Article
Chemistry, Physical
Ying Zhao, Fei Li, Fenfen Ma, Junge Zhi, Guanglu Wu, Xiaoyan Zheng
Summary: The molecular recognition of synthetic cucurbit[7]uril (CB[7]) to N-terminal Leu-containing tripeptides was investigated using molecular dynamics (MD) simulation, and tripeptides with high binding affinity were identified. The study found that CB[7] had a nanomolar level binding affinity to LGR, but changing the sequence order or increasing the sequence length significantly decreased the binding affinity. Substituting N-terminal Leu for Ile weakened the binding of CB[7] to tripeptides. Furthermore, it was predicted that placing R at the C-terminus resulted in a consistently high binding strength. This research provides insights for the rational design of peptides with high affinity to CB[7] in practical applications.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2023)
Article
Biochemistry & Molecular Biology
Michal H. Kolar, Gabor Nagy, John Kunkel, Sara M. Vaiana, Lars Bock, Helmut Grubmueller
Summary: The ribosome is a crucial complex in cells responsible for protein synthesis. This study focuses on the translational arrest caused by the peptide VemP within the ribosome tunnel. The research reveals that VemP interacts with the tunnel, forming alpha-helices and slowing down the progression, leading to elongation arrest.
NUCLEIC ACIDS RESEARCH
(2022)
Article
Chemistry, Physical
Fenfen Ma, Xiaoyan Zheng, Zesheng Li
Summary: The study using molecular dynamics simulations reveals that CB[7] binds differently to aromatic and basic residues in peptides, with the C-terminal basic residue significantly affecting the binding. Additionally, CB[7] shows efficient differentiation between peptides with similar structures, and exhibits sequence dependence in recognizing specific peptides.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2021)
Article
Biochemical Research Methods
Hayden R. Anderson, Wei L. Reeves, Andrew T. Bockus, Paolo Suating, Amy G. Grice, Madeleine Gallagher, Adam R. Urbach
Summary: We have developed a novel insulin derivative that exhibits high nanomolar affinity for the synthetic receptor cucurbit[7]uril (Q7), potentially enabling the development of continuous insulin detection methods for diabetes management.
BIOCONJUGATE CHEMISTRY
(2023)
Article
Chemistry, Physical
Alex N. Mort, Fan Xie, Arsh S. Hazrah, Yunjie Xu
Summary: The conformational landscape and conversion paths of the hydrogen-bonded binary 3,3,3-trifluoropropanol (TFP) aggregate were studied using microwave spectroscopy and computational chemistry. A set of criteria were established to identify the binary TFP conformers responsible for the observed rotational transitions. Extensive conformational searches and screening were conducted, resulting in the identification of five binary TFP conformers as the molecular carriers. A kinetic and thermodynamic model was developed to explain the observation and non-observation of low energy conformers. The role of hydrogen bonding interactions in the stability ordering of the binary conformers was discussed.
PHYSICAL CHEMISTRY CHEMICAL PHYSICS
(2023)
Article
Chemistry, Organic
Lindsey O. Calabretta, Yana D. Petri, Ronald T. Raines
Summary: We report the synthesis and properties of a rationally designed guanidinium-containing oxoanion binder, GADAC. GADAC binds to carboxylates, phosphates, and sulfates with high affinities. GADAC is fluorescent in water and its quantum yield is pH-sensitive.
JOURNAL OF ORGANIC CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Xiaoyi Chen, Zehuan Huang, Renata L. Sala, Alan M. McLean, Guanglu Wu, Kamil Sokolowski, Katie King, Jade A. McCune, Oren A. Scherman
Summary: Peptide dimerization is a common phenomenon in natural protein conjugates and artificial self-assemblies. In this study, researchers employ a synthetic host that encapsulates an aromatic and a noncanonical L-perfluorophenylalanine-containing peptide, constructing a series of unprecedented heteropeptide dimers. The utility of this heteropeptide dimerization strategy is demonstrated in the recognition of peptides and insulin, showing high recycling efficiency.
