X-ray Crystallography Research Articles

1H, 15N and 13C resonance assignments of the S2A and H64A double mutant of human carbonic anhydrase II.

Protein-water interactions profoundly influence protein structure and dynamics. Consequently, the function of many biomacromolecules is directly related to the presence and exchange of water molecules. While structural water molecules can be readily identified through X-ray crystallography, the dynamics within functional protein-water networks remain largely elusive. Therefore, to understand the role of biological water in protein dynamics and function, we have introduced S2A and H64A mutations in human Carbonic Anhydrase II (hCAII), a model system to study protein-water interactions. The mutations of serine to alanine at position 2 and histidine to alanine at position 64 cause an increase in hydrophobicity in the N-terminus and active site loop thereby restricting water entry and disrupting the water network in the Zn2+-binding pocket. To pave the way for a detailed investigation into the structural, functional, and mechanistic aspects of the Ser2Ala/His64Ala double mutant of hCAII, we present here almost complete sequence-specific resonance assignments for 1H, 15N, and 13C. These assignments serve as the basis for comprehensive studies on the dynamics of the protein-water network within the Zn2+-binding pocket and its role in catalysis.

Reliability of AlphaFold2 Models in Virtual Drug Screening: A Focus on Selected Class A GPCRs.

Protein three-dimensional (3D) structure prediction is one of the most challenging issues in the field of computational biochemistry, which has overwhelmed scientists for almost half a century. A significant breakthrough in structural biology has been established by developing the artificial intelligence (AI) system AlphaFold2 (AF2). The AF2 system provides a state-of-the-art prediction of protein structures from nearly all known protein sequences with high accuracy. This study examined the reliability of AF2 models compared to the experimental structures in drug discovery, focusing on one of the most common protein drug-targeted classes known as G protein-coupled receptors (GPCRs) class A. A total of 32 representative protein targets were selected, including experimental structures of X-ray crystallographic and Cryo-EM structures and their corresponding AF2 models. The quality of AF2 models was assessed using different structure validation tools, including the pLDDT score, RMSD value, MolProbity score, percentage of Ramachandran favored, QMEAN Z-score, and QMEANDisCo Global. The molecular docking was performed using the Genetic Optimization for Ligand Docking (GOLD) software. The AF2 models' reliability in virtual drug screening was determined by their ability to predict the ligand binding poses closest to the native binding pose by assessing the Root Mean Square Deviation (RMSD) metric and docking scoring function. The quality of the docking and scoring function was evaluated using the enrichment factor (EF). Furthermore, the capability of using AF2 models in molecular docking to identify hits with key protein-ligand interactions was analyzed. The posing power results showed that the AF2 models successfully predicted ligand binding poses (RMSD < 2 Å). However, they exhibited lower screening power, with average EF values of 2.24, 2.42, and 1.82 for X-ray, Cryo-EM, and AF2 structures, respectively. Moreover, our study revealed that molecular docking using AF2 models can identify competitive inhibitors. In conclusion, this study found that AF2 models provided docking results comparable to experimental structures, particularly for certain GPCR targets, and could potentially significantly impact drug discovery.

Unsymmetrical ferrocene-based azines: Facile synthesis, investigation of spectral and electrochemical properties, and antibacterial activity

