NMR Chemical Shifts Research Articles

Probing Aromaticity with Supersonic Jet Spectroscopy: A Case Study on Furan, Thiophene, and Selenophene.

Aromaticity is a century-old concept that is even introduced in high school textbooks. However, the determination of the order of aromaticity of molecules as simple as furan, thiophene, and selenophene is still challenging. This work describes how different theoretical and experimental methods posit different aromaticity orders. To benchmark the theoretical results and arrive at a conclusion, mass-selective electronic and vibrational spectroscopy of these five-membered heterocycles under isolated supersonic-jet-cooled conditions was necessary. Since the aromaticity order can be unveiled from the magnitude of the electron density in the ring, we used hydrogen bonding as a probe. The experimental results revealed that selenophene forms the strongest π-hydrogen bond, suggesting that selenophene is the most aromatic, followed by thiophene and furan. It is concluded that gauge-including magnetically induced currents (GIMIC) and relative 1H and 13C NMR chemical shifts are better parameters to determine the aromaticity order in a similar class of molecules.

Dendritic Molecular Baskets for Selective Binding of Toxic Methotrexate.

We describe the preparation, assembly, recognition characteristics, and bioactivity of dendritic basket 612-. This novel cavitand has a deep aromatic pocket with three (S)-glutamic acid dendrons at the rim to amplify water solubility and prevent self-association. 1H NMR spectroscopy, calorimetry (ITC), and mass spectrometry (ESI-MS) measurements validate the formation of an inclusion complex between 612- and anticancer drug methotrexate (MTX2-) in water (Kd = 9.2 μM). To identify the docking pose, a comparison of computed (DFT and MM) and experimental 1H NMR chemical shifts suggests that MTX2- folds inside 612- (π···π), forming HBs with the peptidic dendrons while anchoring (C-H···π) to the aromatic pocket through its N-methyl group. In consequence, 612- selectively binds MTX2- in competition with structurally similar folic acid and leucovorin (reversal poisoning agent). While the host is biocompatible (HEK293; IC50 > 150 μM) and produces inclusion complex [MTX⊂6]14- in cell media, it experiences limitation in pharmacokinetic sequestration of MTX2- as dihydrofolate reductase's affinity to the drug is suggested to prevail over that of 612-. Nonetheless, considering the basket's biocompatibility, tunability, and chemoselectivity, it stands as the leading candidate in the pursuit of an effective abiotic antidote for methotrexate poisoning.

Dendritic Molecular Baskets for Selective Binding of Toxic Methotrexate

We describe the preparation, assembly, recognition characteristics, and bioactivity of dendritic basket 612‐. This novel cavitand has a deep aromatic pocket with three (S)‐glutamic acid dendrons at the rim to amplify water solubility and prevent self‐association. 1H NMR spectroscopy, calorimetry (ITC), and mass spectrometry (ESI‐MS) measurements validate the formation of an inclusion complex between 612‐ and anticancer drug methotrexate (MTX2‐) in water (Kd = 9.2 μM). To identify the docking pose, a comparison of computed (DFT and MM) and experimental 1H NMR chemical shifts suggests that MTX2‐ folds inside 612‐ (π···π), forming HBs with the peptidic dendrons while anchoring (C−H···π) to the aromatic pocket through its N‐methyl group. In consequence, 612‐ selectively binds MTX2‐ in competition with structurally similar folic acid and leucovorin (reversal poisoning agent). While the host is biocompatible (HEK293; IC50 > 150 μM) and produces inclusion complex [MTX⊂6]14‐ in cell media, it experiences limitation in pharmacokinetic sequestration of MTX2‐ as dihydrofolate reductase’s affinity to the drug is suggested to prevail over that of 612‐. Nonetheless, considering the basket’s biocompatibility, tunability, and chemoselectivity, it stands as the leading candidate in the pursuit of an effective abiotic antidote for methotrexate poisoning.

