DeepNGlyPred: A Deep Neural Network-Based Approach for Human N-Linked Glycosylation Site Prediction

Protein N-linked glycosylation is a post-translational modification that plays an important role in a myriad of biological processes. Computational prediction approaches serve as complementary methods for the characterization of glycosylation sites. Most of the existing predictors for N-linked glycosylation utilize the information that the glycosylation site occurs at the N-X-[S/T] sequon, where X is any amino acid except proline. Not all N-X-[S/T] sequons are glycosylated, thus the N-X-[S/T] sequon is a necessary but not sufficient determinant for protein glycosylation. In that regard, computational prediction of N-linked glycosylation sites confined to N-X-[S/T] sequons is an important problem. Here, we report DeepNGlyPred a deep learning-based approach that encodes the positive and negative sequences in the human proteome dataset (extracted from N-GlycositeAtlas) using sequence-based features (gapped-dipeptide), predicted structural features, and evolutionary information. DeepNGlyPred produces SN, SP, MCC, and ACC of 88.62%, 73.92%, 0.60, and 79.41%, respectively on N-GlyDE independent test set, which is better than the compared approaches. These results demonstrate that DeepNGlyPred is a robust computational technique to predict N-Linked glycosylation sites confined to N-X-[S/T] sequon. DeepNGlyPred will be a useful resource for the glycobiology community.     

Directed Evolution of an Iron(II)- and α-Ketoglutarate-Dependent Dioxygenase for Site-Selective Azidation of Unactivated Aliphatic C−H Bonds**

Fe^II- and α-ketoglutarate-dependent halogenases and oxygenases can catalyze site-selective functionalization of C−H bonds via a variety of C−X bond forming reactions, but achieving high chemoselectivity for functionalization using non-native functional groups remains rare. The current study shows that directed evolution can be used to engineer variants of the dioxygenase SadX that address this challenge. Site-selective azidation of succinylated amino acids and a succinylated amine was achieved as a result of mutations throughout the SadX structure. The installed azide group was reduced to a primary amine, and the succinyl group required for azidation was enzymatically cleaved to provide the corresponding amine. These results provide a promising starting point for evolving additional SadX variants with activity on structurally distinct substrates and for enabling enzymatic C−H functionalization with other non-native functional groups.     

Coordination and Activation of N2 at Low-Valent Magnesium using a Heterobimetallic Approach: Synthesis and Reactivity of a Masked Dimagnesium Diradical**

The activation of dinitrogen (N₂) by transition metals is central to the highly energy intensive, heterogeneous Haber–Bosch process. Considerable progress has been made towards more sustainable homogeneous activations of N₂ with d- and f-block metals, though little success has been had with main group metals. Here we report that the reduction of a bulky magnesium(II) amide [(^TCHPNON)Mg] (^TCHPNON=4,5-bis(2,4,6-tricyclohexylanilido)-2,7-diethyl-9,9-dimethyl-xanthene) with 5 % w/w K/KI yields the magnesium-N₂ complex [{K(^TCHPNON)Mg}₂(μ-N₂)]. DFT calculations and experimental data show that the dinitrogen unit in the complex has been reduced to the N₂²⁻ dianion, via a transient anionic magnesium(I) radical. The compound readily reductively activates CO, H₂ and C₂H₄, in reactions in which it acts as a masked dimagnesium(I) diradical.     

A Luminescent Zinc(II) Coordination Polymer for Selective Detection of Fe3+ and Cr2O72− in Water and Catalytic CO2 Fixation

Fluorescence-based detection technique using coordination polymer has been considered an attractive alternative over conventional approaches. Herein, a new luminescent zinc(II) coordination polymer, [Zn(4-ABPT)(NIPA)(H₂O)], SSICG-5 , is synthesized by using a Lewis acidic Zn(II) ion, aromatic nitro group containing ligand 5-nitroisophthalic acid (H₂NIPA), and basic −NH₂ rich ligand 3,5-di(pyridine-4-yl)-4H-1,2,4-triazol-4-amine (4-ABPT). SSICG-5 can detect Fe³⁺ and Cr₂O₇²⁻ selectively with a LOD of 0.16 μM and 1.94 μM, respectively. Additionally, carbon dioxide (CO₂) fixation via one-pot CO₂ cycloaddition reaction has significant importance for reduced waste formation, minimizing reaction time and lowering chemical usage. Zn metal centre of SSICG-5 possesses a replaceable coordinated water molecule. The active metal sites combined with the Lewis acidic and basic sites of the ligands make SSICG-5 an ideal bifunctional heterogeneous catalyst for efficient CO₂ cycloaddition reaction under room temperature (RT), solvent-free conditions. Notably, SSICG-5 exhibits near quantitative conversion (turnover number (TON) of 198) of propylene oxide to its carbonate compound under mild reaction conditions.     

