1
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Cole CC, Walker DR, Hulgan SAH, Pogostin BH, Swain JWR, Miller MD, Xu W, Duella R, Misiura M, Wang X, Kolomeisky AB, Philips GN, Hartgerink JD. Heterotrimeric collagen helix with high specificity of assembly results in a rapid rate of folding. Nat Chem 2024:10.1038/s41557-024-01573-2. [PMID: 39009792 DOI: 10.1038/s41557-024-01573-2] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/28/2023] [Accepted: 06/06/2024] [Indexed: 07/17/2024]
Abstract
The most abundant natural collagens form heterotrimeric triple helices. Synthetic mimics of collagen heterotrimers have been found to fold slowly, even compared to the already slow rates of homotrimeric helices. These prolonged folding rates are not understood. Here we compare the stabilities, specificities and folding rates of three heterotrimeric collagen mimics designed through a computationally assisted approach. The crystal structure of one ABC-type heterotrimer verified a well-controlled composition and register and elucidated the geometry of pairwise cation-π and axial and lateral salt bridges in the assembly. This collagen heterotrimer folds much faster (hours versus days) than comparable, well-designed systems. Circular dichroism and NMR data suggest the folding is frustrated by unproductive, competing heterotrimer species and these species must unwind before refolding into the thermodynamically favoured assembly. The heterotrimeric collagen folding rate is inhibited by the introduction of preformed competing triple-helical assemblies, which suggests that slow heterotrimer folding kinetics are dominated by the frustration of the energy landscape caused by competing triple helices.
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Affiliation(s)
- Carson C Cole
- Department of Chemistry, Rice University, Houston, TX, USA
| | | | | | | | | | | | - Weijun Xu
- Department of Biosciences, Rice University, Houston, TX, USA
| | - Ryan Duella
- Department of Chemistry, Rice University, Houston, TX, USA
| | - Mikita Misiura
- Department of Chemistry, Rice University, Houston, TX, USA
| | - Xu Wang
- Shared Equipment Authority, Rice University, Houston, TX, USA
| | - Anatoly B Kolomeisky
- Department of Chemistry, Rice University, Houston, TX, USA
- Department of Chemical and Biomolecular Engineering, Rice University, Houston, TX, USA
- Department of Physics and Astronomy, Rice University, Houston, TX, USA
| | - George N Philips
- Department of Chemistry, Rice University, Houston, TX, USA
- Department of Biosciences, Rice University, Houston, TX, USA
| | - Jeffrey D Hartgerink
- Department of Chemistry, Rice University, Houston, TX, USA.
- Department of Bioengineering, Rice University, Houston, TX, USA.
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2
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Islami V, Bittner P, Fiala T, Hentzen NB, Zenobi R, Wennemers H. Self-Sorting Collagen Heterotrimers. J Am Chem Soc 2024; 146:1789-1793. [PMID: 38156954 DOI: 10.1021/jacs.3c12295] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/03/2024]
Abstract
Nature uses elaborate methods to control protein assembly, including that of heterotrimeric collagen. Here, we established design principles for the composition and register-selective assembly of synthetic collagen heterotrimers. The assembly code enabled the self-sorting of eight different strands into three─out of 512 possible─triple helices via complementary (4S)-aminoproline and aspartate residues. Native ESI-MS corroborated the specific assembly into coexisting heterotrimers.
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Affiliation(s)
- Valdrin Islami
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zurich, Switzerland
| | - Philipp Bittner
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zurich, Switzerland
| | - Tomas Fiala
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zurich, Switzerland
| | - Nina B Hentzen
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zurich, Switzerland
| | - Renato Zenobi
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zurich, Switzerland
| | - Helma Wennemers
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zurich, Switzerland
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3
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Tanrikulu IC, Dang L, Nelavelli L, Ellison AJ, Olsen BD, Jin S, Raines RT. Synthetic Collagen Hydrogels through Symmetric Self-Assembly of Small Peptides. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2024; 11:e2303228. [PMID: 37997193 PMCID: PMC10797479 DOI: 10.1002/advs.202303228] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Subscribe] [Scholar Register] [Received: 05/18/2023] [Revised: 10/10/2023] [Indexed: 11/25/2023]
Abstract
Animal-sourced hydrogels, such as collagen, are widely used as extracellular-matrix (ECM) mimics in tissue engineering but are plagued with problems of reproducibility, immunogenicity, and contamination. Synthetic, chemically defined hydrogels can avoid such issues. Despite the abundance of collagen in the ECM, synthetic collagen hydrogels are extremely rare due to design challenges brought on by the triple-helical structure of collagen. Sticky-ended symmetric self-assembly (SESSA) overcomes these challenges by maximizing interactions between the strands of the triple helix, allowing the assembly of collagen-mimetic peptides (CMPs) into robust synthetic collagen nanofibers. This optimization, however, also minimizes interfiber contacts. In this work, symmetric association states for the SESSA of short CMPs to probe their increased propensity for interfiber association are modelled. It is found that 33-residue CMPs not only self-assemble through sticky ends, but also form hydrogels. These self-assemblies behave with remarkable consistency across multiple scales and present a clear link between their triple-helical architecture and the properties of their hydrogels. The results show that SESSA is an effective and robust design methodology that enables the rational design of synthetic collagen hydrogels.
