Format
Sort by
Items per page

Send to

Choose Destination

Search results

Items: 32

1.

An epitope-directed antibody affinity maturation system utilizing mammalian cell survival as readout.

Eguchi A, Nakakido M, Nagatoishi S, Kuroda D, Tsumoto K, Nagamune T, Kawahara M.

Biotechnol Bioeng. 2019 Jul;116(7):1742-1751. doi: 10.1002/bit.26965. Epub 2019 Mar 29.

PMID:
30883677
2.

Exploring designability of electrostatic complementarity at an antigen-antibody interface directed by mutagenesis, biophysical analysis, and molecular dynamics simulations.

Yoshida K, Kuroda D, Kiyoshi M, Nakakido M, Nagatoishi S, Soga S, Shirai H, Tsumoto K.

Sci Rep. 2019 Mar 14;9(1):4482. doi: 10.1038/s41598-019-40461-5.

3.

Generation and characterization of antagonistic anti-human interleukin (IL)-18 monoclonal antibodies with high affinity: Two types of monoclonal antibodies against full-length IL-18 and the neoepitope of inflammatory caspase-cleaved active IL-18.

Nariai Y, Kamino H, Obayashi E, Kato H, Sakashita G, Sugiura T, Migita K, Koga T, Kawakami A, Sakamoto K, Kadomatsu K, Nakakido M, Tsumoto K, Urano T.

Arch Biochem Biophys. 2019 Mar 15;663:71-82. doi: 10.1016/j.abb.2019.01.001. Epub 2019 Jan 4.

4.

Affinity Improvement of a Cancer-Targeted Antibody through Alanine-Induced Adjustment of Antigen-Antibody Interface.

Yamashita T, Mizohata E, Nagatoishi S, Watanabe T, Nakakido M, Iwanari H, Mochizuki Y, Nakayama T, Kado Y, Yokota Y, Matsumura H, Kawamura T, Kodama T, Hamakubo T, Inoue T, Fujitani H, Tsumoto K.

Structure. 2019 Mar 5;27(3):519-527.e5. doi: 10.1016/j.str.2018.11.002. Epub 2018 Dec 27.

PMID:
30595454
5.

Molecular basis for governing the morphology of type-I collagen fibrils by Osteomodulin.

Tashima T, Nagatoishi S, Caaveiro JMM, Nakakido M, Sagara H, Kusano-Arai O, Iwanari H, Mimuro H, Hamakubo T, Ohnuma SI, Tsumoto K.

Commun Biol. 2018 Apr 19;1:33. doi: 10.1038/s42003-018-0038-2. eCollection 2018.

6.

Structural behavior of keratin-associated protein 8.1 in human hair as revealed by a monoclonal antibody.

Akiba H, Ikeuchi E, Ganbat J, Fujikawa H, Arai-Kusano O, Iwanari H, Nakakido M, Hamakubo T, Shimomura Y, Tsumoto K.

J Struct Biol. 2018 Nov;204(2):207-214. doi: 10.1016/j.jsb.2018.08.011. Epub 2018 Aug 18.

PMID:
30125694
7.

Improvement of antibody affinity by introduction of basic amino acid residues into the framework region.

Fukunaga A, Maeta S, Reema B, Nakakido M, Tsumoto K.

Biochem Biophys Rep. 2018 Jul 14;15:81-85. doi: 10.1016/j.bbrep.2018.07.005. eCollection 2018 Sep.

8.

Discovery and Optimization of Inhibitors of the Parkinson's Disease Associated Protein DJ-1.

Tashiro S, Caaveiro JMM, Nakakido M, Tanabe A, Nagatoishi S, Tamura Y, Matsuda N, Liu D, Hoang QQ, Tsumoto K.

ACS Chem Biol. 2018 Sep 21;13(9):2783-2793. doi: 10.1021/acschembio.8b00701. Epub 2018 Aug 15.

9.

Tyrosine Sulfation Restricts the Conformational Ensemble of a Flexible Peptide, Strengthening the Binding Affinity for an Antibody.

Miyanabe K, Yamashita T, Abe Y, Akiba H, Takamatsu Y, Nakakido M, Hamakubo T, Ueda T, Caaveiro JMM, Tsumoto K.

Biochemistry. 2018 Jul 17;57(28):4177-4185. doi: 10.1021/acs.biochem.8b00592. Epub 2018 Jul 5.

PMID:
29936828
10.

