Review
Engineering, Biomedical
Jean -Daniel Malcor, Frederic Mallein-Gerin
Summary: This review article discusses the use of triple-helical peptides as efficient tools to improve cell-biomaterial interactions in tissue engineering. Triple-helical peptides are bioactive molecules that mimic the architectural and biological properties of collagen. They have been successfully used to specifically recognize cell-surface receptors and provide cells seeded on biomaterials with controlled biological cues. Functionalization with triple-helical peptides has enabled researchers to improve cell function for regenerative medicine applications, such as tissue repair. However, this approach still remains under-explored and most functionalization strategies reported in the literature are unable to address collagen-binding receptors.
ACTA BIOMATERIALIA
(2022)
Article
Biotechnology & Applied Microbiology
Meagan E. E. Ita, Sagar Singh, Harrison R. R. Troche, Rachel L. L. Welch, Beth A. A. Winkelstein
Summary: Chronic joint pain is a significant healthcare challenge with a large socioeconomic burden. This study investigates the role of MMP-1 in mediating pain in synovial joints and its effects on the collagen network, biomechanical response, and neuronal regulation of the capsular ligament. The findings suggest that MMP-1 may play a crucial role in neuronal signaling in joint pain and that MMP-1 presence in the joint space could lead to altered responses to loading. These findings have implications for the development of new treatments for degenerative joint pain.
FRONTIERS IN BIOENGINEERING AND BIOTECHNOLOGY
(2022)
Article
Biotechnology & Applied Microbiology
Sota Fuji, Kotaro Tanaka, Shiho Kishikawa, Seiichi Morita, Masamitsu Doi
Summary: This study reported the preparation of a collagen sensor using a synthetic peptide to detect collagen-like peptides. The sensor was able to directly adsorb the collagen model peptide on the surface of the electrode, resulting in enhanced sensitivity. The optimal probe distance was determined to quantitatively measure the association rate between the model peptide and sensor probes.
JOURNAL OF BIOSCIENCE AND BIOENGINEERING
(2022)
Article
Engineering, Biomedical
Maria Colzani, Jean-Daniel Malcor, Emma J. Hunter, Semih Bayraktar, Murray Polkinghorne, Thomas Krieg, Ruth Cameron, Serena Best, Richard W. Farndale, Sanjay Sinha
Summary: This study demonstrated that using triple-helical peptides (THPs) to mimic cell-collagen interactions can enhance the proliferation and activity of cardiomyocytes (CMs) and endothelial cells (ECs), promote CM maturation, and enable coordinated cellular contraction on collagen films. These findings underscore the importance of collagen interactions on cellular response and establish THP-functionalized biomaterials as novel tools for producing engineered cardiac tissues.
Article
Biochemistry & Molecular Biology
Tsai-Ling Hsu, Jia-Cherng Horng
Summary: The incorporation of Thp into collagen shows position-dependent effects on the stability of the triple helix structure, with a larger destabilization effect observed when Thp is substituted at the Y position. Furthermore, the oxidized derivatives of Thp also affect collagen stability, with a greater destabilization effect observed for derivatives at the Y position. Computational analysis suggests that the ease of interconversion between puckers and the twist conformation of S,S-dioxide Thp contribute to the destabilization effect at the Y position. This study provides new insights into the use of Thp and its derivatives for designing collagen-related biomaterials.
Article
Nanoscience & Nanotechnology
Santu Bera, Pierre-Andre Cazade, Shayon Bhattacharya, Sarah Guerin, Moumita Ghosh, Francesca Netti, Damien Thompson, Lihi Adler-Abramovich
Summary: This study reports the design of a new series of ultra-short collagen-mimicking tripeptides through sequence engineering, which can co-assemble with a non-collagenous hydrogelator to form rigid hybrid hydrogels. The supramolecular interactions that promote the self-supporting and self-healing properties of the co-assemblies are characterized by physicochemical experiments and atomistic models. The results demonstrate the significance of sequence engineering for designing functional peptide motifs and reveal co-assembly as a promising strategy for generating hybrid biomolecular assemblies with structural heterogeneity and functionality of natural materials.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Nanoscience & Nanotechnology
Santu Bera, Pierre-Andre Cazade, Shayon Bhattacharya, Sarah Guerin, Moumita Ghosh, Francesca Netti, Damien Thompson, Lihi Adler-Abramovich
Summary: This study reports the design of rigid hybrid hydrogels produced by sequence engineering of a new series of ultra-short collagen-mimicking tripeptides, demonstrating the importance of sequence engineering to design functional peptide motifs with desired physicochemical and electromechanical properties and revealing co-assembly as a promising strategy for the utilization of small, readily accessible biomimetic building blocks to generate hybrid biomolecular assemblies with structural heterogeneity and functionality of natural materials.