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Affiliation(s)
- I. Caglar Tanrikulu
- Department of ChemistryMassachusetts Institute of TechnologyCambridgeMA02139USA
| | - Lianna Dang
- Department of ChemistryUniversity of Wisconsin–MadisonMadisonWI53706USA
| | - Lekha Nelavelli
- Department of ChemistryUniversity of Wisconsin–MadisonMadisonWI53706USA
| | - Aubrey J. Ellison
- Department of ChemistryUniversity of Wisconsin–MadisonMadisonWI53706USA
| | - Bradley D. Olsen
- Department of Chemical EngineeringMassachusetts Institute of TechnologyCambridgeMA02139USA
| | - Song Jin
- Department of ChemistryUniversity of Wisconsin–MadisonMadisonWI53706USA
| | - Ronald T. Raines
- Department of ChemistryMassachusetts Institute of TechnologyCambridgeMA02139USA
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4
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Cole CC, Yu LT, Misiura M, Williams J, Bui TH, Hartgerink JD. Stabilization of Synthetic Collagen Triple Helices: Charge Pairs and Covalent Capture. Biomacromolecules 2023; 24:5083-5090. [PMID: 37871141 DOI: 10.1021/acs.biomac.3c00680] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 10/25/2023]
Abstract
Collagen mimetic peptides are composed of triple helices. Triple helical formation frequently utilizes charge pair interactions to direct protein assembly. The design of synthetic triple helices is challenging due to the large number of competing species and the overall fragile nature of collagen mimetics. A successfully designed triple helix incorporates both positive and negative criteria to achieve maximum specificity of the supramolecular assembly. Intrahelical charge pair interactions, particularly those involved in lysine-aspartate and lysine-glutamate pairs, have been especially successful both in driving helix specificity and for subsequent stabilization by covalent capture. Despite this progress, the important sequential and geometric relationships of charged residues in a triple helical context have not been fully explored for either supramolecular assembly or covalent capture stabilization. In this study, we compare the eight canonical axial and lateral charge pairs of lysine and arginine with glutamate and aspartate to their noncanonical, reversed charge pairs. These findings are put into the context of collagen triple helical design and synthesis.
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Affiliation(s)
- Carson C Cole
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Le Tracy Yu
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Mikita Misiura
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Joseph Williams
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Thi H Bui
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
| | - Jeffrey D Hartgerink
- Department of Chemistry, Rice University, Houston, Texas 77005, United States
- Department of Bioengineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States
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5
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Li X, Zhang Q, Yu SM, Li Y. The Chemistry and Biology of Collagen Hybridization. J Am Chem Soc 2023; 145:10901-10916. [PMID: 37158802 PMCID: PMC10789224 DOI: 10.1021/jacs.3c00713] [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] [Indexed: 05/10/2023]
Abstract
Collagen provides mechanical and biological support for virtually all human tissues in the extracellular matrix (ECM). Its defining molecular structure, the triple-helix, could be damaged and denatured in disease and injuries. To probe collagen damage, the concept of collagen hybridization has been proposed, revised, and validated through a series of investigations reported as early as 1973: a collagen-mimicking peptide strand may form a hybrid triple-helix with the denatured chains of natural collagen but not the intact triple-helical collagen proteins, enabling assessment of proteolytic degradation or mechanical disruption to collagen within a tissue-of-interest. Here we describe the concept and development of collagen hybridization, summarize the decades of chemical investigations on rules underlying the collagen triple-helix folding, and discuss the growing biomedical evidence on collagen denaturation as a previously overlooked ECM signature for an array of conditions involving pathological tissue remodeling and mechanical injuries. Finally, we propose a series of emerging questions regarding the chemical and biological nature of collagen denaturation and highlight the diagnostic and therapeutic opportunities from its targeting.
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Affiliation(s)
- Xiaojing Li
- Guangdong Provincial Engineering Research Center of Molecular Imaging, Department of Radiology, Cardiac Surgery and Structural Heart Disease Unit of Cardiovascular Center, The Fifth Affiliated Hospital, Sun Yat-sen University, Zhuhai, 519000, China
| | - Qi Zhang
- Guangdong Provincial Engineering Research Center of Molecular Imaging, Department of Radiology, Cardiac Surgery and Structural Heart Disease Unit of Cardiovascular Center, The Fifth Affiliated Hospital, Sun Yat-sen University, Zhuhai, 519000, China
| | - S. Michael Yu
- Department of Biomedical Engineering, Department of Pharmaceutics and Pharmaceutical Chemistry, University of Utah, Salt Lake City, Utah 84112, United States
| | - Yang Li
- Guangdong Provincial Engineering Research Center of Molecular Imaging, Department of Radiology, Cardiac Surgery and Structural Heart Disease Unit of Cardiovascular Center, The Fifth Affiliated Hospital, Sun Yat-sen University, Zhuhai, 519000, China
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6
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Zhang Q, Li X, Huang K, Huang Y, Zhao S, Liu S, Li Y. Controlling the Trimerization of the Collagen Triple-Helix by Solvent Switching. Biomacromolecules 2023; 24:1689-1699. [PMID: 36967667 DOI: 10.1021/acs.biomac.2c01475] [Citation(s) in RCA: 1] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 03/29/2023]
Abstract
Collagen hybridizing peptides (CHPs) are a powerful tool for targeting collagen damage in pathological tissues due to their ability to specifically form a hybrid collagen triple-helix with the denatured collagen chains. However, CHPs have a strong tendency to self-trimerize, requiring preheating or complicated chemical modifications to dissociate their homotrimers into monomers, which hinders their applications. To control the self-assembly of CHP monomers, we evaluated the effects of 22 cosolvents on the triple-helix structure: unlike typical globular proteins, the CHP homotrimers (as well as the hybrid CHP-collagen triple helix) cannot be destabilized by the hydrophobic alcohols and detergents (e.g., SDS) but can be effectively dissociated by the cosolvents that dominate hydrogen bonds (e.g., urea, guanidinium salts, and hexafluoroisopropanol). Our study provided a reference for the solvent effects on natural collagen and a simple effective solvent-switch method, enabling CHP utilization in automated histopathology staining and in vivo imaging and targeting of collagen damage.