Ferrocenyl azines have been utilized in metal ion detection, as a ligand in the synthesis of metal complexes, in catalysis, in dye-sensitized solar cells, and in studies on antiparasitic, antitumor, and antileishmanial. However, most of the challenging synthesis routes require temperature control, expensive starting materials, and additional steps. In this research, a series of new unsymmetrical ferrocene-based azines (2a-j and 4a-j) were simply synthesized from the reaction of ferrocenecarboxaldehydehydrazone (1) and 1,1′-ferrocenedicarboxaldehydehydrazone (3) with various aryl aldehydes in moderate to good yield (40–80 %). All compounds were characterized using FT-IR, 1H and 13C NMR, and LC-MS. In addition, the molecular structure of 2b and 2h were determined by X-ray structure analysis. UV–Vis spectra of azines revealed weak absorbance in the 460–490 nm region for the d → d transition of Fe(II) and two strong absorbances in the range of 250–350 nm for π → π* and n → π* of aromatic rings and azine bridges. Cyclic voltammetry demonstrated higher half-wave potentials (E1/2) for all ferrocenyl azines in comparison to ferrocene as the internal standard, with a significant decrease of E1/2 for ferrocenyl-rich derivatives. The antibacterial activities of all synthesized ferrocenyl azines were also investigated against Staphylococcus aureus (gram-positive) and Escherichia coli (gram-negative) bacteria. Two ferrocene-rich compounds, 2i and 4j, have shown significant activity against Staphylococcus aureus.

Phosphorus-Nitrogen Compounds: Part 76. Design and Syntheses of Dispiro- and Trispiro(N/N)cyclotriphosphazenes: Conformational and Structural Analyses, Chirality, Electrochemical, Dye-Sensitized Solar Cells, and Bioactivity Studies.

The reactions of monospirocyclotriphosphazenes (1 and 2) with N-methyl-1,3-diaminopropane gave unsymmetrical cis-(3 and 5) and trans-(4 and 6) dispirocyclotriphosphazenes. Trans-cis-trans (tct) (7 and 11), cis-cis-cis (ccc) (8 and 12), trans-trans-cis (ttc) (9 and 13), and cis-trans-trans (ctt) (14) trispirocyclotriphosphazenes were obtained from the reactions of 3 and 5 and 4 and 6 with N-methyl-1,3-diaminopropane. cis-Dispirocyclotriphosphazenes (3 and 5) exist as "pseudomesoracemates", while trans-dispirocyclotriphosphazenes (4 and 6) are in "racemates". The existences of cis-3 and trans-4 as "pseudomesoracemate" and "racemate" were confirmed by 31P NMR spectra recorded by the addition of "chiral solvating agent (CSA)". X-ray crystallography proved that the absolute configurations of each enantiomer of cis-5 and trans-6 are SS' and RS'. Trispirocyclotriphosphazenes tct, ttc, ccc, and ctt exist as racemates, pseudomesoracemate, and meso forms. Furthermore, Hirshfeld surface analysis of the crystal structures of cis-5 and trans-6 revealed that the most significant contribution to crystal packing comes from H···H (58.2 and 57.6%, respectively). An oxidation-reduction wave was detected in the reversible cyclic voltammograms of the phosphazenes. The highest power conversion efficiency in dye-sensitized solar cell studies was obtained with cis-5. Additionally, trans-6 exhibited the lowest minimal inhibitory concentration value (78.1 μM) against Candida tropicalis, and it was observed to cleave pBR322 plasmid DNA.

Deep-Learning-Driven Discovery of SN3-1, a Potent NLRP3 Inhibitor with Therapeutic Potential for Inflammatory Diseases.

The NLRP3 inflammasome plays a central role in the pathogenesis of various intractable human diseases, making it an urgent target for therapeutic intervention. Here, we report the development of SN3-1, a novel orally potent NLRP3 inhibitor, designed through a lead compound strategy centered on deep-learning-based molecular generative models. Our strategy enables rapid fragment enumeration and takes into account the synthetic accessibility of the compounds, thereby significantly enhancing the optimization of lead compounds and facilitating the discovery of potent inhibitors. X-ray crystallography provided insights into the SN3-1 inhibitory mechanism. SN3-1 has shown a favorable safety profile in both acute and chronic toxicity assessments and exhibits robust pharmacokinetic properties. Furthermore, SN3-1 demonstrated significant therapeutic efficacy in various disease models characterized by NLRP3 activation. This study introduces a potent candidate for developing NLRP3 inhibitors and significantly expands the repertoire of tools available for the discovery of novel inhibitors.