ACS APPLIED MATERIALS & INTERFACES
(2022)
Article
Biochemistry & Molecular Biology
Anis Hanna, Arti V. Shinde, Ruoshui Li, Linda Alex, Claudio Humeres, Prasanth Balasubramanian, Nikolaos G. Frangogiannis
Summary: Tissue injury leads to alterations in collagen network, with specific patterns of collagen denaturation observed during different phases of infarct healing. MT1-MMP plays a significant role in pericellular collagen denaturation, while mechanical tension can induce peripheral collagen denaturation. Chronic collagen denaturation may contribute to post-infarction heart failure.
Article
Biochemistry & Molecular Biology
Reina F. Osuka, Masamichi Nagae, Akito Ohuchi, Shiho Ohno, Yoshiki Yamaguchi, Yasuhiko Kizuka
Summary: In this study, it was found through molecular dynamics simulations and biochemical experiments that residues outside the catalytic pocket of GnT-V are likely involved in the recognition of the core part of N-glycan. Additionally, the simulation suggested that UDP binding affects the orientation of the acceptor due to conformational changes. These findings provide new insights into how GnT-V recognizes its glycoprotein substrates.
Review
Chemistry, Multidisciplinary
Rajat Subhra Giri, Bhubaneswar Mandal
Summary: This paper focuses on the analysis of small helical peptides through single-crystal X-ray diffraction (SC-XRD), discussing their supramolecular arrangement, conformation, and higher-order assembly. The role of building single-, double-, and triple-stranded helices, as well as their micro or nano-level structures obtained from solutions, is outlined. These small helical peptides have potential applications as drug delivery vehicles, porous materials for N-2 adsorption, and for nanomaterial fabrication.
Article
Chemistry, Multidisciplinary
Christopher A. Ryan, Vladislavs Baskevics, Martins Katkevics, Eriks Rozners
Summary: In triplex-forming peptide nucleic acid, a novel 2-guanidyl pyridine nucleobase (V) can recognize up to two cytosine interruptions in polypurine tracts of dsRNA by engaging the entire Hoogsteen face of C-G base pair. Insights from ab initio and molecular dynamics simulations revealed the H-bonding interactions that stabilize V · C-G triplets. Our findings provide guidance for future design of improved nucleobases, advancing the goal of recognizing any sequence of dsRNA.
CHEMICAL COMMUNICATIONS
(2022)
Article
Biochemistry & Molecular Biology
Ilze Kumpina, Vladislavs Baskevics, Khoi D. Nguyen, Martins Katkevics, Eriks Rozners
Summary: This study investigated the use of five-membered heterocycles and linkers to optimize the formation of X • C-G and Y • U-A triplets. Increasing the linker length by four atoms improved binding affinity and selectivity.
Article
Biochemistry & Molecular Biology
Caihong Fu, Wenhua Li, Xiuxia Sun, Jianxi Xiao
Summary: The role of concentration in the stability of collagen peptides was investigated through the study of folding and unfolding features of collagen mimetic peptides at different concentrations. It was found that concentration plays a critical role in maintaining the triple helix structure and stability of collagen peptides.
PROTEIN AND PEPTIDE LETTERS
(2023)
Article
Biochemistry & Molecular Biology
Yoshihiro Ishikawa, Yuki Taga, Keith Zientek, Nobuyo Mizuno, Antti M. Salo, Olesya Semenova, Sara F. Tufa, Douglas R. Keene, Paul Holden, Kazunori Mizuno, Douglas B. Gould, Johanna Myllyharju, Hans Peter Bachinger
Summary: Collagen is the most abundant protein in humans, with a complex biosynthesis involving multiple enzymes and chaperones. LH1 and P3H3 play distinct but related roles in lysyl hydroxylation of collagen, with LH1 having a global enzymatic role and P3H3 being involved particularly at cross-link formation sites.
JOURNAL OF BIOLOGICAL CHEMISTRY
(2021)
Article
Developmental Biology
Rachael A. Wyatt, Bryan D. Crawford
Summary: Mmp2 plays specific roles in tissue remodelling and development, being robustly activated in certain locations and times during embryonic development in zebrafish. Its activation is associated with collagen remodelling in the notochord, myotome boundary ECM, and actinotrichia in fin folds.