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7
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Peterson CM, Helterbrand MR, Hartgerink JD. Covalent Capture of a Collagen Mimetic Peptide with an Integrin-Binding Motif. Biomacromolecules 2022; 23:2396-2403. [PMID: 35446536 DOI: 10.1021/acs.biomac.2c00155] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/30/2022]
Abstract
Collagen mimetic peptides (CMPs) are an excellent model to study the structural and biological properties of the extracellular matrix (ECM) due to ease of synthesis and variability in sequence. To ensure that synthetic materials accurately mimic the structure and function of natural collagen in the ECM, it is necessary to conserve the triple helix. However, CMP folding is subject to equilibrium, and frequently peptides exist in solution as both monomer and triple helix. Additionally, the stability of CMPs is highly dependent on peptide length and amino acid composition, leading to suboptimal performance. Here, we report the utility of covalent capture, a method to (a) direct the folding of a supramolecular triple helix and (b) form isopeptide bonds between the helix strands, in the design of an integrin-binding peptide with a GFOGER motif. Covalent capture effectively locked the triple helix and yielded a peptide with high thermal stability and a rapid folding rate. Compared to supramolecular triple helices bearing the same GFOGER-binding site, cell adhesion was substantially increased. In vitro assays using EDTA/Mg2+ and an anti-α2β1 antibody demonstrated the preservation of the high specificity of the binding event. This covalently captured integrin-binding peptide provides a template for the future design of bioactive ECM mimics, which can overcome limitations of supramolecular approaches for potential drug and biomaterial designs.
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Affiliation(s)
- Caroline M Peterson
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Maia R Helterbrand
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Jeffrey D Hartgerink
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
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8
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Hulgan SAH, Hartgerink JD. Recent Advances in Collagen Mimetic Peptide Structure and Design. Biomacromolecules 2022; 23:1475-1489. [PMID: 35258280 DOI: 10.1021/acs.biomac.2c00028] [Citation(s) in RCA: 22] [Impact Index Per Article: 11.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/07/2023]
Abstract
Collagen mimetic peptides (CMPs) fold into a polyproline type II triple helix, allowing the study of the structure and function (or misfunction) of the collagen family of proteins. This Perspective will focus on recent developments in the use of CMPs toward understanding the structure and controlling the stability of the triple helix. Triple helix assembly is influenced by various factors, including the single amino acid propensity for the triple helix fold, pairwise interactions between these amino acids, and long-range effects observed across the helix, such as bend, twist, and fraying. Important progress in creating a comprehensive and predictive understanding of these factors for peptides with exclusively natural amino acids has been made. In contrast, several groups have successfully developed unnatural amino acids that are engineered to stabilize the triple helical structure. A third approach to controlling the triple helical structure includes covalent cross-linking of the triple helix to stabilize the assembly, which eliminates the problematic equilibrium of unfolding into monomers and enforces compositional control. Advances in all these areas have resulted in significant improvements to our understanding and control of this important class of protein, allowing for the design and application of more chemically complex and well-controlled collagen mimetic biomaterials.
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Affiliation(s)
- Sarah A H Hulgan
- Rice University, Department of Chemistry, 6100 Main Street, Houston, Texas 77005, United States
| | - Jeffrey D Hartgerink
- Rice University, Department of Chemistry, 6100 Main Street, Houston, Texas 77005, United States
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9
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Cutini M, Ugliengo P. Infrared harmonic features of collagen models at B3LYP-D3: From amide bands to the THz region. J Chem Phys 2021; 155:075102. [PMID: 34418922 DOI: 10.1063/5.0056422] [Citation(s) in RCA: 3] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/14/2022] Open
Abstract
In this paper, we have studied the vibrational spectral features for the collagen triple helix using a dispersion corrected hybrid density functional theory (DFT-D) approach. The protein is simulated by an infinite extended polymer both in the gas phase and in a water micro-solvated environment. We have adopted proline-rich collagen models in line with the high content of proline in natural collagens. Our scaled harmonic vibrational spectra are in very good agreement with the experiments and allow for the peak assignment of the collagen amide I and III bands, supporting or questioning the experimental interpretation by means of vibrational normal modes analysis. Furthermore, we demonstrated that IR spectroscopy in the THz region can detect the small variations inherent to the triple helix helicity (10/3 over 7/2), thus elucidating the packing state of the collagen. So far, identifying the collagen helicity is only possible by means of crystal x-ray diffraction.
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Affiliation(s)
- Michele Cutini
- Department of Chemistry and NIS (Nanostructured Interfaces and Surfaces) Center, University of Torino, Via P. Giuria 7, 10125 Turin, Italy
| | - Piero Ugliengo
- Department of Chemistry and NIS (Nanostructured Interfaces and Surfaces) Center, University of Torino, Via P. Giuria 7, 10125 Turin, Italy
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10
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Schnitzer T, Vantomme G. Synthesis of Complex Molecular Systems-The Foreseen Role of Organic Chemists. ACS CENTRAL SCIENCE 2020; 6:2060-2070. [PMID: 33274282 PMCID: PMC7706085 DOI: 10.1021/acscentsci.0c00974] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Abstract] [Track Full Text] [Subscribe] [Scholar Register] [Received: 07/23/2020] [Indexed: 05/09/2023]
Abstract
How to control the self-assembly of complex molecular systems is unknown. Yet, these complex molecular systems are fundamental for advances in material and biomedical sciences. A step forward is to transform one-step self-assembly into multistep synthesis involving covalent and noncovalent reactions. Key to this approach is to explore the chemical space at the frontiers of advanced covalent synthesis and supramolecular chemistry. Herein, we describe a selection of such reported cases and provide a guide for current limitations and insights for future directions. This outlook is meant to trigger collaborations between synthetic organic and supramolecular chemists, to expand the repertoire of organic syntheses working with supramolecular assemblies and thereby join forces to achieve stepwise emergence of molecular complexity in supramolecular systems.
