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For: Hansen S, Tremmel D, Madhurantakam C, Reichen C, Mittl PRE, Plückthun A. Structure and Energetic Contributions of a Designed Modular Peptide-Binding Protein with Picomolar Affinity. J Am Chem Soc 2016;138:3526-32. [DOI: 10.1021/jacs.6b00099] [Citation(s) in RCA: 22] [Impact Index Per Article: 2.4] [Reference Citation Analysis] [What about the content of this article? (0)] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/08/2023]
Number Cited by Other Article(s)
1
Wu K, Jiang H, Hicks DR, Liu C, Muratspahić E, Ramelot TA, Liu Y, McNally K, Kenny S, Mihut A, Gaur A, Coventry B, Chen W, Bera AK, Kang A, Gerben S, Lamb MYL, Murray A, Li X, Kennedy MA, Yang W, Song Z, Schober G, Brierley SM, O'Neill J, Gelb MH, Montelione GT, Derivery E, Baker D. Design of intrinsically disordered region binding proteins. BIORXIV : THE PREPRINT SERVER FOR BIOLOGY 2025:2024.07.15.603480. [PMID: 39071356 PMCID: PMC11275711 DOI: 10.1101/2024.07.15.603480] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Indexed: 07/30/2024]
2
Stark Y, Menard F, Jeliazkov JR, Ernst P, Chembath A, Ashraf M, Hine AV, Plückthun A. Modular binder technology by NGS-aided, high-resolution selection in yeast of designed armadillo modules. Proc Natl Acad Sci U S A 2024;121:e2318198121. [PMID: 38917007 PMCID: PMC11228518 DOI: 10.1073/pnas.2318198121] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/03/2023] [Accepted: 05/07/2024] [Indexed: 06/27/2024]  Open
3
Cucuzza S, Sitnik M, Jurt S, Michel E, Dai W, Müntener T, Ernst P, Häussinger D, Plückthun A, Zerbe O. Unexpected dynamics in femtomolar complexes of binding proteins with peptides. Nat Commun 2023;14:7823. [PMID: 38016954 PMCID: PMC10684580 DOI: 10.1038/s41467-023-43596-2] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/18/2023] [Accepted: 11/13/2023] [Indexed: 11/30/2023]  Open
4
Kynast JP, Höcker B. Atligator Web: A Graphical User Interface for Analysis and Design of Protein-Peptide Interactions. BIODESIGN RESEARCH 2023;5:0011. [PMID: 37849459 PMCID: PMC10521702 DOI: 10.34133/bdr.0011] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/23/2022] [Accepted: 04/14/2023] [Indexed: 10/19/2023]  Open
5
Wu K, Bai H, Chang YT, Redler R, McNally KE, Sheffler W, Brunette TJ, Hicks DR, Morgan TE, Stevens TJ, Broerman A, Goreshnik I, DeWitt M, Chow CM, Shen Y, Stewart L, Derivery E, Silva DA, Bhabha G, Ekiert DC, Baker D. De novo design of modular peptide-binding proteins by superhelical matching. Nature 2023;616:581-589. [PMID: 37020023 PMCID: PMC10115654 DOI: 10.1038/s41586-023-05909-9] [Citation(s) in RCA: 37] [Impact Index Per Article: 18.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/10/2022] [Accepted: 03/01/2023] [Indexed: 04/07/2023]
6
Michel E, Cucuzza S, Mittl PRE, Zerbe O, Plückthun A. Improved Repeat Protein Stability by Combined Consensus and Computational Protein Design. Biochemistry 2023;62:318-329. [PMID: 35657362 DOI: 10.1021/acs.biochem.2c00083] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/02/2023]
7
Kynast JP, Schwägerl F, Höcker B. ATLIGATOR: editing protein interactions with an atlas-based approach. Bioinformatics 2022;38:5199-5205. [PMID: 36259946 PMCID: PMC9710554 DOI: 10.1093/bioinformatics/btac685] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 02/01/2022] [Revised: 09/24/2022] [Accepted: 10/17/2022] [Indexed: 12/24/2022]  Open
8