DEVELOPMENTAL BIOLOGY
(2021)
Article
Biophysics
Jia Xu, Yingying Lee, Lesa J. Beamer, Steven R. Van Doren
BIOPHYSICAL JOURNAL
(2015)
Article
Chemistry, Analytical
Jia Xu, Steven R. Van Doren
ANALYTICAL CHEMISTRY
(2016)
Article
Biochemistry & Molecular Biology
Stephen H. Prior, Todd S. Byrne, Dorota Tokmina-Roszyk, Gregg B. Fields, Steven R. Van Doren
JOURNAL OF BIOLOGICAL CHEMISTRY
(2016)
Article
Biochemistry & Molecular Biology
Yan G. Fulcher, Stephen H. Prior, Sayaka Masuko, Lingyun Li, Dennis Pu, Fuming Zhang, Robert J. Linhardt, Steven R. Van Doren
Article
Multidisciplinary Sciences
Yan G. Fulcher, Martial Fotso, Chee-Hoon Chang, Hans Rindt, Carol R. Reinero, Steven R. Van Doren
Article
Multidisciplinary Sciences
Jia Xu, Akella V. S. Sarma, Yirui Wei, Lesa J. Beamer, Steven R. Van Doren
SCIENTIFIC REPORTS
(2017)
Article
Biochemistry & Molecular Biology
Tara C. Marcink, Jayce A. Simoncic, Bo An, Anna M. Knapinska, Yan G. Fulcher, Narahari Akkaladevi, Gregg B. Fields, Steven R. Van Doren
Article
Biochemistry & Molecular Biology
Andrew T. Namanja, Jia Xu, Haihong Wu, Qi Sun, Anup K. Upadhyay, Chaohong Sun, Steven R. Van Doren, Andrew M. Petros
JOURNAL OF BIOMOLECULAR NMR
(2019)
Article
Biochemistry & Molecular Biology
Yajin Ye, Yan G. Fulcher, David J. Sliman, Mizani T. Day, Mark J. Schroeder, Rama K. Koppisetti, Philip D. Bates, Jay J. Thelen, Steven R. Van Doren
JOURNAL OF BIOLOGICAL CHEMISTRY
(2020)
Article
Multidisciplinary Sciences
Yajin Ye, Krisztina Nikovics, Alexandra To, Loic Lepiniec, Eric T. Fedosejevs, Steven R. Van Doren, Sebastien Baud, Jay J. Thelen
NATURE COMMUNICATIONS
(2020)
Article
Chemistry, Multidisciplinary
Rama K. Koppisetti, Yan G. Fulcher, Steven R. Van Doren
Summary: The fusion peptide of SARS-CoV-2 plays a crucial role in the fusion of viral and cell membranes, with its structure changes affecting the fusion process between the virus and the cell.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2021)
Review
Biochemistry & Molecular Biology
Steven R. Van Doren
Summary: Selective inhibition of MMP-7 in pancreatic cancer and other mucosal epithelial tumors may be beneficial in improving treatment outcomes. An anti-MMP-7 monoclonal antibody has been shown to increase the sensitivity of pancreatic cancer cells to chemotherapy, promote apoptosis, and reduce cell migration. The activities of MMP-7 play an important role in pancreatic cancer and other mucosal epithelial tumors.
BIOCHEMICAL SOCIETY TRANSACTIONS
(2022)
Article
Biochemistry & Molecular Biology
Steven R. Doren, Benjamin S. Scott, Rama K. Koppisetti
Summary: The fusion peptide of SARS-CoV-2 spike plays a crucial role in infection by inserting into the membrane and interacting with water and choline head groups to form hydrated channels. The protonation of Asp830 enhances the agreement between simulated and experimentally measured depths, revealing the depth of the fusion peptide in the membrane and the dynamic changes of the membrane.
Article
Chemistry, Medicinal
Kenneth A. Gruber, Ren-Lai Ji, Fabio Gallazzi, Shaokai Jiang, Steven R. Van Doren, Ya-Xiong Tao, Jessica Newton Northup
Summary: During the development of a drug for treating cachexia, we discovered the importance of peptide transport across the blood-brain barrier. Through screening the medical literature, we found that bile salt transport peptides could effectively cross the BBB. We designed a drug peptide, TCMCB07, and made modifications to its C-terminal amino acid sequence to extend its half-life, providing a platform approach for producing similar drug peptides.
ACS PHARMACOLOGY & TRANSLATIONAL SCIENCE
(2022)
Article
Biochemistry & Molecular Biology
Steven R. Van Doren, Tara C. Marcink, Rama K. Koppisetti, Alexander Jurkevich, Yan G. Fulcher
BIOCHIMICA ET BIOPHYSICA ACTA-MOLECULAR CELL RESEARCH
(2017)