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For: Khan MA, Islam MM, Kuroda Y. Analysis of protein aggregation kinetics using short amino acid peptide tags. Biochim Biophys Acta 2013;1834:2107-15. [PMID: 23811470 DOI: 10.1016/j.bbapap.2013.06.013] [Citation(s) in RCA: 25] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/18/2013] [Revised: 06/15/2013] [Accepted: 06/18/2013] [Indexed: 10/26/2022]
Number Cited by Other Article(s)
1
Kuroda Y. Biophysical studies of amorphous protein aggregation and in vivo immunogenicity. Biophys Rev 2022;14:1495-1501. [PMID: 36465085 PMCID: PMC9684872 DOI: 10.1007/s12551-022-01011-y] [Citation(s) in RCA: 7] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/30/2022] [Accepted: 10/26/2022] [Indexed: 11/27/2022]  Open
2
Qing R, Hao S, Smorodina E, Jin D, Zalevsky A, Zhang S. Protein Design: From the Aspect of Water Solubility and Stability. Chem Rev 2022;122:14085-14179. [PMID: 35921495 PMCID: PMC9523718 DOI: 10.1021/acs.chemrev.1c00757] [Citation(s) in RCA: 54] [Impact Index Per Article: 27.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/31/2021] [Indexed: 12/13/2022]
3
Lattice-model analysis of the effect of protein surface charge distribution on amorphous aggregation and condensation. Chem Phys Lett 2022. [DOI: 10.1016/j.cplett.2022.139767] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/21/2022]
4
Reverse Engineering Analysis of the High-Temperature Reversible Oligomerization and Amyloidogenicity of PSD95-PDZ3. Molecules 2022;27:molecules27092813. [PMID: 35566161 PMCID: PMC9103278 DOI: 10.3390/molecules27092813] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/14/2022] [Revised: 04/09/2022] [Accepted: 04/18/2022] [Indexed: 02/01/2023]  Open
5
A Multi-Disulfide Receptor-Binding Domain (RBD) of the SARS-CoV-2 Spike Protein Expressed in E. coli Using a SEP-Tag Produces Antisera Interacting with the Mammalian Cell Expressed Spike (S1) Protein. Int J Mol Sci 2022;23:ijms23031703. [PMID: 35163624 PMCID: PMC8835783 DOI: 10.3390/ijms23031703] [Citation(s) in RCA: 15] [Impact Index Per Article: 7.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/12/2021] [Revised: 01/20/2022] [Accepted: 01/21/2022] [Indexed: 12/14/2022]  Open
6
Functional expression of an echinocandin B deacylase from Actinoplanes utahensis in Escherichia coli. Int J Biol Macromol 2021;187:850-857. [PMID: 34339787 DOI: 10.1016/j.ijbiomac.2021.07.146] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/19/2021] [Revised: 07/10/2021] [Accepted: 07/21/2021] [Indexed: 11/20/2022]
7
Rahman N, Miura S, Okawa M, Kibria MG, Islam MM, Kuroda Y. Solubility Controlling Peptide Tags of Opposite Charges Generate a Bivalent Immune Response Against Dengue ED3 Serotypes 3 and 4. Front Immunol 2021;12:671590. [PMID: 34177912 PMCID: PMC8226127 DOI: 10.3389/fimmu.2021.671590] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/24/2021] [Accepted: 05/04/2021] [Indexed: 11/24/2022]  Open
8
Kibria MG, Fukutani A, Akazawa-Ogawa Y, Hagihara Y, Kuroda Y. Anti-EGFR VHH Antibody under Thermal Stress Is Better Solubilized with a Lysine than with an Arginine SEP Tag. Biomolecules 2021;11:biom11060810. [PMID: 34072518 PMCID: PMC8229009 DOI: 10.3390/biom11060810] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.7] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/16/2021] [Revised: 05/15/2021] [Accepted: 05/26/2021] [Indexed: 02/06/2023]  Open
9
Solution structure of Gaussia Luciferase with five disulfide bonds and identification of a putative coelenterazine binding cavity by heteronuclear NMR. Sci Rep 2020;10:20069. [PMID: 33208800 PMCID: PMC7674443 DOI: 10.1038/s41598-020-76486-4] [Citation(s) in RCA: 27] [Impact Index Per Article: 6.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/19/2020] [Accepted: 10/26/2020] [Indexed: 12/03/2022]  Open
10
Hall D. A simple method for modeling amyloid kinetics featuring position biased fiber breakage. Biophys Physicobiol 2020;17:30-35. [PMID: 33110736 PMCID: PMC7550252 DOI: 10.2142/biophysico.bsj-2020003] [Citation(s) in RCA: 4] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/13/2020] [Accepted: 03/12/2020] [Indexed: 12/01/2022]  Open
11
Nakamura S, Kibria MG, Unzai S, Kuroda Y, Kidokoro SI. Reversible Oligomerization and Reverse Hydrophobic Effect Induced by Isoleucine Tags Attached at the C-Terminus of a Simplified BPTI Variant. Biochemistry 2020;59:3660-3668. [PMID: 32924442 DOI: 10.1021/acs.biochem.0c00436] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
12
Rahman N, Islam MM, Kibria MG, Unzai S, Kuroda Y. A systematic mutational analysis identifies a 5-residue proline tag that enhances the in vivo immunogenicity of a non-immunogenic model protein. FEBS Open Bio 2020;10:1947-1956. [PMID: 33017095 PMCID: PMC7530378 DOI: 10.1002/2211-5463.12941] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/01/2020] [Revised: 07/01/2020] [Accepted: 07/23/2020] [Indexed: 12/24/2022]  Open
13
