SERVER FOR COMPUTING/PREDICTING DEPTH, CAVITY SIZES, LIGAND BNDING SITES AND pKa


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References

  • Depth: a web server to compute depth, cavity sizes, detect potential small-molecule ligand-binding cavities and predict the pKa of ionizable residues in proteins
    Kuan Pern Tan, Thanh Binh Nguyen, Siddharth Patel, Raghavan Varadarajan and M. S. Madhusudhan Nucl. Acids Res. (1 July 2013) 41 (W1): W314-W321. doi: 10.1093/nar/gkt503
  • DEPTH: a web server to compute depth and predict small-molecule binding cavities in proteins
    Kuan Pern Tan; Raghavan Varadarajan; M. S. Madhusudhan Nucleic Acids Research 2011; doi: 10.1093/nar/gkr356
  • Residue depth: a novel parameter for the analysis of protein structure and stability.
    Suvobrata Chakravarty and Raghavan Varadarajan(1999). Structure 7,723-732.



  • For Jmol plugin:
  • Jmol: an open-source Java viewer for chemical structures in 3D. http://www.jmol.org/
  • Articles citing Residue Depth

  • List of articles citing Residue Depth
  • List of articles citing Residue Depth Server





  • Work supported by Wellcome Trust DBT India Alliance