JOURNAL OF THE AMERICAN CHEMICAL SOCIETY
(2022)
Article
Chemistry, Multidisciplinary
Ana S. Pina, Leonor Morgado, Krystyna L. Duncan, Sara Carvalho, Henrique F. Carvalho, Armenio J. M. Barbosa, Beatriz de P. Mariz, Ines P. Moreira, Daniela Kalafatovic, Bruno M. Morais Faustino, Vishal Narang, Tong Wang, Charalampos G. Pappas, Isabel Ferreira, A. Cecilia A. Roque, Rein Ulijn
Summary: This study demonstrates phage-display screening on self-assembled ligands to identify oligopeptides that selectively bind dynamic supramolecular targets. The selected peptides show cationic and proline residues enrichment without sequence consensus, with the lead peptide interacting with the ligand exclusively in its self-assembled state. Additionally, the study shows phage dynamics and conformation-dependent activity on supramolecular ligand binding.
Article
Chemistry, Multidisciplinary
Rachel C. Branco, Holly V. Goodson, Erin M. Jonasson
Summary: This study presents a case study related to protein-ligand interactions and demonstrates its effectiveness in improving student problem-solving skills and understanding of real-world applications.
JOURNAL OF CHEMICAL EDUCATION
(2022)
Article
Chemistry, Multidisciplinary
Gao Li, Jun Hu, Huai Chen, Yong-Xiang Chen, Yan-Mei Li
Summary: By utilizing the interactions between tryptophan, methyl viologen, and cucurbit[8]uril, the study found that the distance between the targeted peptides/protein and the reactive peptide was shortened, facilitating the Michael addition reaction between cysteine and dehydroalanine. The system showed the highest acceleration on cysteines with suitable pK(a) and spatial location to tryptophan, suggesting potential for regioselective cysteine modification.
CHEMICAL COMMUNICATIONS
(2021)
Article
Chemistry, Physical
Tawny N. Fajardo, Matthias Heyden
Summary: By analyzing the free energy surface of a small peptide, individual contributions that stabilize or destabilize compact and extended peptide conformations can be identified, shedding light on the origin of the free energy barrier associated with transitions between different conformations.
JOURNAL OF PHYSICAL CHEMISTRY B
(2021)
Article
Chemistry, Physical
Pradeep Pant, Amita Pathak, B. Jayaram
Summary: Nucleic acids play a crucial role in biological processes and nucleic acid-protein interactions are essential for cell functioning. This study investigates the binding of human purine nucleoside phosphorylase (PNP) to bidirectional symmetric nucleosides, which show stronger binding energies compared to inosine and Imm-H, potentially due to an enhanced hydrogen-bond network. These symmetric nucleosides, nu 3 and nu 4, resemble enzymatic transition states and fall into the category of transition-state analogues (TSAs).
JOURNAL OF PHYSICAL CHEMISTRY B
(2021)
Article
Chemistry, Physical
Kris Strunge, Tucker Burgin, Thaddeus W. Golbek, Steven J. Roeters, Jim Pfaendtner, Tobias Weidner
Summary: α-synuclein folds into a defined secondary structure at the air-water interface, promoting its aggregation and fibrillation. Understanding the role of hydrophobic surfaces in this process is important for studying severe brain disorders such as Parkinson's disease.
JOURNAL OF PHYSICAL CHEMISTRY LETTERS
(2023)
Article
Biochemistry & Molecular Biology
Nicola Judge, Panagiotis G. Georgiou, Akalabya Bissoyi, Ashfaq Ahmad, Andreas Heise, Matthew I. Gibson
Summary: Ice-binding proteins (IBPs) are found in extremophile organisms and have various (bio)-technological applications. This study investigates the use of high molecular weight polyproline as an ice recrystallization inhibitor (IRI) and demonstrates the potential of non-vinyl-based polymers in inhibiting ice recrystallization.
Article
Polymer Science
Ioanna Kontopoulou, Thomas R. Congdon, Simon Bassett, Ben Mair, Matthew Gibson
Summary: Poly(vinyl alcohol) (PVA) is a highly effective polymeric ice recrystallisation inhibitor (IRI) that mimics the function of ice binding proteins. This study presents a convenient method to obtain well-defined PVAs using bismuth oxide photo-RAF, which enables quantitative conversion and acceptable dispersities. The PVAs synthesized through this method retain their IRI activity even after multiple freeze/thaw cycles, suggesting their potential use in environments with temperature fluctuations.
