1. Comparative simulative analysis and design of single-chain self-assembled protein cagesFei Xiao, Longfei Luo, Xin Liu, Ajasja Ljubetič, Nengzhi Jin, Roman Jerala, Guang Hu, 2024, izvirni znanstveni članek Povzetek: Coiled-coil protein origami (CCPO) is a modular strategy for the de novo design of polypeptide nanostructures. It represents a type of modular design based on pairwise-interacting coiled-coil (CC) units with a single-chain protein programmed to fold into a polyhedral cage. However, the mechanisms underlying the self-assembly of the protein tetrahedron are still not fully understood. In the present study, 18 CCPO cages with three different topologies were modeled in silico. Then, molecular dynamics simulations and CC parameters were calculated to characterize the dynamic properties of protein tetrahedral cages at both the local and global levels. Furthermore, a deformed CC unit was redesigned, and the stability of the new cage was significantly improved.
Ključne besede: chemical structure, conformation, genetics oligomers stability
Objavljeno v DiRROS: 03.10.2024; Ogledov: 105; Prenosov: 27
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2. ALF : a strategy for identification of unauthorized GMOs in complex mixtures by a GW-NGS method and dedicated bioinformatics analysisAlexandra Bogožalec Košir, Alfred J. Arulandhu, Marleen Voorhuijzen, Hongmei Xiao, Rico Hagelaar, Martijn Staats, Adalberto Costessi, Jana Žel, Esther Kok, Jeroen P. van Dijk, 2017, izvirni znanstveni članek Povzetek: The majority of feed products in industrialised countries contains materials derived from genetically modified organisms (GMOs). In parallel, the number of reports of unauthorised GMOs (UGMOs) is gradually increasing. There is a lack of specific detection methods for UGMOs, due to the absence of detailed sequence information and reference materials. In this research, an adapted genome walking approach was developed, called ALF: Amplification of Linearly-enriched Fragments. Coupling of ALF to NGS aims for simultaneous detection and identification of all GMOs, including UGMOs, in one sample, in a single analysis. The ALF approach was assessed on a mixture made of DNA extracts from four reference materials, in an uneven distribution, mimicking a real life situation. The complete insert and genomic flanking regions were known for three of the included GMO events, while for MON15985 only partial sequence information was available. Combined with a known organisation of elements, this GMO served as a model for a UGMO. We successfully identified sequences matching with this organisation of elements serving as proof of principle for ALF as new UGMO detection strategy. Additionally, this study provides a first outline of an automated, web-based analysis pipeline for identification of UGMOs containing known GM elements.
Ključne besede: biotechnology, molecular biology
Objavljeno v DiRROS: 25.07.2024; Ogledov: 205; Prenosov: 185
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4. In-situ regeneration of Au nanocatalysts by atmospheric-pressure air plasma : significant contribution of water vaporBin Zhu, Xiao-Song Li, Jing-Lin Liu, Jin-Bao Liu, Xiaobing Zhu, Ai-Min Zhu, 2015, izvirni znanstveni članek Ključne besede: Au catalyst, air plasma, in-situ regeneration, water vapor, CO oxidation
Objavljeno v DiRROS: 07.04.2016; Ogledov: 4700; Prenosov: 1118
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5. In-situ plasma regeneration of deactivated Au/TiO [sub] 2 nanocatalysts during CO oxidation and effect of N [sub] 2 contentHong-Yu Fan, Chuan Shi, Xiao-Song Li, Shuo Zhang, Jing-Lin Liu, Ai-Min Zhu, 2012, izvirni znanstveni članek Ključne besede: gold catalyst, deactivation, plasma regeneration, N [sub] 2 content, CO oxidation
Objavljeno v DiRROS: 07.04.2016; Ogledov: 6082; Prenosov: 917
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