Innovative Ag@Cu/white sand and polysaccharide based nanocomposites: A simple route to conductive and antibacterial paper coatings

In this work, we presented a simple method for preparing nanocomposite pigments via doping the naturally occurring white sand pigment using silver (Ag) and copper (Cu). The nanocomposites (Ag@WS, Cu@WS, and Ag&Cu@WS) were produced in two suspensions at 25 % and 50 % w/v concentrations, utilizing casein (Cas) and nanostarch (NanoSt) as bio-friendly binders. The prepared nanocomposite pigments were characterized using Fourier transform infrared spectroscopy (FTIR), X-ray diffraction crystallography (XRD), and dynamic light scattering (DLS), as well as topographical analysis including scanning electron microscopy (SEM), EDX, and transmission electron microscopy (TEM). The coated paper sheets were characterized using topographical analysis and mechanical, optical, physical, and electrical properties. The antimicrobial activity assay was carried out on the coated paper sheets using the most infectious microbial pathogens. FTIR and XRD analyses confirmed the presence of Cas and NanoSt in the samples. The addition of white sand (WS) and doped nano-metals influenced the crystallographic structure of the polysaccharides. A small amount of Ag, Cu, and Ag&Cu nanoparticles was investigated through EDX. The white sand was a plate structure decorated with spherical Ag, Cu, and Ag&Cu nanoparticles, with an average size of about 147, 105, and 78 nm, as observed from TEM images and DLS. The antimicrobial activity assays revealed that nanocomposite pigment embedded with bimetallic Ag&Cu nanoparticles exhibited a synergistic effect, resulting in enhanced broad-spectrum antibacterial and antifungal activities. The electrical performance of the coated paper was enhanced by using Ag&Cu@WS nanocomposite pigment. Incorporating 50 % Cu@WS into the coating resulted in significant improvements in the mechanical properties of the paper. Specifically, tensile strength increased by 6.3 N/mm, tensile index by 69.06 N m/g, stretching by 1.68 %, tensile energy absorption by 71.4 J/m2, burst strength by 257.75 kPa, and burst index by 2.83 kPa m2/g. Furthermore, incorporating 50 % Ag&Cu@WS increased the opacity to 93.2 % and reduced the roughness of the coated paper by 36 % compared to using 50 % Ag@WS or 50 % Cu@WS alone.

CBL mutations in chronic myelomonocytic leukemia often occur in the RING domain with multiple subclones per patient: Implications for targeting

Chronic myelomonocytic leukemia (CMML) is a rare blood cancer of older adults (3 in every 1,000,000 persons) characterized by poor survival and lacking effective mutation-specific therapy. Mutations in the ubiquitin ligase Cbl occur frequently in CMML and share biological and molecular features with a clonal disease occurring in children, juvenile myelomonocytic leukemia (JMML). Here we analyzed the clinical presentations, molecular features and immunophenotype of CMML patients with CBL mutations enrolled in a prospective Phase II clinical trial stratified according to molecular markers. Clinically, CBL mutations were associated with increased bone marrow blasts at diagnosis, leukocytosis and splenomegaly, similar to patients harboring NRAS or KRAS mutations. Interestingly, 64% of patients presented with more than one CBL variant implying a complex subclonal architecture, often with co-occurrence of TET2 mutations. We found CBL mutations in CMML frequently clustered in the RING domain in contrast to JMML, where mutations frequently involve the linker helix region (P&lt;0.0001). According to our comparative alignment of available X-ray structures, mutations in the linker helix region such as Y371E give rise to conformational differences that could be exploited by targeted therapy approaches. Furthermore, we noted an increased percentage of CMML CD34+ stem and progenitor cells expressing CD116 and CD131 in all CBL mutant cases and increased CD116 receptor density compared to healthy controls, similar to CMML overall. In summary, our data demonstrate that CBL mutations are associated with distinct molecular and clinical features in CMML and are potentially targetable with CD116-directed immunotherapy.