Review
Engineering, Biomedical
Hamid Esmaeili, Alejandra Patino-Guerrero, Masoud Hasany, Mohammad Omaish Ansari, Adnan Memic, Alireza Dolatshahi-Pirouz, Mehdi Nikkhah
Summary: Myocardial infarction (MI) remains a major cause of death worldwide, with the use of electroconductive biomaterials showing promise in improving cardiac tissue engineering. This review article discusses the recent advancements in the application of electroconductive biomaterials for cTE and explores potential avenues for enhanced cardiac tissue engineering.
ACTA BIOMATERIALIA
(2022)
Article
Materials Science, Multidisciplinary
Abdu Saeed, Mir Ali Razvi, Aysh Y. Madkhli, Shittu Abdullahi, Fadwa Aljoud, Torki A. Zughaibi, Samia F. Aboushoushah, Ahmed Alshahrie, Adnan Memic, Faten E. Al-Hazmi, Numan Salah
Summary: Tris(8-hydroxyquinoline) aluminum (Alq3) has been used as a fluorescent optical material for in vitro bioimaging for the first time. The optimal concentration of Alq3 was found to be 25 μM based on cell viability and photoluminescence spectroscopy results. This study suggests the potential use of Alq3 as a fluorescent optical material in bio-applications.
Review
Biotechnology & Applied Microbiology
Mohamadmahdi Samandari, Azadeh Mostafavi, Jacob Quint, Adnan Memic, Ali Tamayol
Summary: Bioprinting is a powerful tool for regenerative therapies, but faces challenges in conventional approaches. In situ bioprinting, which directly prints bioink into the patient's body, has recently gained attention for its advantages and challenges.
TRENDS IN BIOTECHNOLOGY
(2022)
Article
Polymer Science
Humair Hussain, Asim Jilani, Numan Salah, Ahmed Alshahrie, Adnan MemiC, Mohammad Omaish Ansari, Joydeep Dutta
Summary: Due to the industrial revolution, fresh water reserves are being polluted every day and man-made activities have adverse effects upon the ecosystem. Therefore, it is necessary to explore new technologies to save and purify water resources. Capacitive deionization is considered as an emerging technique for removing excess ions to produce potable water and desalination.
Article
Polymer Science
Turdimuhammad Abdullah, Rayyan O. Qurban, Mohamed Sh. Abdel-Wahab, Numan A. Salah, Ammar AbdulGhani Melaibari, Mazin A. Zamzami, Adnan Memic
Summary: Three-dimensional printing, especially fused deposition modeling (FDM), has great potential in the manufacturing field. However, limited material options and microbial contamination are two major challenges. This study developed a composite filament with enhanced printability and antimicrobial properties for biomedical applications.
Correction
Polymer Science
Turdimuhammad Abdullah, Usman Saeed, Adnan Memic, Kalamegam Gauthaman, Mohammad Asif Hussain, Hamad Al-Turaif
JOURNAL OF POLYMER RESEARCH
(2022)
Article
Engineering, Biomedical
Shaik Muhammad U. G. Mohiuddin, Abdu Saeed, Ahmed Alshahrie, Adnan Memic, Fadwa Aljoud, Shittu Abdullahi, Hussam A. A. Organji, Numan Salah
Summary: This study demonstrated the biocompatible and fluorescent properties of unsheathed carbon nanoparticles (CNPs) from date palm fronds. The CNPs showed multicolor fluorescence emissions in vitro cell imaging. They have potential applications in various biomedical fields due to their low cytotoxicity, adequate fluorescence, eco-friendly nature, and cost-effective production.
JOURNAL OF FUNCTIONAL BIOMATERIALS
(2022)
Review
Engineering, Multidisciplinary
Turdimuhammad Abdullah, Esra Su, Adnan Memic
Summary: There is a need to develop next-generation medical products using biomaterials with improved properties, and cryogels are potential materials for this purpose. Cryogels, made by controlled crosslinking at subzero temperatures, have highly dense and crosslinked polymer walls, macroporous structures, and improved properties. Silk and its derivatives have gained interest for cryogel fabrication, and this review provides an overview of their use in scaffold design, including fabrication strategies to tune their properties and specific biomedical applications.