Transferable and Interpretable Prediction of Site-Specific Dehydrogenation Reaction Rate Constants with NMR Spectra.

Accurate and efficient determination of site-specific reaction rate constants over a wide temperature range remains challenging, both experimentally and theoretically. Taking the dehydrogenation reaction as an example, our study addresses this issue by an innovative combination of machine learning techniques and cost-effective NMR spectra. Through descriptor screening, we identified a minimal set of NMR chemical shifts that can effectively determine reaction rate constants. The constructed model performs exceptionally well on theoretical data sets and demonstrates impressive generalization capabilities, extending from small molecules to larger ones. Furthermore, this model shows outstanding performance when applied to limited experimental data sets, highlighting its robust applicability and transferability. Utilizing the Sure Independence Screening and Sparsifying Operator (SISSO) algorithm, we also present an interpretable rate constant-temperature-NMR (k-T-NMR) relationship with a mathematical formula. This study reveals the great potential of combining machine learning with easily accessible spectroscopic descriptors in the study of reaction kinetics, enabling the rapid determination of reaction rate constants and promoting our understanding of reactivity.

Antitrypanosomal and antileishmanial activity of compounds from some Nigerian plants

Ten compounds, six extracts and five fractions obtained from three Nigerian plants were assayed for their in vitro antitrypanosomal and antileishmanial activities. Each plant was extacted with hexane, ethyl acetate, and methanol. Isolated compounds were characterized and identified based on their NMR chemical shifts and comparison to literature reports. The crude extracts, fractions and isolated compounds were tested against the kinetoplastid parasites: bloodstream forms of Trypanosoma brucei Lister 427WT and the derived multi-drug resistant clone B48, and promastigote forms of Leishmania mexicana cas9/T7 and the derived clone cas9ΔNT1. Column chromatography of the extracts using silica gel yielded ten compounds identified as curzerenone, epi-curzerenone, chloranthene F, isofuranodienone, 8(17)-12E-labdadiene-15, 16-dial and 15-hydroxy-8(17),12E-labdadiene-16-al from Siphonochilus aetiopicus, lupeol, linalolic acid and spinasterone from Calliandra portoricensis, and abruquinone B from Abrus precatorius. The assay results showed that the Siphonochilus aetiopicus and Calliandra portoricensis crude extracts, fractions and compounds displayed moderate activity against the Trypanosoma brucei brucei but showed less activity against Leishmania mexicana. Abrus precatorius crude extract, fraction, and isolated compound exhibited only weak trypanocidal and leishmanicidal activities against both kinetoplastid parasites tested. These findings have provided evidence for the use of Siphonochilus aetiopicus and Calliandra portoricensis in traditional medicine relating to parasitic diseases.

Ameloblastin binding to biomimetic models of cell membranes – A continuum of intrinsic disorder

ObjectiveA 37-residue amino acid sequence corresponding to the segment encoded by exon-5 of murine ameloblastin (Ambn), AB2 (Y67-Q103), has been implicated with membrane association, ameloblastin self-assembly, and amelogenin-binding. Our aim was to characterize, at the residue level, the structural behavior of AB2 bound to chemical mimics of biological membranes using NMR spectroscopy. DesignTo better define the structure of AB2 using NMR-based methods, recombinant 13C- and 15N-labelled AB2 (*AB2) was prepared and data collected free in solution and with deuterated dodecylphosphocholine (dPC) micelles, deuterated bicelles, and both small and large unilamellar vesicles. ResultsAmide chemical shift and intensity perturbations observed in 1H-15N HSQC spectra of *AB2 in the presence of bicelles and dPC micelles suggest that a region of *AB2, S6-E36 (murine Ambn S68 – E98), associates with the membrane biomimetics. A CSI-3 analysis of the NMR chemical shift assignments for *AB2 free in solution and bound to dPC micelles indicated the peptide remains disordered except for the adoption of a short, 12-residue α-helix, F10-G21 (murine Ambn F72-G83). In dPC micelles, the NOE NMR data was void of patterns characteristic of long-lived helical structure indicating this helix was transient in nature. ConclusionsA continuum of intrinsic disorder in the membrane-bound state may be responsible for ameloblastin’s ability to dynamically interact with multiple partners at the same site during amelogenesis.

