SABBAC: online Structural Alphabet-based protein BackBone reconstruction from Alpha-Carbon trace

Nucleic Acids Res. 2006 Jul 1;34(Web Server issue):W147-51. doi: 10.1093/nar/gkl289.


SABBAC is an on-line service devoted to protein backbone reconstruction from alpha-carbon trace. It is based on the assembly of fragments taken from a library of reduced size, selected from the encoding of the protein trace in a hidden Markov model-derived structural alphabet. The assembly of the fragments is achieved by a greedy algorithm, using an energy-based scoring. Alpha-carbon coordinates remain unaffected. SABBAC simply positions the missing backbone atoms, no further refinement is performed. From our tests, SABBAC performs equal or better than other similar on-line approach and is robust to deviations on the alpha-carbon coordinates. It can be accessed at

Publication types

  • Evaluation Study
  • Research Support, Non-U.S. Gov't

MeSH terms

  • Carbon / chemistry
  • Internet
  • Markov Chains
  • Models, Molecular
  • Peptides / chemistry
  • Protein Conformation*
  • Software*


  • Peptides
  • Carbon