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Table 2 Predicted M protein peptides chemically synthesized and screened to identify CTL epitopes

From: Identification of CD8+ cytotoxic T lymphocyte epitopes from porcine reproductive and respiratory syndrome virus matrix protein in BALB/c mice

Bioinformatics Methods
  SYFPEITHI BIMAS PREDBALB/c
  Peptides Bingding score Peptides Bingding score Peptides Bingding score
H-2Kd K93FITSRCRL BS = 23 K93FITSRCRL BS = 2304.000 K93FITSRCRL BS = 9.70
  T25YTPVMIYA BS = 24 T25YTPVMIYA BS = 72.000 T25YTPVMIYA BS = 5.3
  S12TAPQKVLL BS = 20 S12TAPQKVLL BS = 57.600 S12TAPQKVLL BS = 6.10
  S140TTVNGTLV BS = 19 S 140TTVNGTLV BS = 14.400 S 140TTVNGTLV BS = 6.10
  T146LVPGLKGL BS = 19 T146LVPGLKGL BS = 115.200 T146LVPGLKGL BS = 9.10
  A21FSITYTPV BS = 18 A21FSITYTPV BS = 345.600 A21FSITYTPV BS = 9.54
  R40LLGLLHLL BS = 18 R40LLGLLHLL BS = 96.00 R40LLGLLHLL BS = 7.80
  L34KVSRGRLL BS = 17 L34KVSRGRLL BS = 9.600 L34KVSRGRLL BS = 5.64
  H64FQSTNRVA BS = 17 H64FQSTNRVA BS = 28.800 H64FQSTNRVA BS = 5.64
  C102LLGRKYIL BS = 17 C102LLGRKYIL BS = 96.00 C102LLGRKYIL BS = 7.84
  Q16KVLLAFSI BS = 16 L162KVSRGRLL BS = 11.520 L162KVSRGRLL BS = 5.80
  L162KVSRGRLL BS = 16 L162KVSRGRLL BS = 0.012 L162KVSRGRLL BS = 6.10
  S23ITYTPVMI BS = 14 S23ITYTPVMI BS = 48.000 S23ITYTPVMI BS = 8.50
H-2Dd    Y26TPVMIYAL BS = 20.000 Y26TPVMIYAL BS = 9.82
    F57GYMTFVHF BS = 7.200 F57GYMTFVHF BS = 10.00
    T13APQKVLLA BS = 12.000 T13APQKVLLA BS = 8.58
    Q164GVVNLVKY BS = 2.000 Q164GVVNLVKY BS = 9.40
    F122HPIAANDN BS = 2.400 F122HPIAANDN BS = 9.20
    P138GSTTVNGT BS = 0.200 P138GSTTVNGT BS = 9.20
H-2Ld A14PQKVLLAF BS = 24 A14PQKVLLAF BS = 450.000 A14PQKVLLAF BS = 9.38
  V148PGLKGLVL BS = 24 V148PGLKGLVL BS = 150.000 V148PGLKGLVL BS = 9.50
  D11STAPQKVL BS = 20 D11STAPQKVL BS = 25.000 D11STAPQKVL BS = 7.50
  Y86SAIETWKF BS = 20 Y86SAIETWKF BS = 50.000 Y86SAIETWKF BS = 7.50
  E117SAAGFHPI BS = 20 E117SAAGFHPI BS = 6.500 E117SAAGFHPI BS = 4.70
  T96SRCRLCLL BS = 19 T96SRCRLCLL BS = 7.500 T96SRCRLCLL BS = 7.60
  G139STTVNGTL BS = 18 G139STTVNGTL BS = 25.000 G139STTVNGTL BS = 7.40
  F22SITYTPVM BS = 15 F22SITYTPVM BS = 25.000 F22SITYTPVM BS = 7.00
  1. Note: The 27 peptides with highest binding score (BS) as predicted by each algorithm are shown, starting with the peptide giving the highest score at the top for each protein. Sequences of 9 mers are given from BIMAS, SYFPEITHI and PREDBALB/c predictions, respectively. The N-terminal amino acid position is indicated for epitopes predicted from the whole M protein.