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11
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Merg AD, Touponse G, Genderen EV, Blum TB, Zuo X, Bazrafshan A, Siaw HMH, McCanna A, Brian Dyer R, Salaita K, Abrahams JP, Conticello VP. Shape-Shifting Peptide Nanomaterials: Surface Asymmetry Enables pH-Dependent Formation and Interconversion of Collagen Tubes and Sheets. J Am Chem Soc 2020; 142:19956-19968. [DOI: 10.1021/jacs.0c08174] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Andrea D. Merg
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Gavin Touponse
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | | | | | - Xiaobing Zuo
- X-ray Science Division, Argonne National Laboratory, Lemont, Illinois 60439, United States
| | - Alisina Bazrafshan
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Hew Ming Helen Siaw
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Arthur McCanna
- The Robert P. Apkarian Integrated Electron Microscopy Core, Emory University, Atlanta, Georgia 30322, United States
| | - R. Brian Dyer
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Khalid Salaita
- Department of Chemistry, Emory University, Atlanta, Georgia 30322, United States
| | - Jan Pieter Abrahams
- Paul Scherrer Institut, CH-5232 Villigen, Switzerland
- Center for Cellular Imaging and NanoAnalytics, Biozentrum, University of Basel, CH-4058 Basel, Switzerland
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12
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Hulgan SAH, Jalan AA, Li IC, Walker DR, Miller MD, Kosgei AJ, Xu W, Phillips GN, Hartgerink JD. Covalent Capture of Collagen Triple Helices Using Lysine–Aspartate and Lysine–Glutamate Pairs. Biomacromolecules 2020; 21:3772-3781. [DOI: 10.1021/acs.biomac.0c00878] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/21/2022]
Affiliation(s)
- Sarah A. H. Hulgan
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Abhishek A. Jalan
- Department of Biochemistry, University of Bayreuth, Bayreuth 95447, Germany
| | - I-Che Li
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Douglas R. Walker
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Mitchell D. Miller
- Department of Biosciences, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Abigael J. Kosgei
- Department of Biosciences, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Weijun Xu
- Department of Biosciences, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - George N. Phillips
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
- Department of Biosciences, Rice University, 6100 Main Street, Houston, Texas 77005, United States
| | - Jeffrey D. Hartgerink
- Department of Chemistry, Rice University, 6100 Main Street, Houston, Texas 77005, United States
- Department of Bioengineering, Rice University, 6100 Main Street, Houston, Texas 77005, United States
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13
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Hernandez-Gordillo V, Kassis T, Lampejo A, Choi G, Gamboa ME, Gnecco JS, Brown A, Breault DT, Carrier R, Griffith LG. Fully synthetic matrices for in vitro culture of primary human intestinal enteroids and endometrial organoids. Biomaterials 2020; 254:120125. [PMID: 32502894 DOI: 10.1016/j.biomaterials.2020.120125] [Citation(s) in RCA: 86] [Impact Index Per Article: 21.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 12/31/2019] [Revised: 05/05/2020] [Accepted: 05/14/2020] [Indexed: 12/17/2022]
Abstract
Epithelial organoids derived from human donor tissues are important tools in fields ranging from regenerative medicine to drug discovery. Organoid culture requires expansion of stem/progenitor cells in Matrigel, a tumor-derived extracellular matrix (ECM). An alternative completely synthetic ECM could improve reproducibility, clarify mechanistic phenomena, and enable human implantation of organoids. We designed synthetic ECMs with tunable biomolecular and biophysical properties to identify gel compositions supporting human tissue-derived stem/progenitor epithelial cells as enteroids and organoids starting with single cells rather than tissue fragments. The synthetic ECMs consist of 8-arm PEG-macromers modified with ECM-binding peptides and different combinations of integrin-binding peptides, crosslinked with peptides susceptible to matrix metalloprotease (MMP) degradation, and tuned to exhibit a range of biophysical properties. A gel containing an α2β1 integrin-binding peptide (GFOGER) and matrix binder peptides grafted to a 20 kDa 8-arm PEG macromer showed the most robust support of human duodenal and colon enteroids and endometrial organoids. In this synthetic ECM, human intestinal enteroids and endometrial organoids emerge from single cells and show cell-specific and apicobasal polarity markers upon differentiation. Intestinal enteroids, in addition, retain their proliferative capacity, are functionally responsive to basolateral stimulation, express canonical markers of intestinal crypt cells including Paneth cells, and can be serially passaged. The success of this synthetic ECM in supporting human postnatal organoid culture from multiple different donors and from both the intestine and endometrium suggests it may be broadly useful for other epithelial organoid culture.
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Affiliation(s)
- Victor Hernandez-Gordillo
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA
| | - Timothy Kassis
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA
| | - Arinola Lampejo
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA
| | - GiHun Choi
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA
| | - Mario E Gamboa
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA
| | - Juan S Gnecco
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA
| | - Alexander Brown
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA
| | - David T Breault
- Deparment of Pediatrics, Harvard Medical School, 300 Longwood Avenue, Boston, MA, 02115, USA
| | - Rebecca Carrier
- Department of Chemical Engineering, Northeastern University, 208 Lake Hall, Boston, MA, 02115, USA
| | - Linda G Griffith
- Center for Gynepathology Research and Biological Engineering Department, Massachusetts Institute of Technology, 77 Massachusetts Avenue, Cambridge, MA, 02138, USA.
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14
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Abstract
Collagen is the most abundant protein in humans and the major component of human skin. Collagen mimetic peptides (CMPs) can anneal to damaged collagen in vitro and in vivo. A duplex of CMPs was envisioned as a macromolecular mimic for damaged collagen. The duplex was synthesized on a solid support from the amino groups of a lysine residue and by using olefin metathesis to link the N termini. The resulting cyclic peptide, which is a monomer in solution, binds to CMPs to form a triple helix. Among these, CMPs that are engineered to avoid the formation of homotrimers but preorganized to adopt the conformation of a collagen strand exhibit enhanced association. Thus, this cyclic peptide enables the assessment of CMPs for utility in annealing to damaged collagen. Such CMPs have potential use in the diagnosis and treatment of fibrotic diseases and wounds.
