Computational protocol: Identification and Characterization of B-Cell Epitopes in the DBL4ε Domain of VAR2CSA

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Protocol publication

[…] The modeling of the DBL4ε-FCR3 was done as described previously on the 3D7 variant . In brief, the structure of the DBL4ε-FCR3 domain was modeled using the HHpred server with default settings . The HHpred method is based on comparisons and alignments of hidden Markov models (HMMs), which include gaps and insertion probabilities. Template alignments proposed by the HHpred method were used to generate 3D models by using a HHpred server toolkit protocol for MODELLER . The structural visualization was produced using PyMol (Available: […]

Pipeline specifications

Software tools HHPred, MODELLER, PyMOL
Application Protein structure analysis
Organisms Rattus norvegicus, Plasmodium falciparum
Diseases Malaria