How Cryo-EM Revolutionized the Field of Bioenergetics

Abstract Ten years ago, the term “resolution revolution” was used for the first time to describe how cryogenic electron microscopy (cryo-EM) marked the beginning of a new era in the field of structural biology, enabling the investigation of previously unsolvable protein targets. The success of cryo-EM was recognized with the 2017 Chemistry Nobel Prize and has become a widely used method for the structural characterization of biological macromolecules, quickly catching up to x-ray crystallography. Bioenergetics is the division of biochemistry that studies the mechanisms of energy conversion in living organisms, strongly focused on the molecular machines (enzymes) that carry out these processes in cells. As bioenergetic enzymes can be arranged in complexes characterized by conformational heterogeneity/flexibility, they represent challenging targets for structural investigation by crystallography. Over the last decade, cryo-EM has therefore become a powerful tool to investigate the structure and function of bioenergetic complexes; here, we provide an overview of the main achievements enabled by the technique. We first summarize the features of cryo-EM and compare them to x-ray crystallography, and then, we present the exciting discoveries brought about by cryo-EM, particularly but not exclusively focusing on the oxidative phosphorylation system, which is a crucial energy-converting mechanism in humans.

Crystal Structure, Photophysical Properties and Antibacterial Activity of a Cd(II) Complex with Trans-2,3,4-Trimethoxycinnamic Acid and 4,4'-Bipyridine Ligands.

A new coordination polymer {[Cd(C12H13O5)2(4,4'-bpy)(H2O)2]}n (Cd-Tmca-bpy) was constructed with trans-2,3,4-Trimethoxycinnamic acid (HTmca) and 4,4'-Bipyridine (4,4'-bpy) ligands. This complex was structurally characterized on the basis of elemental analysis, infrared (IR) spectroscopy, powder X-ray diffraction and thermogravimetric analyses. X-ray crystallography revealed that the complex was monoclinic, space group C2/c. The Cd(II) ion in the complex was six coordinated, adopting an octahedron geometry. The neighboring Cd(II) ions linked linear ligand 4,4'-bpy molecules to form an infinite 1D chain. The 1D chain was further interlinked by O-H···O and C-H···O hydrogen bonds, resulting in a 3-D supramolecular framework. Meanwhile, the photoluminescence spectrum of the Cd(II) complex at room temperature exhibited an emission maximum at 475 nm. Using the time-dependent density functional theory (TD-DFT) method, the electronic absorption spectra of the Cd(II) complex was predicted. A good agreement was achieved between the predicted spectra and the experimental data. Bioactivity studies showed that the complex exhibited significant inhibition halos against Pseudomonas aeruginosa (P. aeruginosa) and Staphylococcus aureus (S. aureus).

Development of a high throughput cytochrome P450 ligand-binding assay

Human cytochrome P450 enzymes are membrane-embedded monooxygenases responsible for xenobiotic metabolism, steroidogenesis, fatty acid metabolism, and vitamin metabolism. Their active sites can accommodate diverse small molecules and understanding these interactions is key to decoding enzymatic functionality and designing drugs. The most common method for characterizing small molecule binding is quantifying absorbance changes that typically occur when ligands enter the active site near the heme iron. Traditionally, such titrations are monitored by a spectrophotometer, requiring significant manual time, protein, and increasing solvents. This assay was adapted for semi-automated high throughput screening, increasing throughput 50-fold while requiring less protein and keeping solvent concentrations constant. This 384-well assay was validated for both type I and II shifts typically observed for substrates and heme-coordinating inhibitors, respectively. This assay was used to screen a library of ∼100 diverse imidazole-containing compounds which can coordinate with the heme iron if compatible with the overall active site. Three human cytochrome P450 enzymes were screened: drug-metabolizing CYP2A6 and CYP2D6 and sterol-metabolizing CYP8B1. Each bound different sets of imidazole compounds with varying Kd values, providing a unique binding fingerprint. As a final validation, the Kd values were used to generate pharmacophores to compare to experimental X-ray structures. Applications for the high-throughput assay include the following: 1) facilitating generation of pharmacophores for enzymes where structures are not available, 2) screening to identify ligands for P450 orphans, 3) screening for inhibitors of P450s drug targets, 4) screening potential new drugs to avoid and/or control P450 metabolism, and 5) efficient validation of computational ligand binding predictions.