Intramolecular H-bonds govern the recognition of a flexible peptide by an antibody.

Miyanabe K, Akiba H, Kuroda D, Nakakido M, Kusano-Arai O, Iwanari H, Hamakubo T, Caaveiro JMM, Tsumoto K.

J Biochem. 2018 Jul 1;164(1):65-76. doi: 10.1093/jb/mvy032.

PMID:
29924367
11.

Production and characterization of a novel site-specific-modifiable anti-OX40-receptor single-chain variable fragment for targeted drug delivery.

Tanabe A, Nakano K, Nakakido M, Nagatoishi S, Tanaka Y, Tsumoto K, Uchimaru K, Watanabe T.

Biochem Biophys Res Commun. 2018 Feb 5;496(2):614-620. doi: 10.1016/j.bbrc.2018.01.051. Epub 2018 Jan 9.

PMID:
29330050
12.

Thermodynamic analyses of amino acid residues at the interface of an antibody B2212A and its antigen roundabout homolog 1.

Yui A, Akiba H, Kudo S, Nakakido M, Nagatoishi S, Tsumoto K.

J Biochem. 2017 Oct 1;162(4):255-258. doi: 10.1093/jb/mvx050.

PMID:
28981752
13.

Regulation of poly(ADP-Ribose) polymerase 1 functions by post-translational modifications.

Piao L, Fujioka K, Nakakido M, Hamamoto R.

Front Biosci (Landmark Ed). 2018 Jan 1;23:13-26. Review.

14.

Biophysical characterization of the interaction between heme and proteins responsible for heme transfer in Streptococcus pyogenes.

Hoshino M, Nakakido M, Nagatoishi S, Aikawa C, Nakagawa I, Tsumoto K.

Biochem Biophys Res Commun. 2017 Nov 18;493(2):1109-1114. doi: 10.1016/j.bbrc.2017.09.055. Epub 2017 Sep 14.

PMID:
28919415
15.

SMYD3-mediated lysine methylation in the PH domain is critical for activation of AKT1.

Yoshioka Y, Suzuki T, Matsuo Y, Nakakido M, Tsurita G, Simone C, Watanabe T, Dohmae N, Nakamura Y, Hamamoto R.

Oncotarget. 2016 Nov 15;7(46):75023-75037. doi: 10.18632/oncotarget.11898.

16.

Phosphatidylinositol glycan anchor biosynthesis, class X containing complex promotes cancer cell proliferation through suppression of EHD2 and ZIC1, putative tumor suppressors.

Nakakido M, Tamura K, Chung S, Ueda K, Fujii R, Kiyotani K, Nakamura Y.

Int J Oncol. 2016 Sep;49(3):868-76. doi: 10.3892/ijo.2016.3607. Epub 2016 Jul 6.

17.

Automethylation of SUV39H2, an oncogenic histone lysine methyltransferase, regulates its binding affinity to substrate proteins.

Piao L, Nakakido M, Suzuki T, Dohmae N, Nakamura Y, Hamamoto R.

Oncotarget. 2016 Apr 19;7(16):22846-56. doi: 10.18632/oncotarget.8072.

18.

PRMT1 promotes mitosis of cancer cells through arginine methylation of INCENP.

Deng X, Von Keudell G, Suzuki T, Dohmae N, Nakakido M, Piao L, Yoshioka Y, Nakamura Y, Hamamoto R.

Oncotarget. 2015 Nov 3;6(34):35173-82. doi: 10.18632/oncotarget.6050.

19.

The LSD1 Family of Histone Demethylases and the Pumilio Posttranscriptional Repressor Function in a Complex Regulatory Feedback Loop.

Miles WO, Lepesant JM, Bourdeaux J, Texier M, Kerenyi MA, Nakakido M, Hamamoto R, Orkin SH, Dyson NJ, Di Stefano L.

Mol Cell Biol. 2015 Dec;35(24):4199-211. doi: 10.1128/MCB.00755-15. Epub 2015 Oct 5.

20.

PRMT6 increases cytoplasmic localization of p21CDKN1A in cancer cells through arginine methylation and makes more resistant to cytotoxic agents.

Nakakido M, Deng Z, Suzuki T, Dohmae N, Nakamura Y, Hamamoto R.

Oncotarget. 2015 Oct 13;6(31):30957-67. doi: 10.18632/oncotarget.5143.

21.

Dysregulation of AKT Pathway by SMYD2-Mediated Lysine Methylation on PTEN.