Rowling PJE, Murton BL, Du Z, Itzhaki LS. Multivalent Interaction of Beta-Catenin With its Intrinsically Disordered Binding Partner Adenomatous Polyposis Coli. Front Mol Biosci 2022;9:896493. [PMID: 35755812 PMCID: PMC9214244 DOI: 10.3389/fmolb.2022.896493] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/15/2022] [Accepted: 05/02/2022] [Indexed: 11/13/2022]  Open
9
Gisdon FJ, Kynast JP, Ayyildiz M, Hine AV, Plückthun A, Höcker B. Modular peptide binders - development of a predictive technology as alternative for reagent antibodies. Biol Chem 2022;403:535-543. [PMID: 35089661 DOI: 10.1515/hsz-2021-0384] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/30/2021] [Accepted: 01/11/2022] [Indexed: 11/15/2022]
10
Cucuzza S, Güntert P, Plückthun A, Zerbe O. An automated iterative approach for protein structure refinement using pseudocontact shifts. JOURNAL OF BIOMOLECULAR NMR 2021;75:319-334. [PMID: 34338940 PMCID: PMC8473369 DOI: 10.1007/s10858-021-00376-8] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 03/17/2021] [Accepted: 07/19/2021] [Indexed: 05/02/2023]
11
Delucchi M, Näf P, Bliven S, Anisimova M. TRAL 2.0: Tandem Repeat Detection With Circular Profile Hidden Markov Models and Evolutionary Aligner. FRONTIERS IN BIOINFORMATICS 2021;1:691865. [PMID: 36303789 PMCID: PMC9581039 DOI: 10.3389/fbinf.2021.691865] [Citation(s) in RCA: 7] [Impact Index Per Article: 1.8] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/07/2021] [Accepted: 06/11/2021] [Indexed: 11/13/2022]  Open
12
Ernst P, Zosel F, Reichen C, Nettels D, Schuler B, Plückthun A. Structure-Guided Design of a Peptide Lock for Modular Peptide Binders. ACS Chem Biol 2020;15:457-468. [PMID: 31985201 DOI: 10.1021/acschembio.9b00928] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/23/2022]
13
Ernst P, Honegger A, van der Valk F, Ewald C, Mittl PRE, Plückthun A. Rigid fusions of designed helical repeat binding proteins efficiently protect a binding surface from crystal contacts. Sci Rep 2019;9:16162. [PMID: 31700118 PMCID: PMC6838082 DOI: 10.1038/s41598-019-52121-9] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/17/2019] [Accepted: 10/09/2019] [Indexed: 12/26/2022]  Open
14
Ernst P, Plückthun A, Mittl PRE. Structural analysis of biological targets by host:guest crystal lattice engineering. Sci Rep 2019;9:15199. [PMID: 31645583 PMCID: PMC6811568 DOI: 10.1038/s41598-019-51017-y] [Citation(s) in RCA: 15] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/15/2019] [Accepted: 09/23/2019] [Indexed: 11/17/2022]  Open
15
Perez-Riba A, Itzhaki LS. The tetratricopeptide-repeat motif is a versatile platform that enables diverse modes of molecular recognition. Curr Opin Struct Biol 2019;54:43-49. [PMID: 30708253 DOI: 10.1016/j.sbi.2018.12.004] [Citation(s) in RCA: 99] [Impact Index Per Article: 16.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/07/2018] [Revised: 12/09/2018] [Accepted: 12/12/2018] [Indexed: 01/05/2023]
16
Toxin Neutralization Using Alternative Binding Proteins. Toxins (Basel) 2019;11:toxins11010053. [PMID: 30658491 PMCID: PMC6356946 DOI: 10.3390/toxins11010053] [Citation(s) in RCA: 35] [Impact Index Per Article: 5.8] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/15/2018] [Revised: 01/07/2019] [Accepted: 01/12/2019] [Indexed: 12/20/2022]  Open
17
Michel E, Plückthun A, Zerbe O. Peptide binding affinity redistributes preassembled repeat protein fragments. Biol Chem 2018;400:395-404. [DOI: 10.1515/hsz-2018-0355] [Citation(s) in RCA: 3] [Impact Index Per Article: 0.4] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/24/2018] [Accepted: 11/21/2018] [Indexed: 01/21/2023]
18
