PVS related Web Servers


Web ServerInput formatsOutput and tasks
PVS
  • MSA: CLUSTAL,FASTA,GCG/MSF
  • PDB: Uploaded or retrieved
  • MSA and PDB
    		• 1. Compute sequence variability
    2. Plot sequence variability
    3. Map and display variability in 3D structures
    4. Mask sequence variability
    5. T cell epitope prediction
    6. Return conserved fragments
    7. Locate conserved fragments in 3D structures/ B cell epitope prediction
    SVS
  • MSA: CLUSTAL
    		•  1. Compute sequence variability as given by Shannon Entropy
    2. Plot sequence variability
    3. Return conserved fragments
    SiteVarProt
  • MSA: FASTA
    		• 1. Compute relative sequence variability
    2. Plot sequence variability
    Consensus
  • MSA: CLUSTAL and GCG/MSF
    		•  1. Consensus sequence at various thresholds with amino acid groupings
    Conseq
  • SEQUENCE: FASTA
  • MSA: NBRF/PIR, EMB, FASTA, GDE, CLUSTAL, GCG/MSF and PIR
    		•  1. Compute conservation scores
    2. Compute solvent accessibility
    3. Return color coded sequence with calculations
    Consurf
  • PDB: Uploaded or retrieved
  • MSA and PDB
    		•  1. Compute conservation scores
    2. Map and display conservation scores in 3D-structures
    TreeDet
  • MSA: CLUSTAL,FASTA,MSF and PIR
    		• 1. Predicts and displays functionally-relevant residues
    Conservancy
  • SEQUENCES: FASTA
    		•  1. Computes per site sequence identity of epitopes in protein sources