I-LBR

The software tool 'I-LBR' identifies ligand-binding residues (LBRs) in proteins when only the protein sequence is available. The method, consisting of two modes (I-LBRGP and I-LBRLS) for general-purpose and ligand-specific LBR identification, respectively, employs a query-specific computational approach without relying on protein 3D structure information. I-LBR constructs a specific training subset based on the query sequence, utilizes the support vector machine (SVM) algorithm to learn the LBR identification model, and predicts the probability of each residue in the query protein belonging to the LBR class. Experimental results on four testing datasets indicate that I-LBRLS is preferable when the ligand type/types are known.

Topic

Proteins;Sequence analysis;Structure analysis

Detail

  • Operation: Sequence profile alignment;Protein identification;Expression analysis

  • Software interface: Web user interface

  • Language: -

  • License: -

  • Cost: Free

  • Version name: -

  • Credit: National Natural Science Foundation of China, the Key Laboratory of Data Science and Intelligence Application, Fujian Province University, Natural Science Foundation of Zhejiang.

  • Input: -

  • Output: -

  • Contact: Jun Hu junh_cs@126.com

  • Collection: -

  • Maturity: -

Publications

  • Identification of ligand-binding residues using protein sequence profile alignment and query-specific support vector machine model.
  • Hu J, et al. Identification of ligand-binding residues using protein sequence profile alignment and query-specific support vector machine model. Identification of ligand-binding residues using protein sequence profile alignment and query-specific support vector machine model. 2020; 604:113799. doi: 10.1016/j.ab.2020.113799
  • https://doi.org/10.1016/J.AB.2020.113799
  • PMID: 32622978
  • PMC: -

Download and documentation

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