Synthesis and spectroscopic characterization of 2-furancarbothioamide: N-(4-fluorophenyl)furan-2-carbothioamide

This investigation deals with an alternative thionation synthetic strategy for the preparation of N-(4-fluorophenyl)furan-2-carbothioamide using elemental sulphur and applying the Willgerodt-Kindler reaction. The carbothioamide was obtained with ca 30% yield assessing the purity (higher than 90%) with GC/MS spectrometry, and the compound was fully characterised by NMR (1H, 13C), FTIR and UV-visible spectroscopies. Indeed, 1H-NMR spectroscopic analysis demonstrated that a single conformer with anti-anti geometry was formed attributed to the observation of only one N-H signal (9.37 ppm) of the NH-C=S group and, FTIR spectroscopy (N-H stretching at 3372 cm−1) also reinforces this observation. UV-visible absorption and fluorescence emission spectra were recorded in different polar and nonpolar solvents (acetonitrile, ethanol and n-heptane) and the λ0,0 cross point displays a bathochromic shift of 11 nm with the increasing solvent polarity. The fluorescence quantum yield (φf) has been measured at room temperature concluding that this carbothioamide derivative is not a fluorescent compound showing a φf value of 0.0002. Finally, theoretical calculations have been carried out to estimate the NMR chemical shifts as well as vibrational frequencies values of the anti-anti isomer and these values were compared with the experimental data obtaining satisfactorily correlations.

The conformational landscape of fold-switcher KaiB is tuned to the circadian rhythm timescale

How can a single protein domain encode a conformational landscape with multiple stably folded states, and how do those states interconvert? Here, we use real-time and relaxation-dispersion NMR to characterize the conformational landscape of the circadian rhythm protein KaiB from Rhodobacter sphaeroides. Unique among known natural metamorphic proteins, this KaiB variant spontaneously interconverts between two monomeric states: the "Ground" and "Fold-switched" (FS) states. KaiB in its FS state interacts with multiple binding partners, including the central KaiC protein, to regulate circadian rhythms. We find that KaiB itself takes hours to interconvert between the Ground and FS state, underscoring the ability of a single-sequence to encode the slow process needed for function. We reveal the rate-limiting step between the Ground and FS state is the cis-trans isomerization of three prolines in the fold-switching region by demonstrating interconversion acceleration by the prolyl isomerase Cyclophilin A. The interconversion proceeds through a "partially disordered" (PD) state, where the C-terminal half becomes disordered while the N-terminal half remains stably folded. We found two additional properties of KaiB's landscape. First, the Ground state experiences cold denaturation: At 4 °C, the PD state becomes the majorly populated state. Second, the Ground state exchanges with a fourth state, the "Enigma" state, on the millisecond-timescale. We combine AlphaFold2-based predictions and NMR chemical shift predictions to predict this Enigma state is a beta-strand register shift that relieves buried charged residues, and support this structure experimentally. These results provide mechanistic insight into how evolution can design a single-sequence that achieves specific timing needed for its function.

