SA 4.0 (cropped)
- Related lab (Aoki Lab): “Physcomitrella” Pirex at English Wikipedia / Public domain (cropped)
- Related lab (Tsukamoto Lab): “Round bottom flask” GOKLuLe / CC BY-SA 3.0 (cropped)
- Related lab (Simulation Science Lab): “This visualization shows what Einstein envisioned” Henze, NASA / Public domain (cropped)
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