Chemistry / Kimya
Permanent URI for this collectionhttps://hdl.handle.net/11147/4072
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Article Citation - WoS: 3Citation - Scopus: 3Structural and Functional Analyses of Gh51 Alpha-L of Geobacillus Vulcani Gs90 Reveal Crucial Residues for Catalytic Activity and Thermostability(Wiley, 2022) Sürmeli, Yusuf; Şanlı Mohamed, GülşahAlpha-L-arabinofuranosidase (Abf) is of big interest in various industrial areas. Directed evolution is a powerful strategy to identify significant residues underlying Abf properties. Here, six active variants from GH51 Abf of Geobacillus vulcani GS90 (GvAbf) by directed evolution were overproduced, extracted, and analyzed at biochemical and structural levels. According to the activity and thermostability results, the most-active and the least-active variants were found as GvAbf51 and GvAbf52, respectively. GvAbf63 variant was more active than parent GvAbf by 20% and less active than GvAbf51. Also, the highest thermostability belonged to GvAbf52 with 80% residual activity after 1 h. Comparative sequence and structure analyses revealed that GvAbf51 possessed L307S displacement. Thus, this study suggested that L307 residue may be critical for GvAbf activity. GvAbf63 had H30D, Q90H, and L307S displacements, and H30 was covalently bound to E29 catalytic residue. Thus, H30D may decrease the positive effect of L307S on GvAbf63 activity, preventing E29 action. Besides, GvAbf52 possessed S215N, L307S, H473P, and G476C substitutions and S215 was close to E175 (acid–base residue). S215N may partially disrupt E175 action. Overall effect of all substitutions in GvAbf52 may result in the formation of the C–C bond between C171 and C213 by becoming closer to each other.Article Citation - WoS: 4Citation - Scopus: 4Identification of a Magnetic Phase Via a Raman Spectrum in Single-Layer Mnse: an Ab Initio Study(Elsevier, 2022) Yayak, Yankı Öncü; Şahin, Hasan; Yağmurcukardeş, MehmetMotivated by the recent experimental realization of single-layer two-dimensional MnSe [ACS Nano2021, 15, 13794-13802], structural, magnetic, elastic, vibrational, and electronic properties of single-layer MnSe are investigated by using density functional theory-based calculations. Among four different magnetic phases, namely, ferromagnetic (FM) and Nẽel-, zigzag-, and stripy-antiferromagnetic (AFM) phases, the Nẽel-AFM structure is found to be the energetically most favorable phase. Structural optimizations show the formation of in-plane anisotropy within the structures of zigzag- and stripy-AFM phases in single-layer MnSe. For the dynamically stable four magnetic phases, predicted Raman spectra reveal that each phase exhibits distinctive vibrational features and can be distinguished from each other. In addition, the elastic constants indicate the mechanical stability of each magnetic phase in single-layer MnSe and reveal the soft nature of each phase. Moreover, electronic band dispersion calculations show the indirect band gap semiconducting nature with varying electronic band gap energies for all magnetic phases. Furthermore, the atomic orbital-based density of states reveals the existence of out-of-plane orbitals dominating the top valence states in zigzag- and stripy-AFM phases, giving rise to the localized states. The stability of different magnetic phases and their distinct vibrational and electronic properties make single-layer MnSe a promising candidate for nanoelectronic and spintronic applications.Article Citation - WoS: 4Citation - Scopus: 4A Cyclopalladated Bodipy Construct as a Fluorescent Probe for Carbon Monoxide(Wiley, 2022) Çevik Eren, Merve; Eren, Ahmet; Dartar, Suay; Tütüncü, Büşra Buse; Emrullahoğlu, MustafaBy introducing a palladium ion into the backbone of BODIPY, we devised a cyclopalladated BODIPY construct that was almost non-emissive in the absence of any analyte but became highly fluorescent upon interacting with carbon monoxide (CO) in solution and in living cells. A process of ortho-carbonylation and depalladation mediated by the specific binding of CO to palladium, promoted the release of the heavy atom from the fluorophore and consequently generated a fluorescence signal with an exceptionally high (60-fold) enhancement ratio.Article Citation - WoS: 3Citation - Scopus: 1Transition Metal Salt Promoted, Green, and High-Yield Synthesis of Silver Nanowires for Flexible Transparent Conductive Electrodes(Wiley-Blackwell, 2021) Sarısözen, Sema; Tertemiz, Necip Ayhan; Arıca, Tuğçe Aybüke; Polat, Nahit; Kocabaş, Çoşkun; Mert Balcı, Fadime; Balcı, SinanSilver nanowires (AgNWs) have attracted considerable interest from both academia and industry owing to their excellent electrical, optical, and chemical properties. For large-scale synthesis of AgNWs, the polyol method involving ethylene glycol, a toxic alcohol, has been widely used. We herein report on a facile, green, high yield, transition metal salt promoted, open atmosphere method for the synthesis of high quality AgNWs in a glycerol-water mixture. We have shown that transition metal salts have a strong influence on the morphology of AgNWs. Importantly, in the presence of copper(II) chloride, AgNWs with a high aspect ratio of around 400 (length, 36 μm; diameter, 90 nm) were obtained. Additionally, for the first time, we have demonstrated AgNWs based flexible transparent conductive electrodes (TCEs) on poly(sodium 4-styrenesulfonate) (PSS) treated polyethylene terephthalate (PET) substrate with a sheet resistance of 34 Ω/sq and transmittance of 91 % at 550 nm. The PSS layer on the PET substrate generated a highly hydrophilic surface, which boosts interaction of AgNWs with the PET surface. We envision that our results would play a significant role both in the synthesis of AgNWs with high aspect ratio and also in designing new rigid and flexible TCEs having high transmittance and low sheet resistance for applications especially in printable solar cells, organic light emitting diodes, and high performance flexible electronics.