Structural characteristics of glycine aggregates grown under sub-Terahertz irradiation

Although crystal growth methods in which intramolecular bonds are induced by infrared irradiation have been investigated recently, there is very little reported on the use of electromagnetic waves to enhance growth rates. In this study, we have irradiated with 40 GHz sub-Terahertz waves during the solution growth of glycine and investigated the effect on crystal growth. Highly crystalline α-glycine grew with or without irradiation and aggregates were formed. The growth rate, however, was strongly affected by sub-Terahertz wave irradiation, with the growth rate from nucleation approximately doubling. Powder X-ray structure analysis showed that the unique diffraction peaks of glycine tended to partially shift to lower angles, with the (−110) plane and (011) plane spacing expanding by about 0.1 % and 0.15 %, respectively. The FTIR results in the terahertz region show a large absorption near 6 THz, suggesting that the structure contains water molecules.

Asymmetric tridentate Schiff base ligand based mononuclear Zn(II) and Hg(II) complexes: Synthesis, structure, spectroscopic studies, thermal studies, and DFT calculation

Two novel mononuclear metal(II) complexes with an asymmetric tridentate Schiff base ligand, and azide/chloride anions, namely [ZnL(N3)2] (1) and [HgL(Cl)2] (2) (L = (pyridin-2yl)methylimino)-2-ethylpyridine), have been synthesized and structurally characterized by elemental analysis, single crystal X-ray crystallography, FT-IR, NMR, UV–vis electronic absorption spectroscopic analysis. The metal in both the complexes displays a pentacoordination environment realized by the tridentate Schiff base and counter anions. The coordination geometry of Zn in complex 1 is in between a trigonal bipyramidal and square pyramidal, whereas Hg in complex 2 shows a distorted square pyramidal. Theoretical DFT/TD-DFT calculation data performed using B3LYP functional with LanL2MB basis set, compared with values of experimental measurements, have shown a reasonable accord. The thermal stability of both complexes has been studied.

Synthesis, Spectroscopic, SC-XRD/DFT and Nonlinear Optical Response of New Halogenated Schiff Base Ligand and its Square Planar Complexes

This study details the synthesis and characterization analysis of a of new halogenated Schiff base ligand (E)-4-((5‑bromo-2-hydroxybenzyldene) amino) butanoic acid (HL) and its Square Planar trans-L2 Cu(II) complex. Characterization was performed using a suite of spectroscopic techniques, including 1H and 13C NMR, FT-IR, Raman, and UV–Vis spectroscopy, with thorough explanations and discussions of the spectral data. The structure of ligand and its complex CuL2 were elucidated through single-crystal X-ray crystallography. Additionally, the study extended to the computational domain, where the structural optimization, reactivity descriptors, and linear optical properties, as well as the static and dynamic first and second hyperpolarizabilities of HL, Cr(II)L2, Mn(II)L2, Co(II)L2 and Cu(II)L2 were investigated using DFT and TD-DFT calculation. Our results indicate that the second hyperpolarizability escalates as the atomic number of the transition metal increases. Moreover, it is inferred that the ligand examined holds the potential to be a superior material for second-order nonlinear optical applications.

Rotaxane Formation from Borate Ion-Containing Crown Ether and Ammonium Ion: Enhancement of Their Association through Ion-Pairing.

We synthesized [2]rotaxanes featuring a catechol borate ion-containing crown ether and secondary ammonium ions. These rotaxane components show both ion-ion interactions and hydrogen bonds. X-ray crystallography and NMR spectroscopy allowed elucidation of the rotaxane structure. Moreover, 1H NMR spectroscopy revealed the rotaxane synthesis can be thermodynamically controlled. The binding affinity between the borate-containing crown ether and ammonium ions is enhanced by ion-pairing.