Rahman N, Islam MM, Unzai S, Miura S, Kuroda Y. Nanometer-Sized Aggregates Generated Using Short Solubility Controlling Peptide Tags Do Increase the In Vivo Immunogenicity of a Nonimmunogenic Protein. Mol Pharm 2020;17:1629-1637. [DOI: 10.1021/acs.molpharmaceut.0c00071] [Citation(s) in RCA: 9] [Impact Index Per Article: 2.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
14
Islam MM, Miura S, Hasan MN, Rahman N, Kuroda Y. Anti-Dengue ED3 Long-Term Immune Response With T-Cell Memory Generated Using Solubility Controlling Peptide Tags. Front Immunol 2020;11:333. [PMID: 32256488 PMCID: PMC7089932 DOI: 10.3389/fimmu.2020.00333] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/26/2019] [Accepted: 02/10/2020] [Indexed: 12/23/2022]  Open
15
Fulcher JM, Petersen ME, Giesler RJ, Cruz ZS, Eckert DM, Francis JN, Kawamoto EM, Jacobsen MT, Kay MS. Chemical synthesis of Shiga toxin subunit B using a next-generation traceless "helping hand" solubilizing tag. Org Biomol Chem 2019;17:10237-10244. [PMID: 31793605 DOI: 10.1039/c9ob02012h] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/29/2022]
16
Masuda S, Tsuda S, Yoshiya T. A trimethyllysine-containing trityl tag for solubilizing hydrophobic peptides. Org Biomol Chem 2019;17:10228-10236. [PMID: 31782417 DOI: 10.1039/c9ob02253h] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/12/2023]
17
Large-scale all-atom molecular dynamics alanine-scanning of IAPP octapeptides provides insights into the molecular determinants of amyloidogenicity. Sci Rep 2019;9:2530. [PMID: 30792475 PMCID: PMC6384915 DOI: 10.1038/s41598-018-38401-w] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/31/2018] [Accepted: 12/11/2018] [Indexed: 12/11/2022]  Open
18
Nautiyal K, Kibria MG, Akazawa-Ogawa Y, Hagihara Y, Kuroda Y. Design and assessment of an active anti-epidermal growth factor receptor (EGFR) single chain variable fragment (ScFv) with improved solubility. Biochem Biophys Res Commun 2018;508:1043-1049. [PMID: 30551882 DOI: 10.1016/j.bbrc.2018.11.170] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/02/2018] [Accepted: 11/27/2018] [Indexed: 12/30/2022]
19
Isogai Y, Imamura H, Nakae S, Sumi T, Takahashi KI, Nakagawa T, Tsuneshige A, Shirai T. Tracing whale myoglobin evolution by resurrecting ancient proteins. Sci Rep 2018;8:16883. [PMID: 30442991 PMCID: PMC6237822 DOI: 10.1038/s41598-018-34984-6] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/04/2018] [Accepted: 10/29/2018] [Indexed: 11/24/2022]  Open
20
Paraskevopoulou V, Falcone FH. Polyionic Tags as Enhancers of Protein Solubility in Recombinant Protein Expression. Microorganisms 2018;6:microorganisms6020047. [PMID: 29882886 PMCID: PMC6027335 DOI: 10.3390/microorganisms6020047] [Citation(s) in RCA: 69] [Impact Index Per Article: 11.5] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/09/2018] [Revised: 05/16/2018] [Accepted: 05/21/2018] [Indexed: 12/30/2022]  Open
21
Nautiyal K, Kuroda Y. A SEP tag enhances the expression, solubility and yield of recombinant TEV protease without altering its activity. N Biotechnol 2018;42:77-84. [DOI: 10.1016/j.nbt.2018.02.006] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/17/2017] [Revised: 01/16/2018] [Accepted: 02/09/2018] [Indexed: 10/18/2022]
22
Biophysical studies of protein solubility and amorphous aggregation by systematic mutational analysis and a helical polymerization model. Biophys Rev 2018;10:473-480. [PMID: 29302914 DOI: 10.1007/s12551-017-0342-y] [Citation(s) in RCA: 12] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/26/2017] [Accepted: 11/13/2017] [Indexed: 01/04/2023]  Open
23
Kabir MG, Islam MM, Kuroda Y. Reversible association of proteins into sub-visible amorphous aggregates using short solubility controlling peptide tags. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2017;1866:366-372. [PMID: 28951312 DOI: 10.1016/j.bbapap.2017.09.012] [Citation(s) in RCA: 10] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 04/17/2017] [Revised: 09/01/2017] [Accepted: 09/21/2017] [Indexed: 01/04/2023]
24
Jozawa H, Kabir MG, Zako T, Maeda M, Chiba K, Kuroda Y. Amorphous protein aggregation monitored using fluorescence self-quenching. FEBS Lett 2016;590:3501-3509. [DOI: 10.1002/1873-3468.12439] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2016] [Revised: 08/31/2016] [Accepted: 09/18/2016] [Indexed: 11/11/2022]
25
All-atom molecular dynamics analysis of multi-peptide systems reproduces peptide solubility in line with experimental observations. Sci Rep 2016;6:19479. [PMID: 26817663 PMCID: PMC4730209 DOI: 10.1038/srep19479] [Citation(s) in RCA: 26] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/04/2015] [Accepted: 12/14/2015] [Indexed: 12/03/2022]  Open
26
Wu N, Rathnayaka T, Kuroda Y. Bacterial expression and re-engineering of Gaussia princeps luciferase and its use as a reporter protein. BIOCHIMICA ET BIOPHYSICA ACTA-PROTEINS AND PROTEOMICS 2015;1854:1392-9. [PMID: 26025768 DOI: 10.1016/j.bbapap.2015.05.008] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/31/2015] [Revised: 04/24/2015] [Accepted: 05/15/2015] [Indexed: 12/21/2022]
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