DFT Computation, Spectroscopic, Hirshfeld Surface, Docking and Topological Analysis on 2,2,5‐Trimethyl‐1,3‐Dioxane‐5‐Carboxylic Acid as Potent Anti‐Cancer Agent

ABSTRACTThe 2,2,5‐trimethyl‐1,3‐dioxane‐5‐carboxylic acid (TDCA) using both theoretical and experimental methods have been studied. The sample has been subjected to XRD, FTIR, FT‐Raman, (C13 and H1) NMR, and UV–vis spectrum analysis. Then, theoretical calculations have been performed at the DFT/B3LYP/6‐311++G(d,p) higher based scale. The theoretical and experimental geometrical parameters and frequencies have been compared well. Theoretical and experimental NMR chemical shifts have been determined. Absorption wavelengths of UV–Vis spectrum were experimentally measured and compared with TD‐DFT predictions. Detailed explanations have been given for frontier molecular orbitals, low density gradient, distribution of Mulliken charges, molecular electrostatic potential (MEP), RDG, localized orbital location, and electron localized activities. Based on the studied 2D image of the Hirschfield surfaces, H···H (65.6%) and O···H/H···O (33.6%) are found as the controlling interactions. A high binding affinity of −6.5 Kcal/mol has been calculated against 4OAR protein. These theoretical findings of the molecule may be used as an anticancer drug candidate, which helps to explain the structural stability, reactivity and anticancer potential of TDCA. High drug affinity for the TDCA has been detected by in silico ADMET prediction.

Antibacterial Indole-Diterpenoid Alkaloids from the Marine Fungus Penicillium sp. ZYX-Z-718.

Two new indole-diterpenoids, penpaxilloids F and G (1 and 2), along with 11 known analogues (3-13), were isolated from the marine fungus Penicillium sp. ZYX-Z-718. The structures of the new compounds were identified by extensive spectroscopic analyses including HR-ESI-MS, UV, and NMR, as well as theoretical NMR chemical shifts and ECD calculations. Compounds 6 and 10 showed antibacterial activity against Gram-positive bacteria including Staphylococcus aureus, Bacillus subtilis, and MRSA with MIC values ranging from 16.0-32.0 μg/mL.

Molli: A General Purpose Python Toolkit for Combinatorial Small Molecule Library Generation, Manipulation, and Feature Extraction.

The construction, management, and analysis of large in silico molecular libraries is critical in many areas of modern chemistry. Herein, we introduce the MOLecular LIibrary toolkit, "molli", which is a Python 3 cheminformatics module that provides a streamlined interface for manipulating large in silico libraries. Three-dimensional, combinatorial molecule libraries can be expanded directly from two-dimensional chemical structure fragments stored in CDXML files with high stereochemical fidelity. Geometry optimization, property calculation, and conformer generation are executed by interfacing with widely used computational chemistry programs such as OpenBabel, RDKit, ORCA, NWChem, and xTB/CREST. Conformer-dependent grid-based feature calculators provide numerical representation and interface to robust three-dimensional visualization tools that provide comprehensive images to enhance human understanding of libraries with thousands of members. The package includes a command-line interface in addition to Python classes to streamline frequently used workflows. Parallel performance is benchmarked on various hardware platforms, and common workflows are demonstrated for different tasks ranging from optimized grid-based descriptor calculation on catalyst libraries to an NMR chemical shift prediction workflow from CDXML files.

Jatropha Diterpenes: An Updated Review Concerning Their Structural Diversity, Therapeutic Performance, and Future Pharmaceutical Applications

The Euphorbiaceae family is a rich source of bioactive terpenoids. Among its genera, Jatropha is a conspicuous producer of diterpenes and includes approximately 175 species, many of which have medicinal uses. To date, 140 diterpenes from Jatropha (JTDs) have been reported. Given their structural diversity and notable biological activities, this work aims to highlight the pharmaceutical potential of JTDs. To achieve this goal, an extensive literature review was conducted, encompassing studies on structural elucidation through NMR and pharmacological assays, both in vitro and in vivo. Based on 132 selected papers, a thorough discussion is presented on the biosynthesis, extraction, isolation, and structural characterization of JTDs, including a compilation of their 13C NMR chemical shifts. The review also covers their synthetic production and biological effects. Additionally, an in silico analysis predicting the drug-likeness of 141 JTDs was carried out. Notably, the occurrence of macrocyclic diterpenes has doubled in the past decade, and the summary of their NMR data provides a useful resource for future research. Furthermore, 21 distinct pharmacological activities were identified, with potent cytotoxic effects targeting new molecular pathways being particularly significant. Recent advances highlight the contributions of modern approaches in organic synthesis and the pharmacological evaluation of natural products. The drug-likeness analysis identified JTD classes and compounds with favorable physicochemical and ADMET features for pharmaceutical development. In light of these findings, the use of nanotechnology is proposed as a future direction for continued research on JTDs, a fascinating class of natural compounds. This work opens up new avenues for the study of Euphorbiaceae species, particularly the Jatropha genus and its bioactive compounds.