Nakakido M, Deng Z, Suzuki T, Dohmae N, Nakamura Y, Hamamoto R.

Neoplasia. 2015 Apr;17(4):367-73. doi: 10.1016/j.neo.2015.03.002.

22.

Structural features of interfacial tyrosine residue in ROBO1 fibronectin domain-antibody complex: Crystallographic, thermodynamic, and molecular dynamic analyses.

Nakayama T, Mizohata E, Yamashita T, Nagatoishi S, Nakakido M, Iwanari H, Mochizuki Y, Kado Y, Yokota Y, Satoh R, Tsumoto K, Fujitani H, Kodama T, Hamakubo T, Inoue T.

Protein Sci. 2015 Mar;24(3):328-40. doi: 10.1002/pro.2619. Epub 2015 Jan 13.

23.

Critical role of lysine 134 methylation on histone H2AX for γ-H2AX production and DNA repair.

Sone K, Piao L, Nakakido M, Ueda K, Jenuwein T, Nakamura Y, Hamamoto R.

Nat Commun. 2014 Dec 9;5:5691. doi: 10.1038/ncomms6691.

24.

WHSC1 promotes oncogenesis through regulation of NIMA-related kinase-7 in squamous cell carcinoma of the head and neck.

Saloura V, Cho HS, Kiyotani K, Alachkar H, Zuo Z, Nakakido M, Tsunoda T, Seiwert T, Lingen M, Licht J, Nakamura Y, Hamamoto R.

Mol Cancer Res. 2015 Feb;13(2):293-304. doi: 10.1158/1541-7786.MCR-14-0292-T. Epub 2014 Oct 3.

25.

Protective effect of the long pentraxin PTX3 against histone-mediated endothelial cell cytotoxicity in sepsis.

Daigo K, Nakakido M, Ohashi R, Fukuda R, Matsubara K, Minami T, Yamaguchi N, Inoue K, Jiang S, Naito M, Tsumoto K, Hamakubo T.

Sci Signal. 2014 Sep 16;7(343):ra88. doi: 10.1126/scisignal.2005522.

PMID:
25227610
26.

SMYD2-dependent HSP90 methylation promotes cancer cell proliferation by regulating the chaperone complex formation.

Hamamoto R, Toyokawa G, Nakakido M, Ueda K, Nakamura Y.

Cancer Lett. 2014 Aug 28;351(1):126-33. doi: 10.1016/j.canlet.2014.05.014. Epub 2014 May 28.

PMID:
24880080
27.

The staphylococcal elastin-binding protein regulates zinc-dependent growth/biofilm formation.

Nakakido M, Aikawa C, Nakagawa I, Tsumoto K.

J Biochem. 2014 Sep;156(3):155-62. doi: 10.1093/jb/mvu027. Epub 2014 Apr 29.

PMID:
24787448
28.

Affinity improvement of a therapeutic antibody by structure-based computational design: generation of electrostatic interactions in the transition state stabilizes the antibody-antigen complex.

Kiyoshi M, Caaveiro JM, Miura E, Nagatoishi S, Nakakido M, Soga S, Shirai H, Kawabata S, Tsumoto K.

PLoS One. 2014 Jan 27;9(1):e87099. doi: 10.1371/journal.pone.0087099. eCollection 2014.

29.

To be excluded or to bind, that is the question: Arginine effects on proteins.

Nakakido M, Kudou M, Arakawa T, Tsumoto K.

Curr Pharm Biotechnol. 2009 Jun;10(4):415-20. Review.

PMID:
19519417
30.

Structure-based analysis reveals hydration changes induced by arginine hydrochloride.

Nakakido M, Tanaka Y, Mitsuhori M, Kudou M, Ejima D, Arakawa T, Tsumoto K.

Biophys Chem. 2008 Oct;137(2-3):105-9. doi: 10.1016/j.bpc.2008.07.009. Epub 2008 Aug 9.

PMID:
18725174
31.

Thermodynamic analysis reveals that GTP binding affects the interaction between the alpha- and gamma-subunits of translation initiation factor 2.

Nakakido M, Tanaka Y, Sokabe M, Tsumoto K.

Biochem Biophys Res Commun. 2008 Jul 11;371(4):596-9. doi: 10.1016/j.bbrc.2008.03.101. Epub 2008 Mar 31.

PMID:
18381064
32.

Supplemental Content

Loading ...
Support Center