title: Bhageerath-H: a homology/ab initio hybrid server for predicting tertiary structures of monomeric soluble proteins.
abstract: BACKGROUND
  The advent of human genome sequencing project has led to a spurt in the number of protein sequences in the databanks. Success of structure based drug discovery severely hinges on the availability of structures. Despite significant progresses in the area of experimental protein structure determination, the sequence-structure gap is continually widening. Data driven homology based computational methods have proved successful in predicting tertiary structures for sequences sharing medium to high sequence similarities. With dwindling similarities of query sequences, advanced homology/ ab initio hybrid approaches are being explored to solve structure prediction problem. Here we describe Bhageerath-H, a homology/ ab initio hybrid software/server for predicting protein tertiary structures with advancing drug design attempts as one of the goals.
  
  
  RESULTS
  Bhageerath-H web-server was validated on 75 CASP10 targets which showed TM-scores ≥ 0.5 in 91% of the cases and Cα RMSDs ≤ 5 Å from the native in 58% of the targets, which is well above the CASP10 water mark. Comparison with some leading servers demonstrated the uniqueness of the hybrid methodology in effectively sampling conformational space, scoring best decoys and refining low resolution models to high and medium resolution.
  
  
  CONCLUSIONS
  Bhageerath-H methodology is web enabled for the scientific community as a freely accessible web server. The methodology is fielded in the on-going CASP11 experiment.
authors.forename: B
authors.initials: B
authors.lastname: Jayaram
authors.forename: Priyanka
authors.initials: P
authors.lastname: Dhingra
authors.forename: Avinash
authors.initials: A
authors.lastname: Mishra
authors.forename: Rahul
authors.initials: R
authors.lastname: Kaushik
authors.forename: Goutam
authors.initials: G
authors.lastname: Mukherjee
authors.forename: Ankita
authors.initials: A
authors.lastname: Singh
authors.forename: Shashank
authors.initials: S
authors.lastname: Shekhar
mesh_terms: D019295:Computational Biology / Q000379:methods*; D006801:Humans; D008962:Models, Theoretical; D017434:Protein Structure, Tertiary; D011506:Proteins / Q000737:chemistry*; D011789:Quantum Theory; D012984:Software
chemical_list: D011506:Proteins