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Affiliation(s)
| | - I Caglar Tanrikulu
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Jesús M Dones
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
| | - Ronald T Raines
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
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15
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Hentzen NB, Islami V, Köhler M, Zenobi R, Wennemers H. A Lateral Salt Bridge for the Specific Assembly of an ABC-Type Collagen Heterotrimer. J Am Chem Soc 2020; 142:2208-2212. [DOI: 10.1021/jacs.9b13037] [Citation(s) in RCA: 13] [Impact Index Per Article: 3.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/07/2023]
Affiliation(s)
- Nina B. Hentzen
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093, Zurich, Switzerland
| | - Valdrin Islami
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093, Zurich, Switzerland
| | - Martin Köhler
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093, Zurich, Switzerland
| | - Renato Zenobi
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093, Zurich, Switzerland
| | - Helma Wennemers
- Laboratory of Organic Chemistry, ETH Zurich, D-CHAB, Vladimir-Prelog-Weg 3, 8093, Zurich, Switzerland
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16
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Tanrikulu IC, Westler WM, Ellison AJ, Markley JL, Raines RT. Templated Collagen "Double Helices" Maintain Their Structure. J Am Chem Soc 2020; 142:1137-1141. [PMID: 31895554 PMCID: PMC6995331 DOI: 10.1021/jacs.9b07583] [Citation(s) in RCA: 14] [Impact Index Per Article: 3.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/31/2023]
Abstract
The self-assembly of collagen-mimetic peptides (CMPs) that form sticky-ended triple helices has allowed the production of surprisingly stable artificial collagen fibers and hydrogels. Assembly through sticky ends requires the recognition of a single strand by a templated strand dimer. Although CMPs and their triple helices have been studied extensively, the structure of a strand dimer is unknown. Here, we evaluate the physical characteristics of such dimers, using disulfide-templated (PPG)10 dimers as a model. Such "linked-dimers" retain their collagen-like structure even in the absence of a third strand, but only when their strands are capable of adopting a triple-helical fold. The intrinsic collagen-like structure of templated CMP pairs helps to explain the success of sticky-ended CMP association and changes the conception of new synthetic collagen designs.
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Affiliation(s)
- I. Caglar Tanrikulu
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- Department of Biochemistry, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
| | - William M. Westler
- Department of Biochemistry, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
- NMRFAM, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
| | - Aubrey J. Ellison
- Department of Chemistry, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
| | - John L. Markley
- Department of Biochemistry, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
- NMRFAM, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
| | - Ronald T. Raines
- Department of Chemistry, Massachusetts Institute of Technology, Cambridge, Massachusetts 02139, United States
- Department of Biochemistry, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
- Department of Chemistry, University of Wisconsin–Madison, Madison, Wisconsin 53706, United States
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17
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Kubyshkin V. Stabilization of the triple helix in collagen mimicking peptides. Org Biomol Chem 2019; 17:8031-8047. [PMID: 31464337 DOI: 10.1039/c9ob01646e] [Citation(s) in RCA: 21] [Impact Index Per Article: 4.2] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Collagen mimics are peptides designed to reproduce structural features of natural collagen. A triple helix is the first element in the hierarchy of collagen folding. It is an assembly of three parallel peptide chains stabilized by packing and interchain hydrogen bonds. In this review we summarize the existing chemical approaches towards stabilization of this structure including the most recent developments. Currently proposed methods include manipulation of the amino acid composition, application of unnatural amino acid analogues, stimuli-responsive modifications, chain tethering approaches, peptide amphiphiles, modifications that target interchain interactions and more. This ability to manipulate the triple helix as a supramolecular self-assembly contributes to our understanding of the collagen folding. It also provides essential information needed to design collagen-based biomaterials of the future.
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Affiliation(s)
- Vladimir Kubyshkin
- Institute of Chemistry, University of Manitoba, Dysart Rd. 144, R3T 2N2, Winnipeg, Manitoba, Canada.
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18
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Cutini M, Bocus M, Ugliengo P. Decoding Collagen Triple Helix Stability by Means of Hybrid DFT Simulations. J Phys Chem B 2019; 123:7354-7364. [DOI: 10.1021/acs.jpcb.9b05222] [Citation(s) in RCA: 11] [Impact Index Per Article: 2.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/29/2022]
Affiliation(s)
- Michele Cutini
- University of Torino, Department of Chemistry and NIS (Nanostructured Interfaces and Surfaces) Center, Via P. Giuria 7, 10125 Turin, Italy
| | - Massimo Bocus
- University of Torino, Department of Chemistry and NIS (Nanostructured Interfaces and Surfaces) Center, Via P. Giuria 7, 10125 Turin, Italy
| | - Piero Ugliengo
- University of Torino, Department of Chemistry and NIS (Nanostructured Interfaces and Surfaces) Center, Via P. Giuria 7, 10125 Turin, Italy
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19
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Lou S, Wang X, Yu Z, Shi L. Peptide Tectonics: Encoded Structural Complementarity Dictates Programmable Self-Assembly. ADVANCED SCIENCE (WEINHEIM, BADEN-WURTTEMBERG, GERMANY) 2019; 6:1802043. [PMID: 31380179 PMCID: PMC6662064 DOI: 10.1002/advs.201802043] [Citation(s) in RCA: 42] [Impact Index Per Article: 8.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 11/12/2018] [Revised: 03/20/2019] [Indexed: 05/23/2023]
Abstract
Programmable self-assembly of peptides into well-defined nanostructures represents one promising approach for bioinspired and biomimetic synthesis of artificial complex systems and functional materials. Despite the progress made over the past two decades in the development of strategies for precise manipulation of the self-assembly of peptides, there is a remarkable gap between current peptide assemblies and biological systems in terms of structural complexity and functions. Here, the concept of peptide tectonics for the creation of well-defined nanostructures predominately driven by the complementary association at the interacting interfaces of tectons is introduced. Peptide tectons are defined as peptide building blocks exhibiting structural complementarity at the interacting interfaces of commensurate domains and undergoing programmable self-assembly into defined supramolecular structures promoted by complementary interactions. Peptide tectons are categorized based on their conformational entropy and the underlying mechanism for the programmable self-assembly of peptide tectons is highlighted focusing on the approaches for incorporating the structural complementarity within tectons. Peptide tectonics not only provides an alternative perspective to understand the self-assembly of peptides, but also allows for precise manipulation of peptide interactions, thus leading to artificial systems with advanced complexity and functions and paves the way toward peptide-related functional materials resembling natural systems.
