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viralpatterns.txt
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function motif_regex
TEST_FUNCTION "X[^AOZ]{2,4}PP"
"6-cysteine motif, degradation of chitin and chitotriose" "C[^BJOUZ]{13,20}C[^BJOUZ]{5,6}C[^BJOUZ]{9,19}C[^BJOUZ]{10,14}C[^BJOUZ]{4,14}C"
Adenovirus fiber flexibility motif KLG[^BJOUZ]GL[^BJOUZ]F[DN]
Adenovirus fiber flexibility motif K[^BJOUZ]GGL[^BJOUZ]F[DN]
"Agnoprotein function, productive viral infection" L[FL][VI]F[VIL]LE[LF]LL[^BJOUZ]F & Q[^BJOUZ][^BJOUZ][IML][^BJOUZ][^BJOUZ][FY]
Agnoprotein—NLS RRRR[^BJOUZ]{5}R[^BJOUZ]{4}RK
"Binding of virus proteins to retinoblastoma protein, gene expression and virus replication" L[^BJOUZ]C[^BJOUZ]E
"Binding of virus proteins to retinoblastoma protein, gene expression and virus replication" [LI][^BJOUZ]C[^BJOUZ][DE]
"Binding to ESCRT, paramyxoviruses budding" [FILV][^BJOUZ]V
Binding to integrins and viral attachment to cellular receptors RGD
Binding to integrins and viral attachment to cellular receptors DL[^BJOUZ][^BJOUZ]L
Binding to integrins and viral attachment to cellular receptors LDV
Binding to integrins and viral attachment to cellular receptors RGDL[^BJOUZ][^BJOUZ]L
Binding to integrins and viral attachment to cellular receptors SDI
Binding to integrins and viral attachment to cellular receptors KGD
Binding to integrins and viral attachment to cellular receptors KGE
Budded virions production and nucleocapsid assembly "C[^BJOUZ]{5}C[^BJOUZ]{1,}H[^BJOUZ]{6}C"
"Clathrin-binding motifs, clathrin-box" L[LI][DEN][LF][DE]
"Clathrin-binding motifs, clathrin-box" L[FILV][^BJOUZ][FILV][DE]
"Clathrin-binding motifs, clathrin-box" PW[^BJOUZ][^BJOUZ]W
Cleavage motif of Newcastle disease virus [GE][KR]Q[GE]RL
Cleavage motif of Newcastle disease virus [RK]RQ[RK]RF
Cleavage site for Influenza A virus hemagglutinin KKKRGLF
Cleavage site for Influenza A virus hemagglutinin [QE][ST]RGLF
Cleavage site for Influenza A virus hemagglutinin R[^BJOUZ][RK]RGLF
Cleavage site for Influenza A virus hemagglutinin R[^BJOUZ]RRGLF
Cleavage site for Influenza A virus hemagglutinin R[^BJOUZ]{2}RGLF
"Enhance virion-release, anti-tetherin activity" DSG[^BJOUZ]{2}S
Helix-Helix Interactions A[^BJOUZ]{3}A[^BJOUZ]{3}A[^BJOUZ]{3}W
Helix-Helix Interactions V{3}I{2}L{3}L
"Heparan sulfate-binding motif, post-internalization steps of adenovirus" KKTK
"Heparan sulfate-binding motif, post-internalization steps of adenovirus" [HKR]{2}[^BJOUZ][HKR]
"Heparan sulfate-binding motif, post-internalization steps of adenovirus" [HKR]{3}[^BJOUZ]{2}[HKR]
HIV neutralization by human antibodies GPG[RQ]
"HIV release, interfering with tetherin function" [GD]DIWK
"Induction of cellular-malignant transformation by Kaposin, activation of cap-dependent translation, and HIV retrotransposition" L[^BJOUZ]{2}LL
"IAP, block the apoptosis" "G[^BJOUZ]{2}Y[^BJOUZ]{4}D[^BJOUZ]{3}C[^BJOUZ]{2}C[^BJOUZ]{6}W[^BJOUZ]{9}H[^BJOUZ]{6,10}C"
"IAP, block the apoptosis" "C[^BJOUZ]{2}C[^BJOUZ]{9,39}C[^BJOUZ]{1,3}H[^BJOUZ]{2,3}C[^BJOUZ]{2}C[^BJOUZ]{4,48}C[^BJOUZ]{2}C"
"IAP, block the apoptosis" A[KITV][AEP][FEISY]
Interact with clathrin adaptor protein P[^BJOUZ]{2}P
Interact with clathrin adaptor protein Y[^BJOUZ]Y[^BJOUZ]{2}[FILV]
"ISGylation, antiviral response" LRGG
"ISGylation, antiviral response" LRLRGG
