Author

D. Kuroda

Listed by name: these papers carry no ORCID for this author, so different people with the same name may be mixed together.

Biology Disciplines

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Biochemistry· 4 Biophysics· 1

Signature Assays, Organisms & Methods

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Research Focus:protein folding & dynamics· 5 Approach:experimental assay· 3 Organism:human· 3 Assay:structural biology· 2 Approach:biophysical modeling· 1 Research Focus:cancer & tumor microenvironment· 1 Research Focus:cell signaling & trafficking· 1 Approach:mechanistic / dynamical model· 1

Frequent Co-Authors

K. Tsumoto· 5 shared M. Nakakido· 4 shared S. Nagatoishi· 4 shared A. Yui· 2 shared S. Uchiyama· 2 shared T. Maruno· 2 shared A. Sljoka· 1 shared C. Mori· 1 shared

Activity by Year

2017-2023 · peak 2/yr

Co-Author Collaboration Network

10 top collaborators · 27 mutual co-author links

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5 shared papersBiochemistry

K. Tsumoto

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Author profile →

5 papers

Recent·Most cited

Conformational features and interaction mechanisms of VHH antibodies with β-hairpin-like CDR-H3: A case of Nb8-HigB2 interaction.

K. Yamamoto, S. Nagatoishi, M. Nakakido, D. Kuroda, K. Tsumoto

This study investigates the conformational features and interaction mechanisms of a β-hairpin-like CDR-H3 in the VHH antibody Nb8, revealing key residues critical for structural stability and binding to HigB2.

bioRxiv · Jul 2, 2023 · PreprintBiochemistry

Molecular mechanism underlying the increased risk of colorectal cancer metastasis caused by single nucleotide polymorphisms in LI-cadherin gene

A. Yui, D. Kuroda, T. Maruno, M. Nakakido, S. Nagatoishi, S. Uchiyama, K. Tsumoto

This study investigates how SNPs in the LI-cadherin gene affect cancer metastasis by weakening cell-cell adhesion through reduced homodimerization and altered hydrogen bonding.

bioRxiv · Oct 2, 2022 · PreprintBiochemistry

Biophysical insight into protein-protein interactions in the Interleukin-11/Interleukin-11Rα/glycoprotein 130 signaling complex

C. Mori, S. Nagatoishi, R. Matsunaga, D. Kuroda, M. Nakakido, K. Tsumoto

This study compares the molecular interactions of the IL-11/IL-11R/gp130 complex with IL-6/IL-6R/gp130, revealing differences in thermodynamics and domain involvement that may explain distinct biological functions.

bioRxiv · Jul 14, 2022Biochemistry

Dimerization mechanism and structural features of human LI-cadherin

A. Yui, J. M. M. Caaveiro, D. Kuroda, M. Nakakido, S. Nagatoishi, S. Goda, T. Maruno, S. Uchiyama, K. Tsumoto

This study determines the crystal structure of LI-cadherin EC1-4 homodimer and shows its unique architecture and noncanonical calcium ion-free linker, revealing the mechanism of homodimerization essential for cell adhesion.

bioRxiv · Sep 18, 2020Biochemistry

Repertoire analysis of antibody CDR-H3 loops suggests affinity maturation does not typically result in rigidification

J. R. Jeliazkov, A. Sljoka, D. Kuroda, N. Tsuchimura, N. Katoh, K. Tsumoto, J. J. Gray

The paper analyzes the flexibility of CDR-H3 loops in antibodies to assess if affinity maturation leads to rigidification, finding only a slight decrease in flexibility.

bioRxiv · Dec 8, 2017Biophysics