Article
Biochemistry & Molecular Biology
Shazia Parveen, Farukh Arjmand, Qianfan Zhang, Musheer Ahmad, Arif Khan, Loic Toupet
Summary: In this study, the synthesis and single crystal X-ray structure of Cu(II)-picolinic acid complex, 1 as a potent topoisomerase I inhibitor was reported. Biochemical studies revealed the complex's higher binding propensity towards tRNA, significant inhibitory effect on enzyme catalytic activity, and strong antimicrobial potential. Additionally, DFT and molecular docking studies provided insights into electronic transitions and specific binding preferences at the target site.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2021)
Article
Multidisciplinary Sciences
Kavitha Ramdas, Ch. Venkata Ramana Reddy, B. Sireesha
Summary: The Schiff base ligand PLTMBH was synthesized and metal complexes with Ni(II), Cu(II) and Zn(II) ions were prepared, characterized and studied for their interaction with DNA, showing good binding, antibacterial and anticancer activities.
ARABIAN JOURNAL FOR SCIENCE AND ENGINEERING
(2022)
Article
Biochemistry & Molecular Biology
Nagaraj Revathi, Murugesan Sankarganesh, Jeyaraj Dhaveethu Raja, Gujuluva Gangatharan Vinoth Kumar, Arumugam Sakthivel, Ramalingam Rajasekaran
Summary: The newly synthesized complexes exhibit good inhibitive nature against microbial strains, with complex 1 showing stronger antimicrobial activity. Additionally, complex 1 demonstrates strong DNA binding/cleaving efficacy through intercalation binding mode, making it a potential candidate for cancer chemotherapy mediators in the future.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2021)
Article
Biochemistry & Molecular Biology
Emre F. Bulbul, Jelena Melesina, Hany S. Ibrahim, Mohamed Abdelsalam, Anita Vecchio, Dina Robaa, Matthes Zessin, Mike Schutkowski, Wolfgang Sippl
Summary: In this study, a computational approach was used to predict the selectivity of inhibitors targeting HDAC1, HDAC2, and HDAC3. The developed binding free-energy models showed significant correlation between binding free energy and in vitro inhibitory activities, and successfully predicted the efficacy of newly designed inhibitors.
Article
Biochemistry & Molecular Biology
Ali Akbar Khandar, Zeinab Mirzaei-Kalar, Nahid Shahabadi, Saba Hadidi, Hoda Abolhasani, Seyed Abolfazl Hosseini-Yazdi, Abolghasem Jouyban
Summary: This study investigated the binding of zinc-naproxen complex to CT-DNA using spectroscopic techniques and molecular docking. The results showed that the complex binds to CT-DNA in groove binding mode and has the ability to cleave DNA. Additionally, the cytotoxicity on different cell lines and antimicrobial activity of the complex were also studied.
JOURNAL OF BIOMOLECULAR STRUCTURE & DYNAMICS
(2022)
Article
Biochemistry & Molecular Biology
Alaa Elwan, Helmy Sakr, Abdel-Ghany A. El-Helby, Ahmed El-Morsy, Mohamed A. Abdelgawad, Mohammed M. Ghoneim, Mohamed El-Sherbiny, Khaled El-Adl
Summary: Sixteen [1, 2, 4]triazolo[4,3-a]quinoxalines were synthesized and evaluated for their anticancer activities as DNA intercalators and Topo II inhibitors. Compounds 7e, 7c, and 7b exhibited the highest anticancer activities and showed strong DNA affinities and Topo II inhibition.
JOURNAL OF ENZYME INHIBITION AND MEDICINAL CHEMISTRY
(2022)
Article
Chemistry, Applied
Banoth Shekhar, Kasturi Rajeshwari, Boddula Jayasree, Parupalli Venkata Anantha Lakshmi
Summary: Novel water-soluble chromium(III) complexes were synthesized and their structures were characterized. Thermal investigations provided insights into the degradation pattern and calculated the kinetic and thermodynamic parameters. Quantum chemical parameters evaluated the stability of the complexes. Experimental and molecular docking studies confirmed the groove binding of the complexes with CT-DNA.