ITAM motif "Y[^BJOUZ]{2}[LI][^BJOUZ]{6,8}Y[^BJOUZ]{2}[LI]"
ITIM motif [SIVL][^BJOUZ]Y[^BJOUZ]{2}[IVL]
"Necessary for endocytosis, intracellular trafficking, interact with clathrin APs, and promotes viral spread, fusion and replication" Y[^BJOUZ]{2}[FILV]
"Nuclear export signal (NES), regulates protein export to nucleus from cytoplasm" "[LIVFM][^BJOUZ]{2,3}[LIVFM][^BJOUZ][LIVFM]"
"Nuclear export signal (NES), regulates protein export to nucleus from cytoplasm" L[^BJOUZ]{3}L[^BJOUZ]{2}L[^BJOUZ]L
NLS motifs KR[KR]R
NLS motifs K[KR]RK
NLS motifs [PR][^BJOUZ]{2}KR{DE}[KR]
NLS motifs KR[^BJOUZ][WFY][^BJOUZ]{2}AF
NLS motifs [RP][^BJOUZ]{2}KR[KR]{DE}
NLS motifs LGKR[KR][WFY]
NLS motifs "KR[^BJOUZ]{10,12}K[KR][KR]"
NLS motifs "KR[^BJOUZ]{10,12}K[KR][^BJOUZ][KR]"
"Pentraxin domain, pathogen recognition, host defense, and antiviral response" H[^BJOUZ]C[^BJOUZ][ST]W[^BJOUZ]S
"Protein folding, Rossmann folds motifs, and bind FAD or NAD(P)" "G[^BJOUZ]{3}G, G[^BJOUZ]{3}[GA]"
"Protein folding, Rossmann folds motifs, and bind FAD or NAD(P)" "G[^BJOUZ]{1,2}G[^BJOUZ]{2}G"
Protein interaction and thiol-disulfide transfer C[^BJOUZ]{2}C
Protein interaction and thiol-disulfide transfer C[^BJOUZ]{3}C
"Proton transport, channel function, and transmembrane domain" H[^BJOUZ]{3}W
"Recruits ESCRT pathway, and mediates viral budding and release" Y[^BJOUZ]{2}L
"Recruits ESCRT pathway, and mediates viral budding and release" P[TS]AP
"Recruits ESCRT pathway, and mediates viral budding and release" LYP[^BJOUZ]L
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" PPLP
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" SLQ[^BJOUZ]LA
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" V[^BJOUZ]H[^BJOUZ]MY
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" HCCH
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" YY[^BJOUZ]W
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" DPD
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" Y[^BJOUZ]{2}L
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" YRHHY
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" EDRW
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" DRMR
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" TGER[^BJOUZ]W
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" LG[^BJOUZ]G[^BJOUZ]{2}I[^BJOUZ]W
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" W[^BJOUZ]SLVK
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" W[HKN]SLVK
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" "V[^BJOUZ]IPL[^BJOUZ]{4,5}L"
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" "V[^BJOUZ]IPL[^BJOUZ]{4,5}L[^BJOUZ][FILV][^BJOUZ]{2}YW[^BJOUZ]L"
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" SL[VI][^BJOUZ]{4}Y[^BJOUZ]{9}Y
"Regulation by interaction of retrovirus Vif with APOBEC, cullin5, elongin, and E3 ligase" T[DEQ][^BJOUZ]{5}AD[^BJOUZ]{2}[IL]
"Sorting signal, anti-tetherin" E[^BJOUZ]{3}LV
SUMOylation-SUMO binding to substrate [FILV]{2}[^BJOUZ]S[^BJOUZ]S[DE][DE][DE]
SUMOylation-SUMO binding to substrate [FILV]K[^BJOUZ][DE]
SUMOylation-SUMO binding to substrate [VI][^BJOUZ][VI][VI]
"Ubiquitylation, interaction with Nedd4 E3 ubiquitin ligases, recruit ESCRT pathway, and mediates virus entry, cellular microtubule-dependent trafficking, budding, and release" PP[^BJOUZ]Y