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Affiliation(s)
- Shaofeng Lou
- Key Laboratory of Functional Polymer Materials, Ministryof EducationState Key Laboratory of Medicinal Chemical BiologyInstitute of Polymer ChemistryCollege of ChemistryNankai UniversityWeijin Road 94Tianjin300071China
| | - Xinmou Wang
- Key Laboratory of Functional Polymer Materials, Ministryof EducationState Key Laboratory of Medicinal Chemical BiologyInstitute of Polymer ChemistryCollege of ChemistryNankai UniversityWeijin Road 94Tianjin300071China
| | - Zhilin Yu
- Key Laboratory of Functional Polymer Materials, Ministryof EducationState Key Laboratory of Medicinal Chemical BiologyInstitute of Polymer ChemistryCollege of ChemistryNankai UniversityWeijin Road 94Tianjin300071China
| | - Linqi Shi
- Key Laboratory of Functional Polymer Materials, Ministryof EducationState Key Laboratory of Medicinal Chemical BiologyInstitute of Polymer ChemistryCollege of ChemistryNankai UniversityWeijin Road 94Tianjin300071China
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20
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Bera S, Gazit E. Self-assembly of Functional Nanostructures by Short Helical Peptide Building Blocks. Protein Pept Lett 2019; 26:88-97. [PMID: 30227810 PMCID: PMC6416463 DOI: 10.2174/0929866525666180917163142] [Citation(s) in RCA: 15] [Impact Index Per Article: 3.0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 07/09/2018] [Revised: 08/28/2018] [Accepted: 09/11/2018] [Indexed: 12/03/2022]
Abstract
The self-assembly of short peptide building blocks into well-ordered nanostructures is a key direction in bionanotechnology. The formation of β -sheet organizations by short peptides is well explored, leading to the development of a wide range of functional assemblies. Likewise, many natural proteinaceous materials, such as silk and amyloid fibrils, are based on β-sheet structures. In contrast, collagen, the most abundant protein in mammals, is based on helical arrangement. Similar to β-sheet structures, short helical peptides have been recently discovered to possess a diverse set of functionalities with the potential to fabricate artificial self-assembling materials. Here, we outline the functional roles of self-assembled nanostructures formed by short helical peptides and their potential as artificial materials. We focus on the association between self-assembled mesoscale structures and their material function and demonstrate the way by which this class of building blocks bears the potential for diverse applications, such as the future fabrication of smart devices.
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Affiliation(s)
- Santu Bera
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv
University, Ramat Aviv 69978, Israel
| | - Ehud Gazit
- Department of Molecular Microbiology and Biotechnology, George S. Wise Faculty of Life Sciences, Tel Aviv
University, Ramat Aviv 69978, Israel
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21
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Takita KK, Fujii KK, Kadonosono T, Masuda R, Koide T. Cyclic Peptides for Efficient Detection of Collagen. Chembiochem 2018; 19:1613-1617. [PMID: 29756312 DOI: 10.1002/cbic.201800166] [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: 03/26/2018] [Indexed: 01/19/2023]
Abstract
We report here a new class of collagen-binding peptides, cyclic collagen-mimetic peptides (cCMPs), that efficiently hybridize with the triple-helix-forming portions of collagen. cCMPs are composed of two parallel collagen-like (Xaa-Yaa-Gly)n strands with both termini tethered by covalent linkages. Enzyme-linked immunosorbent assays and western blotting analysis showed that cCMPs exhibit more potent affinity toward collagen than reported collagen-binding peptides and can specifically detect different collagen polypeptides in a mixture of proteins. Collagen secreted from cultured cells was detected by confocal microscopy with fluorescein-labeled cCMP. The cCMP is also shown to detect sensitively folding intermediates in the endoplasmic reticulum, something that was difficult to visualize with conventional collagen detectors. Molecular-dynamics simulations suggested that a cCMP forms a more stably hybridized product than its single-chain counterpart; this could explain why cCMP has higher affinity toward denatured collagen. These results indicate the usefulness of cCMPs as tools for detecting denatured collagen.
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Affiliation(s)
- Koh K Takita
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, Shinjuku, Tokyo, 169-8555, Japan
| | - Kazunori K Fujii
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, Shinjuku, Tokyo, 169-8555, Japan
| | - Tetsuya Kadonosono
- Department of Life Science and Technology, School of Life Science and Technology, Tokyo Institute of Technology, Yokohama, Kanagawa, 226-8501, Japan
| | - Ryo Masuda
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, Shinjuku, Tokyo, 169-8555, Japan
| | - Takaki Koide
- Department of Chemistry and Biochemistry, School of Advanced Science and Engineering, Waseda University, Shinjuku, Tokyo, 169-8555, Japan
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22
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Abstract
Self-assembled peptide nanostructures have been increasingly exploited as functional materials for applications in biomedicine and energy. The emergent properties of these nanomaterials determine the applications for which they can be exploited. It has recently been appreciated that nanomaterials composed of multicomponent coassembled peptides often display unique emergent properties that have the potential to dramatically expand the functional utility of peptide-based materials. This review presents recent efforts in the development of multicomponent peptide assemblies. The discussion includes multicomponent assemblies derived from short low molecular weight peptides, peptide amphiphiles, coiled coil peptides, collagen, and β-sheet peptides. The design, structure, emergent properties, and applications for these multicomponent assemblies are presented in order to illustrate the potential of these formulations as sophisticated next-generation bio-inspired materials.
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Affiliation(s)
- Danielle M Raymond
- Department of Chemistry, University of Rochester, Rochester, NY 14627-0216, USA.
