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Table 9 Applying the HCV NS3 rules to the NS3 in vivo test data.

From: How to find simple and accurate rules for viral protease cleavage specificities

Decamer Rule match Decamer Rule match
DCYVYCSGSW HCVA, HCVB, HCVC DCSQPCAGSW HCVA
DCAVTCSGSW HCVA, HCVB DCIIVCAGSW HCVA, HCVB, HCVC
DCAVRCSGSW HCVA, HCVB, HCVC DCQQLCAGSW HCVA
DCIKCCSGSW - DCPSPCAGSW HCVA
DCVSNCSGSW HCVA DCAILCAGSW HCVA, HCVB
DCVMKCSGSW HCVA DCIMPCAGSW HCVA
DCATTCSGSW HCVA, HCVB DCVRMCAGSW HCVA, HCVC
DCTQMCSGSW HCVA DCSVLCAGSW HCVA
DCLDLCSGSW HCVA DCYRPCAGSW HCVA, HCVB, HCVC
DCVTPCSGSW HCVA, HCVC DCLCLCAGSW HCVA
DCVSLCSGSW HCVA DCAVCCAGSW HCVA, HCVB
DCPLACSGSW HCVA DCPIMCAGSW HCVA, HCVC
DCMCDCSGSW HCVA DCHQMCAGSW HCVA
DCVLRCSGSW HCVA DCWTPCAGSW HCVA, HCVB, HCVC
DCAVTCSGSW HCVA, HCVB DCIIKCCGSW HCVA
DCSVRCSGSW HCVA DCIMECCGSW HCVA
DCSHPCSGSW HCVA DCSQLCCGSW HCVA
DCCVRCSGSW HCVA, HCVB, HCVC DCTVACTGSW HCVA
DCSVLCSGSW HCVA DCLVACTGSW HCVA
DCRVRCSGSW HCVA, HCVB, HCVC DCPCPCTGSW HCVA
DCVTPCSGSW HCVA, HCVC DCLELCTGSW HCVA
DCIYICSGSW HCVA DCLVACTGSW HCVA
DCRLPCSGSW HCVA, HCVB DCQIICTGSW HCVA
DCYERCSGSW HCVA, HCVB, HCVC DCVVCCGGSW HCVA
DCAVLCSGSW HCVA, HCVB DCTVTTSGSW HCVB
DCVRLCSGSW HCVA DCTVETSGSW HCVB, HCVC
DCPTNCSGSW HCVA, HCVC DCSVVCSSSW HCVA
DCPRLCSGSW HCVA DCSVACSQSW HCVA
DCVSNCSGSW HCVA DCSTLCSTSW HCVA
DCRIPCSGSW HCVA, HCVB, HCVC DCSITCAQSW HCVA
DCVSNCSGSW HCVA DCSVLCARSW HCVA
DCFAMCSGSW HCVA DCSVPCTGSW HCVA
DCTIKCAGSW HCVA, HCVB, HCVC DCSLPCGSSW HCVA
DCLITCAGSW HCVA DCSAPCGSSW HCVA
DCKVTCAGSW HCVA, HCVB DCVVPCSGSW HCVA, HCVC (*)
  1. The table shows the result of applying the HCV NS3 cleavage rules to the 69 decamers listed as especially good substrates in vivo by Kim et al. [36]. The first and third column show the decamers and the second and fourth column show the HCV rules that it matches (if any). The last (70th) sequence (DCVVPCSGSW), marked with (*), is the consensus sequence tested by Kim et al., this sequence is already in the HCV NS3 data set and is thus not an out-of-sample prediction.