Correction to: Non‑precious transition metal‑based counter electrodes for dye‑sensitized solar cells

Journal of Solid State Electrochemistry -     

Lattice Mismatch Guided Nickel-Indium Heterogeneous Alloy Electrocatalysts for Promoting the Alkaline Hydrogen Evolution

The immiscibility of crystallographic facets in multi-metallic catalysts plays a key role in driving the green H₂ production by water electrolysis. The lattice mismatch between tetragonal In and face-centered cubic (fcc) Ni is 14.9 % but the mismatch with hexagonal close-packed (hcp) Ni is 49.8 %. Hence, in a series of Ni−In heterogeneous alloys, In is selectively incorporated in the fcc Ni. The 18–20 nm Ni particles have 36 wt % fcc phase, which increases to 86 % after In incorporation. The charge transfer from In to Ni, stabilizes the Ni⁰ state and In develops a fractional positive charge that favors *OH adsorption. With only 5 at% In, 153 mL h⁻¹ H₂ is evolved at −385 mV with mass activity of 57.5 A g⁻¹ at—400 mV, 200 h stability at −0.18 V versus reversible hydrogen electrode (RHE), and Pt-like activity at high current densities, due to the spontaneous water dissociation, lower activation energy barrier, optimal adsorption energy of OH⁻ ions and the prevention of catalyst poisoning.     

A Photolabile Curcumin-Diazirine Analogue Enables Phototherapy with Physically and Molecularly Produced Light for Alzheimer's Disease Treatment**

The development of Alzheimer's disease (AD) drugs has recently witnessed substantial achievement. To further enhance the pool of drug candidates, it is crucial to explore non-traditional therapeutic avenues. In this study, we present the use of a photolabile curcumin-diazirine analogue, CRANAD-147, to induce changes in properties, structures (sequences), and neurotoxicity of amyloid beta (Aβ) species both in cells and in vivo. This manipulation was achieved through irradiation with LED light or molecularly generated light, dubbed as “molecular light”, emitted by the chemiluminescence probe ADLumin-4. Next, aided by molecular chemiluminescence imaging, we demonstrated that the combination of CRANAD-147/LED or CRANAD-147/ADLumin-4 (molecular light) could effectively slow down the accumulation of Aβs in transgenic 5xFAD mice in vivo. Leveraging the remarkable tissue penetration capacity of molecular light, phototherapy employing the synergistic effect of a photolabile Aβ ligand and molecular light emerges as a promising alternative to conventional AD treatment interventions.     

Dinuclear PdII complexes bearing mixed NHC/Py/PPh3 donor set ligands: Catalytic applications and electrochemical investigations

Bimetallic palladium(II) complexes containing classical NHC donor ligands are becoming increasingly popular owing to their various catalytic applications. However, examples of the aforementioned complexes with mixed NHC/PPh₃ ligands are still rare. Bimetallic palladium(II) complexes possessing these mixed ligands are described starting from a C2-symmetric bis-imidazolium salt containing 4,4′-substituted central biphenyl ring. All the palladium(II) complexes have been tested as precatalysts in α-arylation of oxindole and Suzuki–Miyaura coupling reactions. The complex composed of mixed NHC/PPh₃ donor ligands shows superior catalytic activity compared with the corresponding PEPPSI type complexes when applied in α-arylation of oxindole. The dinuclear complexes display better activity compared with the mononuclear complexes. The preliminary electrochemical measurements show the facile oxidation of Pd^II in the presence of combined NHC/PPh₃ ligands compared with a combination of NHC/Py ligands.     

Cation-Promoted Strain-Release-Driven Access to Functionalized Azetidines from Azabicyclo[1.1.0]butanes

Access to 1,3-functionalized azetidines through a diversity-oriented approach is highly sought-after for finding new applications in drug-discovery. To this goal, strain-release-driven functionalization of azabicyclo[1.1.0]-butane (ABB) has generated significant interest. Through appropriate N-activation, C3-substituted ABBs are shown to render tandem N/C3-fucntionalization/rearrangement, furnishing azetidines; although, modalities of such N-activation vis-à-vis N-functionalization remain limited to selected electrophiles. This work showcases a versatile cation-driven activation strategy of ABBs. And capitalizes on the use of Csp³ precursors amenable to forming reactive (aza)oxyallyl cations in situ. Herein, N-activation leads to formation of a congested C−N bond, and effective C3 activation. The concept was extended to formal [3+2] annulations involving (aza)oxyallyl cations and ABBs, leading to bridged bicyclic azetidines. Besides the fundamental appeal of this new activation paradigm, operational simplicity and remarkable diversity should engender its prompt use in synthetic and medicinal chemistry.