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23
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Ting YH, Chen HJ, Cheng WJ, Horng JC. Zinc(II)–Histidine Induced Collagen Peptide Assemblies: Morphology Modulation and Hydrolytic Catalysis Evaluation. Biomacromolecules 2018; 19:2629-2637. [DOI: 10.1021/acs.biomac.8b00247] [Citation(s) in RCA: 19] [Impact Index Per Article: 3.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
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24
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Hentzen NB, Smeenk LEJ, Witek J, Riniker S, Wennemers H. Cross-Linked Collagen Triple Helices by Oxime Ligation. J Am Chem Soc 2017; 139:12815-12820. [PMID: 28872857 DOI: 10.1021/jacs.7b07498] [Citation(s) in RCA: 44] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/19/2022]
Abstract
Covalent cross-links are crucial for the folding and stability of triple-helical collagen, the most abundant protein in nature. Cross-linking is also an attractive strategy for the development of synthetic collagen-based biocompatible materials. Nature uses interchain disulfide bridges to stabilize collagen trimers. However, their implementation into synthetic collagen is difficult and requires the replacement of the canonical amino acids (4R)-hydroxyproline and proline by cysteine or homocysteine, which reduces the preorganization and thereby stability of collagen triple helices. We therefore explored alternative covalent cross-links that allow for connecting triple-helical collagen via proline residues. Here, we present collagen model peptides that are cross-linked by oxime bonds between 4-aminooxyproline (Aop) and 4-oxoacetamidoproline placed in coplanar Xaa and Yaa positions of neighboring strands. The covalently connected strands folded into hyperstable collagen triple helices (Tm ≈ 80 °C). The design of the cross-links was guided by an analysis of the conformational properties of Aop, studies on the stability and functionalization of Aop-containing collagen triple helices, and molecular dynamics simulations. The studies also show that the aminooxy group exerts a stereoelectronic effect comparable to fluorine and introduce oxime ligation as a tool for the functionalization of synthetic collagen.
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Affiliation(s)
- Nina B Hentzen
- Laboratorium für Organische Chemie, ETH Zürich , D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zürich, Switzerland
| | - Linde E J Smeenk
- Laboratorium für Organische Chemie, ETH Zürich , D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zürich, Switzerland
| | - Jagna Witek
- Laboratorium für Physikalische Chemie, ETH Zürich , D-CHAB, Vladimir-Prelog-Weg 2, 8093 Zürich, Switzerland
| | - Sereina Riniker
- Laboratorium für Physikalische Chemie, ETH Zürich , D-CHAB, Vladimir-Prelog-Weg 2, 8093 Zürich, Switzerland
| | - Helma Wennemers
- Laboratorium für Organische Chemie, ETH Zürich , D-CHAB, Vladimir-Prelog-Weg 3, 8093 Zürich, Switzerland
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25
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Tanrikulu IC, Forticaux A, Jin S, Raines RT. Peptide tessellation yields micrometre-scale collagen triple helices. Nat Chem 2016; 8:1008-1014. [PMID: 27768103 PMCID: PMC5123832 DOI: 10.1038/nchem.2556] [Citation(s) in RCA: 68] [Impact Index Per Article: 8.5] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/13/2016] [Accepted: 05/23/2016] [Indexed: 02/08/2023]
Abstract
Sticky-ended DNA duplexes can associate spontaneously into long double helices; however, such self-assembly is much less developed with proteins. Collagen is the most prevalent component of the extracellular matrix and a common clinical biomaterial. As for natural DNA, the ~103-residue triple helices (~300 nm) of natural collagen are recalcitrant to chemical synthesis. Here we show how the self-assembly of short collagen-mimetic peptides (CMPs) can enable the fabrication of synthetic collagen triple helices that are nearly a micrometre in length. Inspired by the mathematics of tessellations, we derive rules for the design of single CMPs that self-assemble into long triple helices with perfect symmetry. Sticky ends thus created are uniform across the assembly and drive its growth. Enacting this design yields individual triple helices that, in length, match or exceed those in natural collagen and are remarkably thermostable, despite the absence of higher-order association. The symmetric assembly of CMPs provides an enabling platform for the development of advanced materials for medicine and nanotechnology.
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Affiliation(s)
- I Caglar Tanrikulu
- Department of Biochemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
| | - Audrey Forticaux
- Department of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
| | - Song Jin
- Department of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
| | - Ronald T Raines
- Department of Biochemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
- Department of Chemistry, University of Wisconsin-Madison, Madison, Wisconsin 53706, USA
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26
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Collagen structure: new tricks from a very old dog. Biochem J 2016; 473:1001-25. [PMID: 27060106 DOI: 10.1042/bj20151169] [Citation(s) in RCA: 154] [Impact Index Per Article: 19.3] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 11/16/2015] [Accepted: 02/01/2016] [Indexed: 12/22/2022]
Abstract
The main features of the triple helical structure of collagen were deduced in the mid-1950s from fibre X-ray diffraction of tendons. Yet, the resulting models only could offer an average description of the molecular conformation. A critical advance came about 20 years later with the chemical synthesis of sufficiently long and homogeneous peptides with collagen-like sequences. The availability of these collagen model peptides resulted in a large number of biochemical, crystallographic and NMR studies that have revolutionized our understanding of collagen structure. High-resolution crystal structures from collagen model peptides have provided a wealth of data on collagen conformational variability, interaction with water, collagen stability or the effects of interruptions. Furthermore, a large increase in the number of structures of collagen model peptides in complex with domains from receptors or collagen-binding proteins has shed light on the mechanisms of collagen recognition. In recent years, collagen biochemistry has escaped the boundaries of natural collagen sequences. Detailed knowledge of collagen structure has opened the field for protein engineers who have used chemical biology approaches to produce hyperstable collagens with unnatural residues, rationally designed collagen heterotrimers, self-assembling collagen peptides, etc. This review summarizes our current understanding of the structure of the collagen triple helical domain (COL×3) and gives an overview of some of the new developments in collagen molecular engineering aiming to produce novel collagen-based materials with superior properties.