Anionic N-Heterocyclic Carbenes from Mesoionic Imidazolium-4-pyrrolides: The Influence of Substituents, Solvents, and Charge on their 77Se NMR Chemical Shifts.

Mesoionic compounds are the starting material for the synthesis of unique anionic N-heterocyclic carbenes. Herein, mesoionic imidazolium pyrrolides synthesized from pyrrole-2-carbaldehyde via various N-alkyl-4-pyrroyl-imidazoles are described. These were converted into nine new 4-(pyrrol-2-yl)-substituted imidazolium salts and transformed into the mesoionic title compounds using an anion exchange resin. The DFT-calculated (B3LYP/6-311++G**) CREF values indicate a great potential for the formation of anionic N-heterocyclic carbenes by deprotonation, which were generated and reacted with selenium to obtain selenoureas. The 77Se NMR shifts investigated under systematic variation of conditions are dependent on the substitution pattern (ΔδSe = 133 ppm) and the steric demand of the substituents. Solvent dependencies of the 77Se NMR shifts were investigated applying toluene-d8, THF-d8, CDCl3, CD2Cl2, pyridine-d5, acetone-d6, DMSO-d6, CD3CN, AcOD, and MeOD. The influences of the referencing method on the 77Se shifts using external or internal Me2Se or Ph2Se2 and solvent can add up to ΔδSe = ca. 80 ppm. In addition, we observed a temperature dependence of both the selenoureas and the reference reagent Ph2Se2 as well as a 77Se shift difference of the analyte caused by interaction with internally added Ph2Se2. The negative charge of deprotonated selenoureas shifts the values by an additional -20 ppm.

Evaluation of machine learning models for the accelerated prediction of density functional theory calculated 19F chemical shifts based on local atomic environments

The introduction of fluorine in compounds plays a crucial role in drug development as it greatly influences their final pharmacokinetic and dynamic properties. Due to the prevalence of fluorine in FDA-approved drugs in recent years, identifying the mechanisms driving their chemical transformations has become crucial in the drug discovery landscape. 19F NMR spectroscopy is a powerful analytical technique that allows for the examination of fluorine-containing compounds, offering valuable information about their structure, dynamics, and reactivity. NMR spectra can be interpreted through the leveraging of Density Functional Theory (DFT). However, the screening of compounds and discovery of feasible drug candidates is limited due to its computational cost. Here, we present a machine learning approach to accelerate the prediction of DFT-calculated 19F NMR chemical shifts. The fluorine atoms’ features in the models were derived from their local three-dimensional environments, representing their neighboring atoms within a radius of n Å away from the given fluorine atom in the compound. A comparative analysis of thirteen regression models was conducted using features extracted from 501 fluorinated compounds in our laboratory’s chemical inventory. Among the models, Gradient Boosting Regression (GBR) exhibited the highest performance, achieving a mean absolute error of 3.31 ppm with a local environment radius of 3 Å. This demonstrates a comparable accuracy to DFT calculations while reducing computational time from several hundred seconds to milliseconds. 3 Å was also found to be the most optimal radius across all models when encoding features for local atomic environments.