Novel copper complex inhibits the proteasome in skin squamous cell carcinoma induced by DMBA in mice

The proteasomal system is becoming a target for the treatment of several diseases, especially in cancer therapy. The present study aims to develop a novel copper complex that inhibits the proteasome in skin squamous cell carcinoma. New molecules based on the copper complex were synthesized for the first time to assess their potential as proteasome inhibitors, specifically targeting squamous cell carcinoma induced by 7,12-dimethylbenz(a)anthracene (DMBA) in mouse models. Fourier Transform Infrared (FTIR), X-ray diffraction (XRD), scanning electron microscopy (SEM), nuclear magnetic resonance (NMR), and energy dispersive X-ray analysis (EDX) were carried out to characterize this new copper complex. Notably, the presence of a papilloma (skin tumor) was confirmed by histopathological analysis. Subsequent investigation included the quantification of proteasome levels using a sandwich ELISA test, and the catalytic activity of the 20S proteasome was determined by measuring the fluorescence emitted after the cleavage of 7-amino-4-methylcoumarin (AMC). Hence, X-ray crystallography indicates that all Cu atoms are five-coordinated in a square-pyramidal configuration and biological activity of copper Schiff base complex, which exhibits high proteasome inhibitory activities with particular selectivity of β5 subunit. The pharmacokinetic properties (ADMET) of the copper complex named Cu(L1) showed encouraging results with very low toxicity, distribution, and absorption. Structure–activity relationship (SAR) information obtained from Cu(L1) demonstrated its selectivity and potent inhibition for β5 subunit. In this regard, this copper complex has emerged as a novel therapy for skin cancer.

Utilizing anomalous signals for element identification in macromolecular crystallography.

AlphaFold2 has revolutionized structural biology by offering unparalleled accuracy in predicting protein structures. Traditional methods for determining protein structures, such as X-ray crystallography and cryo-electron microscopy, are often time-consuming and resource-intensive. AlphaFold2 provides models that are valuable for molecular replacement, aiding in model building and docking into electron density or potential maps. However, despite its capabilities, models from AlphaFold2 do not consistently match the accuracy of experimentally determined structures, need to be validated experimentally and currently miss some crucial information, such as post-translational modifications, ligands and bound ions. In this paper, the advantages are explored of collecting X-ray anomalous data to identify chemical elements, such as metal ions, which are key to understanding certain structures and functions of proteins. This is achieved through methods such as calculating anomalous difference Fourier maps or refining the imaginary component of the anomalous scattering factor f''. Anomalous data can serve as a valuable complement to the information provided by AlphaFold2 models and this is particularly significant in elucidating the roles of metal ions.

An allosteric cyclin E-CDK2 site mapped by paralog hopping with covalent probes.

More than half of the ~20,000 protein-encoding human genes have paralogs. Chemical proteomics has uncovered many electrophile-sensitive cysteines that are exclusive to subsets of paralogous proteins. Here we explore whether such covalent compound-cysteine interactions can be used to discover ligandable pockets in paralogs lacking the cysteine. Leveraging the covalent ligandability of C109 in the cyclin CCNE2, we substituted the corresponding residue in paralog CCNE1 to cysteine (N112C) and found through activity-based protein profiling that this mutant reacts stereoselectively and site-specifically with tryptoline acrylamides. We then converted the tryptoline acrylamide-CCNE1-N112C interaction into in vitro NanoBRET (bioluminescence resonance energy transfer) and in cellulo activity-based protein profiling assays capable of identifying compounds that reversibly inhibit both the N112C mutant and wild-type CCNE1:CDK2 (cyclin-dependent kinase 2) complexes. X-ray crystallography revealed a cryptic allosteric pocket at the CCNE1:CDK2 interface adjacent to N112 that binds the reversible inhibitors. Our findings, thus, show how electrophile-cysteine interactions mapped by chemical proteomics can extend the understanding of protein ligandability beyond covalent chemistry.