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27
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Choudhary A, Kamer KJ, Shoulders MD, Raines RT. 4-ketoproline: An electrophilic proline analog for bioconjugation. Biopolymers 2016; 104:110-5. [PMID: 25656588 DOI: 10.1002/bip.22620] [Citation(s) in RCA: 11] [Impact Index Per Article: 1.4] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 10/06/2014] [Revised: 01/05/2015] [Accepted: 01/24/2015] [Indexed: 12/15/2022]
Abstract
Installing an electrophilic amino-acid residue can engender a peptide or protein with chemoselective reactivity. Such a modification to collagen, which is the most abundant protein in animals, could facilitate the development of new biomaterials. Collagen has an abundance of proline-like residues. Here, we report on the incorporation of an electrophilic proline congener, (2S)-4-ketoproline (Kep), into a collagen-mimetic peptide (CMP). An ab initio conformational analysis of Kep revealed its potential to be accommodated within a collagen triple helix. A synthetic CMP containing a Kep residue was indeed able to form a stable triple helix. Moreover, the condensation of its carbonyl group with aminooxy-biotin did not compromise the conformational stability of the triple helix. These data encourage the use of 4-ketoproline as an electrophilic congener of proline.
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Affiliation(s)
- Amit Choudhary
- Graduate Program in Biophysics, University of Wisconsin-Madison, Madison, WI
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28
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Bi J, Zeng X, Tian D, Li H. Temperature-Responsive Switch Constructed from an Anthracene-Functionalized Pillar[5]arene-Based Host–Guest System. Org Lett 2016; 18:1092-5. [DOI: 10.1021/acs.orglett.6b00097] [Citation(s) in RCA: 47] [Impact Index Per Article: 5.9] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/16/2022]
Affiliation(s)
- Jiahai Bi
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P.R. China
| | - Xiangfei Zeng
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P.R. China
| | - Demei Tian
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P.R. China
| | - Haibing Li
- Key Laboratory of Pesticide & Chemical Biology (CCNU), Ministry of Education, College of Chemistry, Central China Normal University, Wuhan 430079, P.R. China
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29
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Ellison AJ, VanVeller B, Raines RT. Convenient synthesis of collagen-related tripeptides for segment condensation. Biopolymers 2015; 104:674-81. [PMID: 26172437 PMCID: PMC4713359 DOI: 10.1002/bip.22700] [Citation(s) in RCA: 5] [Impact Index Per Article: 0.6] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/27/2015] [Revised: 06/23/2015] [Accepted: 07/04/2015] [Indexed: 11/09/2022]
Abstract
Chromatography is a common step in the solution-phase synthesis of typical peptides, as well as peptide fragments for subsequent coupling on a solid support. Combining known reagents that form readily separable byproducts is shown to eliminate this step, which wastes time and other resources. Specifically, activating carboxyl groups with isobutyl chloroformate or as pentafluorophenyl esters and using N-methyl morpholine as a base enable chromatography-free synthetic routes in which peptide products are isolated from byproducts by facile evaporation, extraction, and trituration. This methodology was used to access tripeptides related to collagen, such as Fmoc-Pro-Pro-Gly-OH and Fmoc-Pro-Hyp(tBu)-Gly-OH, in a purity suitable for solid-phase segment condensation to form collagen mimetic peptides.
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Affiliation(s)
- Aubrey J. Ellison
- Department of Chemistry, University of Wisconsin–Madison, 1101 University Avenue, Madison, WI 53706-1322
| | - Brett VanVeller
- Department of Chemistry, University of Wisconsin–Madison, 1101 University Avenue, Madison, WI 53706-1322
| | - Ronald T. Raines
- Department of Chemistry, University of Wisconsin–Madison, 1101 University Avenue, Madison, WI 53706-1322
- Department of Biochemistry, University of Wisconsin–Madison, 433 Babcock Drive, Madison, WI 53706-1544
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30
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Zhang Y, Malamakal RM, Chenoweth DM. A Single Stereodynamic Center Modulates the Rate of Self-Assembly in a Biomolecular System. Angew Chem Int Ed Engl 2015. [DOI: 10.1002/ange.201504459] [Citation(s) in RCA: 2] [Impact Index Per Article: 0.2] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/10/2023]
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31
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Zhang Y, Malamakal RM, Chenoweth DM. A Single Stereodynamic Center Modulates the Rate of Self-Assembly in a Biomolecular System. Angew Chem Int Ed Engl 2015. [PMID: 26212926 DOI: 10.1002/anie.201504459] [Citation(s) in RCA: 19] [Impact Index Per Article: 2.1] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/13/2022]
Abstract
Chirality is a property of asymmetry important to both physical and abstract systems. Understanding how molecular systems respond to perturbations in their chiral building blocks can provide insight into diverse areas such as biomolecular self-assembly, protein folding, drug design, materials, and catalysis. Despite the fundamental importance of stereochemical preorganization in nature and designed materials, the ramifications of replacing chiral centers with stereodynamic atomic mimics in the context of biomolecular systems is unknown. Herein, we demonstrate that replacement of a single amino acid stereocenter with a stereodynamic nitrogen atom has profound consequences on the self-assembly of a biomolecular system. Our results provide insight into how the fundamental biopolymers of life would behave if their chiral centers were not configurationally stable, highlighting the vital importance of stereochemistry as a pre-organizing element in biomolecular folding and assembly events.
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Affiliation(s)
- Yitao Zhang
- Department of Chemistry, University of Pennsylvania, 231 South 34thStreet, Philadelphia, PA 19104 (USA)
| | - Roy M Malamakal
- Department of Chemistry, University of Pennsylvania, 231 South 34thStreet, Philadelphia, PA 19104 (USA)
| | - David M Chenoweth
- Department of Chemistry, University of Pennsylvania, 231 South 34thStreet, Philadelphia, PA 19104 (USA).
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