1H NMR Chemical Shift Changes as a Result of Introduction of Carbonyl-Containing Protecting Groups Observed in Bornol and Isoborneol

Complete assignments of the 1H NMR chemical shifts for monoterpenes, borneol, and isoborneol, and their derivatives in which the secondary hydroxy group is protected with an acetyl group or a benzoyl group, have been made in CDCl3 and C6D6. Upon the protection of the hydroxy group with the carbonyl functional groups, or acetyl or benzoyl groups, many protons constituting the bicyclic ring exhibited downfield and upfield shifts in the chemical shift values, aiding in the unambiguous assignments of protons and carbons.

Triantaspirols A-C and Paraphaeolactone Cs from Paraphaeosphaeria sp. KT4192: Sensitivity of CP3 in Distinguishing Close NMR Signals.

Hybridized spirobisnaphthalene derivatives, triantaspirols A-C (1-3) and paraphaeolactones C1 and C2 (4 and 5), were identified from the culture broth of the fungus Paraphaeosphaeria sp. KT4192. The NMR spectra of 2 and 3, as well as 4 and 5, closely resembled each other, indicating that these were pairs of diastereomers. Although this NMR spectral resemblance made it challenging to distinguish their relative configurations, detailed analysis of the electronic circular dichroism (ECD) spectra and NOE correlations allowed us to deduce them. The CP3 metric with the DFT-based NMR chemical shifts was found to distinguish configurations of diastereomers in a highly sensitive and accurate manner that DP4 could not account for because of the very close chemical shift differences in the experimental NMR spectra. The reliability of this method was assessed using 23 published examples which could not be distinguished by DP4 protocol.

An Actinide Complex with a Nucleophilic Allenylidene Ligand.

The reaction of [Cp3Th(3,3-diphenylcyclopropenyl)] (Cp = η5-C5H5) with 1 equiv of lithium diisopropylamide (LDA) results in cyclopropenyl ring opening and formation of the thorium allenylidene complex, [Li(Et2O)2][Cp3Th(CCCPh2)] ([Li(Et2O)2][1]), in good yield. Additionally, deprotonation of [Cp3Th(3,3-diphenylcyclopropenyl)] with 1 equiv of LDA, in the presence of 12-crown-4 or 2.2.2-cryptand, results in the formation of discrete cation/anion pairs, [Li(12-crown-4)(THF)][Cp3Th(CCCPh2)] ([Li(12-crown-4)(THF)][1]) and [Li(2.2.2-cryptand)][Cp3Th(CCCPh2)] ([Li(2.2.2-cryptand)][1]), respectively. Interestingly, the complex [Li(Et2O)2][1] undergoes dimerization upon standing at room temperature, resulting in the formation of [Cp2Th(μ:η1:η3-CCCPh2)]2 (2), via loss of LiCp. The reaction of [Li(Et2O)2][1] with MeI results in electrophilic attack at the Cγ carbon atom, leading to the formation of a thorium acetylide complex, [Cp3Th(C≡CC(Me)Ph2)] (3), which can be isolated in 83% yield upon workup, whereas the reaction of [Li(Et2O)2][1] with benzophenone results in the formation of 1,1,4,4-tetraphenylbutatriene (4) in 99% yield, according to integration against an internal standard. Density functional theory (DFT) calculations performed on [1]- and 2 reveal significant electron delocalization across the allenylidene ligand. Additionally, calculations of the 13C NMR chemical shifts for the Cα, Cβ, and Cγ nuclei of the allenylidene ligand were in good agreement with the experimental shifts. The calculations reveal modest deshielding induced by spin-orbital effects originating at Th due to the involvement of the 5f orbitals in the Th-C bonds. According to a DFT analysis, the cyclopropenyl ring-opening reaction proceeds via [Cp3Th(η1-3,3-Ph2-cyclo-C3)]- (IM), which features a carbanion character at Cβ.