Article
Chemistry, Inorganic & Nuclear
Humair Hussain, Asim Jilani, Numan Salah, Adnan Memic, Mohammad Omaish Ansari, Ahmed Alshahrie
Summary: Water is crucial for life and is a vital resource on Earth. However, water pollution is a major concern due to its negative impacts on both the environment and human health. Capacitive deionization (CDI) is being considered as an emerging water purification technique, and this study focuses on the CDI performance of CO2 activated carbon nanoparticles (AcNP) as free-standing electrodes.
INORGANIC CHEMISTRY COMMUNICATIONS
(2023)
Article
Biochemistry & Molecular Biology
Mohammad Oves, Mohammad Omaish Ansari, Mohammad Shahnawaze Ansari, Adnan Memic
Summary: The rise of antimicrobial resistance has increased the demand for the next generation of antimicrobial coatings. In this study, graphene@curcumin-copper coatings were prepared using a chemical synthesis method and characterized by scanning electron microscopy and X-ray photon scattering. The coatings showed uniform distribution of curcumin and copper, and exhibited antimicrobial properties through contact-killing mechanisms, potentially reducing the risk of nosocomial infections.
Article
Polymer Science
Abdullah H. Mohammed, Nikolina Kovacev, Amr Elshaer, Ammar A. Melaibari, Javed Iqbal, Hany Hassanin, Khamis Essa, Adnan Memic
Summary: Fused Deposition Modelling (FDM) 3D printers have gained popularity in the pharmaceutical and biomedical industries. This study developed a new biomaterial filament, PLA/CPO, using wet solution mixing and extrusion. The filaments were characterized and the findings showed changes in viscosity, microstructure, and mechanical properties with varying CPO content. The PLA/CPO filament with 6% CPO showed acceptable surface morphology and strength, making it suitable for 3D printing applications such as bone scaffolds.
Review
Pharmacology & Pharmacy
Turdimuhammad Abdullah, Gulmire Ilyasoglu, Adnan Memic
Summary: There is a need for circular and sustainable economies in high-tech industries, particularly in pharmaceuticals, by utilizing sustainable and renewable resources. Lignin, previously used as a low-grade burning fuel, has gained attention for biomedical applications due to its antioxidant and antimicrobial properties. This review provides an overview of designing different forms of lignin-based biomaterials and their applications in drug delivery.
Article
Chemistry, Medicinal
Abdullah Mohammed, Abdu Saeed, Amr Elshaer, Ammar A. Melaibari, Adnan Memic, Hany Hassanin, Khamis Essa
Summary: In this study, a new oxygen-generating composite filament of polylactic acid (PLA) and calcium peroxide (CPO) was prepared and characterized. The results showed that the filament with 6% calcium peroxide content had the best oxygen release and antibacterial activity, indicating great potential for improving bone generation through oxygenation of bone cells and resistance to bacterial infections.
Article
Chemistry, Multidisciplinary
Shaik Muhammad U. G. Mohiuddin, Abdulkadir Aydarous, Ahmed Alshahrie, Abdu Saeed, Adnan Memic, Shittu Abdullahi, Numan Salah
Summary: This study reports an easy one-step process to extract carbon nanoparticles (CNPs) from date palm fronds through ball milling. The CNPs were characterized and found to have excellent optical properties, stability, and a multilayer crystalline graphitic nature. These extracted CNPs have potential applications in optical imaging.
Review
Engineering, Biomedical
Pejman Ghelich, Mehdi Kazemzadeh-Narbat, Alireza Hassani Najafabadi, Mohamadmahdi Samandari, Adnan Memic, Ali Tamayol
Summary: Bone defects, a major issue requiring surgeries worldwide, can be effectively treated with advances in biomedical engineering and sciences. This review provides a comprehensive overview of bone graft materials, manufacturing approaches, and future directions, with a focus on clinical considerations and regulatory science perspectives. The findings of this review can fuel research efforts in bone tissue engineering and provide insights for other tissue engineering applications.
ADVANCED NANOBIOMED RESEARCH
(2022)