Arranz-Gibert P, Prades R, Guixer B, Guerrero S, Araya E, Ciudad S, Kogan MJ, Giralt E, Teixidó M. HAI Peptide and Backbone Analogs-Validation and Enhancement of Biostability and Bioactivity of BBB Shuttles. Sci Rep 2018;8:17932. [PMID: 30560894 PMCID: PMC6298966 DOI: 10.1038/s41598-018-35938-8] [Citation(s) in RCA: 6] [Impact Index Per Article: 0.9] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/05/2017] [Accepted: 11/09/2018] [Indexed: 01/03/2023]  Open
19
Michel E, Plückthun A, Zerbe O. Peptide‐Guided Assembly of Repeat Protein Fragments. Angew Chem Int Ed Engl 2018. [DOI: 10.1002/ange.201713377] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/12/2022]
20
Michel E, Plückthun A, Zerbe O. Peptide-Guided Assembly of Repeat Protein Fragments. Angew Chem Int Ed Engl 2018;57:4576-4579. [DOI: 10.1002/anie.201713377] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.1] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/29/2017] [Indexed: 12/31/2022]
21
Curvature of designed armadillo repeat proteins allows modular peptide binding. J Struct Biol 2018;201:108-117. [DOI: 10.1016/j.jsb.2017.08.009] [Citation(s) in RCA: 9] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 04/20/2017] [Revised: 07/15/2017] [Accepted: 08/28/2017] [Indexed: 11/17/2022]
22
Designing repeat proteins: a modular approach to protein design. Curr Opin Struct Biol 2017;45:116-123. [DOI: 10.1016/j.sbi.2017.02.001] [Citation(s) in RCA: 28] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/23/2017] [Revised: 02/06/2017] [Accepted: 02/16/2017] [Indexed: 01/01/2023]
23
Hansen S, Kiefer JD, Madhurantakam C, Mittl PRE, Plückthun A. Structures of designed armadillo repeat proteins binding to peptides fused to globular domains. Protein Sci 2017;26:1942-1952. [PMID: 28691351 DOI: 10.1002/pro.3229] [Citation(s) in RCA: 8] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/16/2017] [Revised: 07/02/2017] [Accepted: 07/03/2017] [Indexed: 01/05/2023]
24
Kakoti A, Goswami P. Multifaceted analyses of the interactions between human heart type fatty acid binding protein and its specific aptamers. Biochim Biophys Acta Gen Subj 2017;1861:3289-3299. [PMID: 27545084 DOI: 10.1016/j.bbagen.2016.08.011] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/21/2016] [Revised: 07/20/2016] [Accepted: 08/17/2016] [Indexed: 12/26/2022]
25
Ernst P, Plückthun A. Advances in the design and engineering of peptide-binding repeat proteins. Biol Chem 2017;398:23-29. [DOI: 10.1515/hsz-2016-0233] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.5] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/12/2016] [Accepted: 08/23/2016] [Indexed: 11/15/2022]
26
Zeng K, Wang J, Sun Z, Li Q, Liao S, Zhao X, Zheng X. Rapid analysis of interaction between six drugs and β2 -adrenergic receptor by injection amount-dependent method. Biomed Chromatogr 2016;31. [PMID: 27859454 DOI: 10.1002/bmc.3897] [Citation(s) in RCA: 1] [Impact Index Per Article: 0.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/12/2016] [Revised: 11/01/2016] [Accepted: 11/10/2016] [Indexed: 12/26/2022]
27
Reichen C, Hansen S, Forzani C, Honegger A, Fleishman SJ, Zhou T, Parmeggiani F, Ernst P, Madhurantakam C, Ewald C, Mittl PR, Zerbe O, Baker D, Caflisch A, Plückthun A. Computationally Designed Armadillo Repeat Proteins for Modular Peptide Recognition. J Mol Biol 2016;428:4467-4489. [DOI: 10.1016/j.jmb.2016.09.012] [Citation(s) in RCA: 12] [Impact Index Per Article: 1.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 06/27/2016] [Revised: 09/12/2016] [Accepted: 09/13/2016] [Indexed: 10/21/2022]
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