Antimicrobial peptides (AMPs) represent a class of natural peptides that form a part of the innate immune system, and this kind of ‘nature's antibiotics’ is quite promising for solving the problem of increasing antibiotic resistance. In view of this, it is highly desired to develop an effective computational method for accurately predicting novel AMPs because it can provide us with more candidates and useful insights for drug design. In this study, a new method for predicting AMPs was implemented by integrating the sequence alignment method and the feature selection method. It was observed that, the overall jackknife success rate by the new predictor on a newly constructed benchmark dataset was over 80.23%, and the Mathews correlation coefficient is 0.73, indicating a good prediction. Moreover, it is indicated by an in-depth feature analysis that the results are quite consistent with the previously known knowledge that some amino acids are preferential in AMPs and that these amino acids do play an important role for the antimicrobial activity. For the convenience of most experimental scientists who want to use the prediction method without the interest to follow the mathematical details, a user-friendly web-server is provided at http://amp.biosino.org/.
Sanglifehrin A (SFA), a potent cyclophilin inhibitor produced by Streptomyces flaveolus DSM 9954, bears a unique [5.5] spirolactam moiety conjugated with a 22-membered, highly functionalized macrolide through a linear carbon chain. SFA displays a diverse range of biological activities and offers significant therapeutic potential. However, the structural complexity of SFA poses a tremendous challenge for new analogue development via chemical synthesis. Based on a rational prediction of its biosynthetic origin, herein we report the cloning, sequencing and characterization of the gene cluster responsible for SFA biosynthesis. Analysis of the 92 776 bp contiguous DNA region reveals a mixed polyketide synthase (PKS)/non-ribosomal peptide synthetase (NRPS) pathway which includes a variety of unique features for unusual PKS and NRPS building block formation. Our findings suggest that SFA biosynthesis requires a crotonyl-CoA reductase/carboxylase (CCR) for generation of the putative unusual PKS starter unit (2R)-2-ethylmalonamyl-CoA, an iterative type I PKS for the putative atypical extender unit (2S)-2-(2-oxo-butyl)malonyl-CoA and a phenylalanine hydroxylase for the NRPS extender unit (2S)-m-tyrosine. A spontaneous ketalization of significant note, may trigger spirolactam formation in a stereo-selective manner. This study provides a framework for the application of combinatorial biosynthesis methods in order to expand the structural diversity of SFA.
Abstract:The Longzi River Basin in Tibet is located along the edge of the Himalaya Mountains and is characterized by complex geological conditions and numerous landslides. To evaluate the susceptibility of landslide disasters in this area, eight basic factors were analyzed comprehensively in order to obtain a final susceptibility map. The eight factors are the slope angle, slope aspect, plan curvature, distance-to-fault, distance-to-river, topographic relief, annual precipitation, and lithology. Except for the rainfall factor, which was extracted from the grid cell, all the factors were extracted and classified by the slope unit, which is the basic unit in geological disaster development. The eight factors were superimposed using the information content method (ICM), and the weight of each factor was acquired through an analytic hierarchy process (AHP). The sensitivities of the landslides were divided into four categories: low, moderate, high, and very high, respectively, accounting for 22.76%, 38.64%, 27.51%, and 11.09% of the study area. The accuracies of the area under AUC using slope units and grid cells are 82.6% and 84.2%, respectively, and it means that the two methods are accurate in predicting landslide occurrence. The results show that the high and very high susceptibility areas are distributed throughout the vicinity of the river, with a large component in the north as well as a small portion in the middle and the south. Therefore, it is necessary to conduct landslide warnings in these areas, where the rivers are vast and the population is dense. The susceptibility map can reflect the comprehensive risk of each slope unit, which provides an important reference for later detailed investigations, including research and warning studies.
scite is a Brooklyn-based organization that helps researchers better discover and understand research articles through Smart Citations–citations that display the context of the citation and describe whether the article provides supporting or contrasting evidence. scite is used by students and researchers from around the world and is funded in part by the National Science Foundation and the National Institute on Drug Abuse of the National Institutes of Health.
customersupport@researchsolutions.com
10624 S. Eastern Ave., Ste. A-614
Henderson, NV 89052, USA
This site is protected by reCAPTCHA and the Google Privacy Policy and Terms of Service apply.
Copyright © 2024 scite LLC. All rights reserved.
Made with 💙 for researchers
Part of the Research Solutions Family.