APPLIED ORGANOMETALLIC CHEMISTRY
(2022)
Article
Chemistry, Applied
Emel Karakilic, Zuhal Alim, Mustafa Emirik, Arif Baran
Summary: Two novel metallophthalocyanines were synthesized and characterized for their solubility and properties, including UV-Vis, FT-IR, and NMR. The compounds exhibited strong inhibitory effects on human erythrocyte carbonic anhydrase isoforms, supported by molecular docking studies. The binding interaction of metallophthalocyanines with enzymes was analyzed in detail.
APPLIED ORGANOMETALLIC CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
Wagdy M. Eldehna, Mahmoud A. El Hassab, Mahmoud F. Abo-Ashour, Tarfah Al-Warhi, Mahmoud M. Elaasser, Nesreen A. Safwat, Howayda Suliman, Marwa F. Ahmed, Sara T. Al-Rashood, Hatem A. Abdel-Aziz, Radwan El-Haggar
Summary: This study aimed at developing a new set of small molecules as potential anticancer CDK2 inhibitors, showing significant inhibition of cell growth and induction of apoptosis. Through docking simulations and computational analysis, the most promising compounds were identified, suggesting their potential as breast cancer antitumor agents and CDK2 inhibitors.
BIOORGANIC CHEMISTRY
(2021)
Article
Chemistry, Inorganic & Nuclear
Yen Jea Lee, Yujeong Kim, Haesol Kim, Jieun Choi, Ga Hee Noh, Kug-Seung Lee, Junseong Lee, Chang Hyuck Choi, Sun Hee Kim, Jiwon Seo
Summary: Replacing the imidazole moiety in the ATCUN structure with thiazole and oxazole enhances the activity of Cu(II)-ATCUN complexes and promotes the rate of ROS-mediated DNA cleavage. This study presents a new strategy for the design of peptide ligands with potential applications in the development of ROS-mediated metallodrugs.
INORGANIC CHEMISTRY
(2023)
Article
Chemistry, Multidisciplinary
Em Canh Pham, Tuong Vi Le Thi, Huong Ha Ly Hong, Bich Ngoc Vo Thi, Long B. Vong, Thao Thanh Vu, Duy Duc Vo, Ngoc Vi Nguyen, Khanh Nguyen Bao Le, Tuyen Ngoc Truong
Summary: 69 benzimidazole derivatives were designed and synthesized efficiently, some of which showed potent antibacterial and anticancer activities with drug-like properties. Docking studies identified DHFR as a potential protein target for benzimidazole derivatives.
Article
Chemistry, Inorganic & Nuclear
Shariq Yousuf, Farukh Arjmand, Sartaj Tabassum
Summary: Two new copper(II) complexes were synthesized and characterized, showing electrostatic or groove binding mode of interaction with DNA. Complex 1 exhibited significant oxidative cleavage and higher cytotoxic activity compared to complex 2 against cancer cell lines, with promising results in molecular docking studies and DFT calculations.
Article
Biochemistry & Molecular Biology
Thoraya A. Farghaly, Hanan Gaber Abdulwahab, Hanadi Y. Medrasi, Mariam A. Al-sheikh, Dina F. Katowah, Amani M. R. Alsaedi
Summary: Novel tetracyclic pyrazolo[1,5-a]pyrimidine derivatives were designed and synthesized as topoisomerase II alpha inhibitors with potential anticancer activity. Among the tested compounds, aminopyrazolopyrimidine derivatives 6a and 6c showed comparable/equipotent inhibitory activity to Doxorubicin against Topo II. The oxo-pyrazolopyrimidine derivative 15c exhibited potent cytotoxic potential and apoptotic induction, and showed better safety profile than Doxorubicin against non-cancerous cells.
BIOORGANIC CHEMISTRY
(2022)
Article
Biochemistry & Molecular Biology
K. Rajeshwari, P. Vasantha, B. Sathish Kumar, P. V. Anantha Lakshmi
Summary: Novel nickel(II) complexes were synthesized and characterized. The DNA binding properties of these complexes were investigated and it was found that they bind to DNA through groove mode of binding with high affinity. The thermal degradation pattern and kinetic parameters of the complexes were studied. Complex 1 showed the highest docking score in its interaction with the B-DNA receptor protein.