Supramolecular assembly mediated through NH···OX (X = C, N, P) hydrogen bonds and Y···π (Y = Br, π) contacts: Structural/computational studies of the P(O)(NHC(O)C6H4-3-NO2)(NHC6H4-3-Br)2 phosphoric triamide

Supramolecular assembly is studied in the structure of N,N'-bis(3‑bromo-phenyl)-N"-(3-nitro-benzoyl)phosphoric triamide, P(O)(NHC(O)C6H4-3-NO2)(NHC6H4-3-Br)2, I, by X-ray crystallography combined with quantum chemical calculations. The asymmetric unit of I is composed of two symmetry-independent molecules that show differences in some torsion angles, especially the ones related to the rotation of amine moieties. The conformations of amine moieties in two molecules are considered based on the resembling P—N—C—C/OP—N—C torsion angles, which associate with the ±sp/+sc conformations in one molecule and –sc/+sp and –sp/–sc conformations in the other molecule (sp = synperiplanar and sc = synclinal). In the crystal structure, the molecules are connected through N—H···OX (X = P, C, N) hydrogen bonds, forming a two-dimensional architecture along the bc plane. The C—H···O/π···π interactions do not change the dimensionality made by N—H···O hydrogen bonds, while the participation of Br···π interactions creates a three-dimensional network. The title structure represents the first observation of Br···π interaction in the C(O)NHP(O)-based family. The methods of Atoms in Molecules (AIM), Natural Bond Orbital (NBO) and Reduced Density Gradient (RDG) are used for the study of noncovalent interactions.

Neptunyl Pyrrophen Complexes: Exploring Schiff Base Chemistry with Multidentate Acyclic Ligands and Transuranics.

We report the synthesis, structure, and characterization of two novel neptunyl complexes (NpO2L1 and NpO2L2) constructed from phenylene-substituted benzyl ester bis(pyrrole)phenylenediamine (named "pyrrophen") ligands. In both cases, the neptunium center exists in the +6 oxidation state,. As our specific interest is in exploring the chemistry of neptunium compounds containing the linear neptunyl ion (NpO2 2+) through equatorially coordinating the metal by multidentate organic ligands, we have identified the differences that are likely to cause discrepancy between the two complexes by examining the ions and their coordinative environments through single-crystal X-ray crystallography, diffuse reflectance, and Raman spectroscopy. This is the first time pyrrophen has been utilized in Np chemistry and demonstrates a new platform to study 5 f electron participation and coordination.

A Bioorthogonal Precision Tool for Human N-Acetylglucosaminyltransferase V.

Correct elaboration of N-linked glycans in the secretory pathway of human cells is essential in physiology. Early N-glycan biosynthesis follows an assembly line principle before undergoing crucial elaboration points that feature the sequential incorporation of the sugar N-acetylglucosamine (GlcNAc). The activity of GlcNAc transferase V (MGAT5) primes the biosynthesis of an N-glycan antenna that is heavily upregulated in cancer. Still, the functional relevance and substrate choice of MGAT5 are ill-defined. Here, we employ protein engineering to develop a bioorthogonal substrate analog for the activity of MGAT5. Chemoenzymatic synthesis is used to produce a collection of nucleotide-sugar analogs with bulky, bioorthogonal acylamide side chains. We find that WT-MGAT5 displays considerable activity toward such substrate analogues. Protein engineering yields an MGAT5 variant that loses activity against the native nucleotide sugar and increases activity toward a 4-azidobutyramide-containing substrate analogue. By such restriction of substrate specificity, we show that the orthogonal enzyme-substrate pair is suitable to bioorthogonally tag glycoproteins. Through X-ray crystallography and molecular dynamics simulations, we establish the structural basis of MGAT5 engineering, informing the design rules for bioorthogonal precision chemical tools.