关于Explainable Deep Hypergraph Learning Modeling the Peptide Secondary Structure Prediction的个人理解 事先声明:对于生物信息方面这是本人的第一次接触,因此对有些该领域的常识问题可能存在纰漏或误解,如有不妥请留言联系我,我将及时改正(本文是一篇OA文章,因此这里直接拿来解读,如有侵权也请及时联系本人)对于本篇文...
Secondary structure prediction of beta-hairpin peptide tryptophan zipper-IGkolu, G. x.elik, T. x.PHYSICA A
Structure prediction with AlphaFold A modification of AlphaFold (v2.0)23(AF) based on the FoldDock protocol4and a recent study for protein-peptide structure prediction10was run, where the receptor is represented as an MSA and the peptide as a single sequence. The MSA was constructed from a si...
A high-accuracy protein structural class prediction algorithm using predicted secondary structural information J. Theor. Biol., 267 (2010), pp. 272-275 View PDFView articleView in ScopusGoogle Scholar [49] C. Cortes, V. Vapnik Support-vector networks Mach. Learn., 20 (3) (1995), p. 273...
CFSSP: Chou & Fasman Secondary Structure Prediction Server. Wide Spectrum 1, 15–19 (2013). Google Scholar Wang, G., Li, X. & Wang, Z. APD2: the updated antimicrobial peptide database and its application in peptide design. Nucleic Acids Res. 37, D933–D937 (2009). Article CAS ...
Hydrogen bonds were assumed for amide protons within regular secondary structure elements (i.e., α helices) that showed no exchange with D2O. Two distance constraints were set per hydrogen bond; 1.9 Å (O-HN) and 2.9 Å (O-N). The structure calculation was performed with the program ...
were separately used to predict whether a peptide is antibacterial or not. A peptide was considered to be predicted positive only if at least two of these techniques predict it as a positive. Otherwise the peptide was predicted negative. The accuracy of this consensus prediction was calculated. ...
on the ExPaSy server [100] for estimation of molecular weights and calculation of net charges at Protein Calculator [101]. Secondary structure prediction was done on the ExPaSy server [100]. To predict amphiphilic structure of peptides, helical wheels models were calculated on the server [102]...
Moreover, the protein structural classes knowledge is useful for the protein structure prediction. In fact, the accuracy of the secondary structure prediction methods can be significantly improved by incorporating the structural class knowledge [3]. Many efforts have been made to predict the protein ...
N. Automated electron microscope tomography using robust prediction of specimen movements. J. Struct. Biol. 152, 36–51 (2005). Article PubMed Google Scholar Punjani, A., Rubinstein, J. L., Fleet, D. J. & Brubaker, M. A. cryoSPARC: algorithms for rapid unsupervised cryo-EM structure ...