BIOLOGICAL TRACE ELEMENT RESEARCH
(2022)
Article
Chemistry, Medicinal
Natalie Losada, Francesc X. Ruiz, Francesca Curreli, Kevin Gruber, Alyssa Pilch, Kalyan Das, Asim K. Debnath, Eddy Arnold
Summary: This study focuses on compounds (NBD derivatives) originally developed to bind to HIV-1 gp120, some of which inhibit RT. Crystal structures of three NBD compounds in complex with HIV-1 RT have been determined, correlating with RT enzyme inhibition and antiviral activity, to develop structure-activity relationships. Two lead compounds, NBD-14189 and NBD-14270, show potent antiviral activity and low cytotoxicity.
JOURNAL OF MEDICINAL CHEMISTRY
(2021)
Article
Biochemistry & Molecular Biology
Mohd Muslim, Farha Naz, Abdullah Alarifi, Mohd Afzal, Nayim Sepay, Musheer Ahmad
Summary: This study aimed to synthesize a new cobalt complex as a potential chemotherapeutic agent. The complex was characterized using various techniques and its cytotoxicity, morphological changes, and binding interactions with biomacromolecules were evaluated.
APPLIED BIOCHEMISTRY AND BIOTECHNOLOGY
(2023)
Article
Chemistry, Physical
Mohd. Muddassir, Abdullah Alarifi, Naaser A. Y. Abduh, Waseem Sharaf Saeed, Abdulnasser Mahmoud Karami, Mohd Afzal
Summary: Cu2WS4 nanoparticles were successfully synthesized through solvothermal decomposition using a heterobimetallic single source precursor, WCu2S4(PPh3)(3). The precursor WCu2S4(PPh3)(3) was characterized using multinuclear NMR spectroscopy, while Cu2WS4 nanoparticles were characterized by powder X-ray diffraction (PXRD) with Rietveld refinement. Additionally, FESEM and EDAX analyses were performed to assess the morphology and composition of Cu2WS4. Electrochemical studies in acidic and basic media showed that Cu2WS4 nanoparticles exhibited efficient bifunctional activity towards electrochemical hydrogen and oxygen evolution reactions. Linear sweep voltammetry (LSV) in 0.5 N H2SO4 indicated an onset potential for the HER of 462 mV and a Tafel slope of 140 mV dec(-1). LSV in 0.1 M KOH showed an onset potential for the OER of 190 mV and a Tafel slope of 117 mV dec(-1).
Article
Biochemistry & Molecular Biology
Rafat Fatma, Waseem Chauhan, Mohammad Afzal
Summary: This study aimed to investigate and compare the level of homozygosity in the genomes of progeny from four subtypes of first cousin mating in humans, using both pedigree and genomic measures. The results showed differences in the degree of homozygosity among the different subtypes.
Article
Biochemistry & Molecular Biology
Mohd. Muddassir, Abdullah Alarifi, Naaser A. Y. Abduh, Waseem Sharaf Saeed, Abdulnasser Mahmoud Karami, Mohd. Afzal
Summary: A new Zn(II)-based coordination polymer (1) with a Schiff base ligand was synthesized and characterized. Compound 1 was found to be a sensitive fluorescent sensor for acetone and Ag+ ions. It also showed selective adsorption of cationic dyes. These findings suggest that compound 1 has potential applications as a luminescent probe for the detection of acetone, other ketones, and Ag+ ions.
INTERNATIONAL JOURNAL OF MOLECULAR SCIENCES
(2023)
Article
Biochemistry & Molecular Biology
Mohit Kumar, Gautam Jaiswar, Mohd. Afzal, Mohd. Muddassir, Abdullah Alarifi, Aysha Fatima, Nazia Siddiqui, Rashid Ayub, Naaser A. Y. Abduh, Waseem Sharaf Saeed, Saleem Javed
Summary: In this study, the molecular features of 5-hydroxymethyluracil were characterized using NMR, UV-Vis, and FT-IR spectroscopy. Density functional theory and various computational analysis methods were employed to investigate the molecule's properties. The results provided information on the molecule's geometric parameters, vibrational frequencies, charge distribution, and intermolecular interactions. Molecular docking and dynamics simulation were also performed to study the ligand-protein binding.