Long-range conformational changes in the nucleotide-bound states of the DEAD-box helicase Vasa

DEAD-box helicases use ATP to unwind short double-stranded RNA (dsRNA). The helicase core consists of two discrete domains, termed RecA_N and RecA_C. The nucleotide binding site is harbored in RecA_N, while both RecA_N and RecA_C are involved in RNA recognition and ATP hydrolysis. In the absence of nucleotides or RNA, RecA_N and RecA_C do not interact (“open” form of the enzyme). In the presence of both RNA and ATP the two domains come together (“closed” form), building the composite RNA binding site and stimulating ATP hydrolysis. Because of the different roles and thermodynamic properties of the ADP-bound and ATP-bound states in the catalytic cycle, the conformations of DEAD-box helicases in complex with ATP and ADP are assumed to be different. However, the available crystal structures do not recapitulate these supposed differences and show identical conformations of DEAD-box helicases independent of the identity of the bound nucleotide. Here, we use NMR to demonstrate that the conformations of the ATP- and ADP-bound forms of the DEAD-box helicase Vasa are indeed different, contrary to the results from x-ray crystallography. These differences do not relate to the populations of the open and closed forms, but are intrinsic to the RecA_N domain. NMR chemical shift analysis reveals the regions of RecA_N where the average conformations of Vasa-ADP and Vasa-ATP are most different and indicates that these differences may contribute to modulating the affinity of the two nucleotide-bound complexes for RNA substrates.

Chemical structures of polyketides and alkaloids isolated from a culture of fungus Curvularia moringae

Seven new polyketides [moringols I–VII (1–7)], a new alkaloid [moringamine I (8)], and seven known compounds (9–15) were isolated from the fungus Curvularia moringae JKYM-KR4. The planar chemical structures and relative configurations of the new compounds were elucidated by high-resolution mass spectrometry, 1D and 2D NMR spectroscopy, and DP4+ analysis using the calculated 13C NMR chemical shifts. For moringols I and II (1 and 2), the planar chemical structures and relative configurations were confirmed using X-ray crystallography. The absolute configurations of 1–6 and 8 were determined by ECD calculations. Among the isolated compounds, terpestacin (14) moderately inhibited the proliferation of HT-29 cells.

Synthesis, Structural, Spectroscopic (NMR, FT-IR and UV-vis), NLO, in silico (ADMET and Molecular Docking) and DFT Investigations of a Flavonol Derivative 2-(4-chlorophenyl)-7-fluoro-3-hydroxy-4H-chromen-4-one

The geometric, spectroscopic and electronic features of the newly synthesized 3-Hydroxy-2-(4-chlorophenyl)-7-fluoro-4H-chromen-4-one have been analyzed using a combination of single crystal XRD, FT-IR, NMR shifts, and UV-Vis. spectroscopic methods both experimentally and theoretically. The molecule has crystallized in orthorhombic space group Pca21 and it has stabilized with C-H···O, O-H···O intra-molecular and O-H···O inter-molecular interactions. The geometric parameters (bond lengths and bond angles), vibrational wavenumbers, 1H and 13C NMR chemical shifts, UV-Vis. electronic transitions, the HOMO (highest occupied molecular orbital) and the LUMO (lowest unoccupied molecular orbital) analyses, NLO (non-linear optical properties) and the MEP (molecular electrostatic potential) surface have been computed by using the DFT/B3LYP quantum chemical method with 6-311++G(d,p) level of theory to compare with the experimental findings. Absorption bands of the molecule have computed around 300 and 360 nm, while observed at 244, 312 and 344 nm in the experimental UV-Vis. spectrum. Moreover, the mean polarizability value of the compound has been calculated 6.47 times greater than urea. The objective of the in silico investigation was to ascertain the biological effect profile of the title compound. The ADMETlab 2.0 web service has been employed to analyze the physicochemical, medicinal chemistry, metabolism, distribution, absorption, excretion and toxicity features of the compound. Its protein kinase CK2 inhibitory activity for the target macromolecule 5M4U has been investigated by means of a molecular docking study to investigate the anti-cancer activity of our flavonol derivative compound.