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ProCaff: protein-carbohydrate complex binding affinity database.

N R Siva Shanmugam1, J Jino Blessy1, K Veluraja2

  • 1Department of Biotechnology, Bhupat and Jyoti Mehta School of Biosciences, Indian Institute of Technology Madras, Chennai 600036, India.

Bioinformatics (Oxford, England)
|March 3, 2020
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Summary
This summary is machine-generated.

A new database, ProCaff, has been developed to consolidate protein-carbohydrate binding affinity data. This resource offers comprehensive information and tools for researchers studying these crucial biological interactions.

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Area of Science:

  • Biochemistry and Molecular Biology
  • Bioinformatics
  • Structural Biology

Background:

  • Protein-carbohydrate interactions are vital for numerous cellular functions.
  • Binding affinity is a key determinant of protein-carbohydrate complex structure and function.
  • Existing literature lacks a centralized, reliable database for this critical data.

Purpose of the Study:

  • To create a comprehensive database of protein-carbohydrate binding affinities.
  • To provide researchers with a centralized resource for dissociation constant (Kd) and Gibbs free energy change (ΔG) data.
  • To facilitate the study of protein-carbohydrate interactions through integrated data and tools.

Main Methods:

  • Development of the ProCaff database.
  • Compilation of 3122 entries detailing binding affinity, experimental conditions, and molecular data.
  • Implementation of search, display, visualization, download, and upload functionalities.

Main Results:

  • The ProCaff database contains 3122 entries on protein-carbohydrate binding affinity.
  • Includes data on dissociation constant (Kd) and Gibbs free energy change (ΔG).
  • Provides associated experimental conditions, sequence, structure, and literature information.

Conclusions:

  • ProCaff offers a valuable, freely accessible resource for researchers.
  • The database enhances the study of protein-carbohydrate interactions.
  • Facilitates data retrieval and analysis for biological research.