Article
Chemistry, Inorganic & Nuclear
Guang-Li Wang, Mithun Kumar Ghosh, Jun Wang, Jian Guo, Tanmay Kumar Ghorai, Hiroshi Sakiyama, Mohd Afzal, Abdullah Alarifi
Summary: Three new coordination polymers (CPs) were synthesized and characterized. The CPs 1-3 were found to be stable due to intra-molecular H-bonding interaction. Photocatalytic properties showed that 1 exhibited higher degradation efficiency towards drugs NFZ, ODZ, CAP, and SMT compared to 2 and 3.
Article
Crystallography
Devyani Srivastava, Om Prakash, Gabriele Kociok-Kohn, Abhinav Kumar, Abdullah Alarifi, Naaser A. Y. Abduh, Mohd Afzal, Mohd Muddassir
Summary: Two Ni(II) complexes with distorted square planar geometry and interesting supramolecular structures were synthesized and characterized. The supramolecular frameworks were sustained by C-H...pi and C-H...F interactions. These complexes also exhibited intriguing intramolecular C-H...Ni interactions.
Article
Thermodynamics
Naushad Anwar, Hadriaïn Montes-Campos, Trinidad Mendez-Morales, Luis M. Varela, Abdullah Alarifi, Mohd Afzal
Summary: This study investigated the thermophysical properties of binary mixtures of 1-ethyl-3-methylimidazolium dicyanamide ([EMIM][N(CN)(2)]) ionic liquids (ILs) with 1-butanol and 2-butanol organic solvents. Experimental evaluation of density, speed of sound, and viscosity was conducted for pure substances and binary mixtures. The solute-solvent interactions were discussed and molecular dynamics simulations confirmed similar molecular environments in the binary mixtures.
JOURNAL OF CHEMICAL AND ENGINEERING DATA
(2023)
Article
Chemistry, Physical
Indrani Roy, Mrinmoy Ghosh, Mamata Barua, Pameli Ghosh, Subratanath Koner, Nasim Sepay, Mohd Afzal, Abdullah Alarifi, Sandip Saha, Nayim Sepay
Summary: In crystallographic studies, non-covalent interactions were investigated using Hirshfeld surface analysis. The synthesized Cu(II) complex was found to have major van der Walls interactions in crystal formation. Its flexible conformation and covalent azide make it a good candidate for protein interactions. Experimental and theoretical results both support that the binding of the complex with bovine serum albumin is through hydrophobic interactions.
JOURNAL OF MOLECULAR LIQUIDS
(2023)
Article
Chemistry, Physical
Jia-Jia Xu, Mithun Kumar Ghosh, Lu Lu, Qiang-Qiang Liu, Hiroshi Sakiyama, Tanmay Kumar Ghorai, Mohd Afzal, Abdullah Alarifi
Summary: Two Zn(II)-based coordination polymers, 1 and 2, were synthesized using a dual ligand strategy. The structures of the CPs were characterized by various techniques, including X-ray diffraction, FT-IR, TGA, and UV-visible spectroscopy. Compound 1 formed a 1D supramolecular chain through hydrogen bonding, while compound 2 exhibited a 3D supramolecular network through coordination bonding. The photocatalytic degradation properties of the CPs were investigated for different antibiotics, and compound 1 showed high degradation efficiency for metronidazole. Additionally, a possible photodegradation mechanism was proposed and explored through a radical tapping experiment.
JOURNAL OF MOLECULAR STRUCTURE
(2023)
Article
Chemistry, Physical
Qin Li, Mithun Kumar Ghosh, Jun Wang, Lu Lu, Hiroshi Sakiyama, Tanmay Kumar Ghorai, Aparna Kushwaha, Om Prakash, Mohd Afzal, Abdullah Alarifi
Summary: A new Zn(II)-based coordination polymer (CP) [Zn3(L)2(phen)2] (1) has been synthesized using a mixed ligand strategy under solvothermal conditions. It has been characterized by various techniques and found to possess a 2D supramolecular framework formed by weak interactions between its chains. The compound displays semiconducting properties with an optical band of 2.7 eV. It has also shown excellent photocatalytic degradation performance for the nitrofurazone antibiotic.
