Structural analysis

Section edited by Lukasz Kurgan

This section incorporates all aspects of structural analysis including but not limited to: methods and applications for the analysis of biological structures, protein structural and biophysical analysis, and structure-based drug design.

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  1. Methodology Article

    Deep learning methods for protein torsion angle prediction

    Deep learning is one of the most powerful machine learning methods that has achieved the state-of-the-art performance in many domains. Since deep learning was introduced to the field of bioinformatics in 2012,...

    Haiou Li, Jie Hou, Badri Adhikari, Qiang Lyu and Jianlin Cheng

    BMC Bioinformatics 2017 18:417

    Published on: 18 September 2017

  2. Research Article

    AnkPlex: algorithmic structure for refinement of near-native ankyrin-protein docking

    Computational analysis of protein-protein interaction provided the crucial information to increase the binding affinity without a change in basic conformation. Several docking programs were used to predict the...

    Tanchanok Wisitponchai, Watshara Shoombuatong, Vannajan Sanghiran Lee, Kuntida Kitidee and Chatchai Tayapiwatana

    BMC Bioinformatics 2017 18:220

    Published on: 19 April 2017

  3. Research article

    Classifying kinase conformations using a machine learning approach

    Signaling proteins such as protein kinases adopt a diverse array of conformations to respond to regulatory signals in signaling pathways. Perhaps the most fundamental conformational change of a kinase is the t...

    Daniel Ian McSkimming, Khaled Rasheed and Natarajan Kannan

    BMC Bioinformatics 2017 18:86

    Published on: 2 February 2017

  4. Software

    RNA-TVcurve: a Web server for RNA secondary structure comparison based on a multi-scale similarity of its triple vector curve representation

    RNAs have been found to carry diverse functionalities in nature. Inferring the similarity between two given RNAs is a fundamental step to understand and interpret their functional relationship. The majority of...

    Ying Li, Xiaohu Shi, Yanchun Liang, Juan Xie, Yu Zhang and Qin Ma

    BMC Bioinformatics 2017 18:51

    Published on: 21 January 2017

  5. Research article

    Structure alignment-based classification of RNA-binding pockets reveals regional RNA recognition motifs on protein surfaces

    Many critical biological processes are strongly related to protein-RNA interactions. Revealing the protein structure motifs for RNA-binding will provide valuable information for deciphering protein-RNA recogni...

    Zhi-Ping Liu, Shutang Liu, Ruitang Chen, Xiaopeng Huang and Ling-Yun Wu

    BMC Bioinformatics 2017 18:27

    Published on: 11 January 2017

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