JOURNAL OF MOLECULAR STRUCTURE
(2023)
Article
Chemistry, Multidisciplinary
Nasima Arshad, Maliha Khan, Muhammad Waseem, Mohd Afzal, Abdullah Alarifi, Rahman Shah Zaib Saleem
Summary: Magnetite iron oxide nanoparticles (MNPs) were synthesized and functionalized with chitosan and PEGylated/chitosan. Methotrexate drug was loaded onto the functionalized MNPs and pH dependent drug release studies were conducted. The results showed that methotrexate loaded PEGylated/chitosan coated magnetic nanoparticles (MPCT-1) is an excellent material for controlled drug delivery.
JOURNAL OF SAUDI CHEMICAL SOCIETY
(2023)
Article
Microbiology
Vinothini Kamalanathan, Nakkeeran Sevugapperumal, Saranya Nallusamy, Suhail Ashraf, Kumanan Kailasam, Mohd Afzal
Summary: The soil microbiome plays a crucial role in maintaining the sustainability of the agricultural environment. Using bioagents in tomato rhizosphere can increase the diversity and relative abundance of fungal species, thereby suppressing root-knot nematode infection.
Article
Genetics & Heredity
Rafat Fatma, Waseem Chauhan, Seema Riyaz, Khalid Rasheed, Mohammad Afzal
Summary: This study investigated the association of genetic variant rs662799 of the APOA5 gene with body mass index (BMI) and blood pressure (BP). The results showed a significant association between this variant and increased BMI and BP, specifically in individuals with the G allele. This study provides important clinical and research implications for the diagnostic and prognostic value of the gene in question.
EGYPTIAN JOURNAL OF MEDICAL HUMAN GENETICS
(2023)
Article
Biology
Mohd Afzal, Abdullah Alarifi, Naaser. A. Y. Abduh, Arusha Ayub, Mohd. Muddassir
Summary: Apoptosis is regulated by the BCL-2 family, and inhibition of the pro-apoptotic and anti-apoptotic protein-protein interactions has been studied for developing anticancer drugs. In this study, the hydrophobic nature of 74 organometallic compounds was analyzed, and their effectiveness against the BCL-2 protein was determined using molecular docking. The results identified several important compounds that could bind to the less solvent-accessible site of BCL-2.
COMPUTERS IN BIOLOGY AND MEDICINE
(2023)
Article
Biochemistry & Molecular Biology
Girgis Obaid, Menitte Eroy, Jie Zhao, Shazia Bano, Mari Mino-Kenudson, Tayyaba Hasan
Summary: The presence of desmoplasia in pancreatic ductal adenocarcinoma (PDAC) is associated with poor treatment outcomes and reduced drug delivery. By analyzing collagen subtypes in PDAC tumors following different treatment regimens, immunofluorescence profiling can predict long-term survival and tumor growth inhibition. This information can aid in personalized treatment and improve patient survival.
JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY
(2024)
Article
Biochemistry & Molecular Biology
Fatemeh Malekpour, Rashin Bahrami, Mahshid Hodjat, Neda Hakimiha, Behnam Bolhari, Aidin Sooratgar, Soheil Niavarzi
Summary: This study investigated the effect of photobiomodulation (PBM) therapy using an 808 nm diode laser on cellular modulation mechanisms in regenerative endodontic procedures (REPs). The results showed that PBM treatment significantly increased cell viability and migration, and enhanced the release of TGF-131 from dentin.
JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY
(2024)
Article
Biochemistry & Molecular Biology
Pranathi Tata, Ramakrishnan Ganesan, Jayati Ray Dutta
Summary: Thin film coatings with potent antibacterial properties are widely used in medical devices, frequently touched surfaces, and food packaging. However, achieving antibacterial performance under both light and dark conditions remains a challenge. In this study, we successfully prepared AgBr-coated ZnO nanorod thin film architecture using a unique surfactant-mediated solution-phase spin-coating approach. The resulting structures showed dual functionality as antimicrobial agents and photosensitizers, effectively enhancing the visible-light photodisinfection efficacy of ZnO nanorods. The concentration of the surfactant-based precursor solution could be modulated to control the AgBr content. Additionally, components like urea and lactic acid were found to enhance the photocatalytic efficiency of the structures.
JOURNAL OF PHOTOCHEMISTRY AND PHOTOBIOLOGY B-BIOLOGY
(2024)