Table 1.
Predicted cleavage sites in several flavivirus polyproteins.
| Virus | C/AnchC | AnchC/prM | prM/M | M/E | E/NS1 | NS1/NS2a | NS2a/NS2b | NS2b/NS3 | NS3/NS4a | NS4a/NS4b | NS4b/NS5 |
|---|---|---|---|---|---|---|---|---|---|---|---|
| APOIVNC_003676 | KGGRR/GGKSV | PIALS/AVVMN | TRTRR/DVTIQ | APAYA/STCVS | TGVVG/EIGCM | GLVMA/FDEEP | RSGQR/SVDPI | RSIQK/SNTSF | AKGKR/SGMTI | EGMQR/RTQVD | SENRR/GVSSS |
| ALKVNC_004355 | RGKRR/STTGL | TLVIS/ATIRR | GRSRR/SVSIP | APTYA/TRCTH | LGVGA/DMGCA | MVLAD/NGAML | RRNRR/SFSEP | SSGRR/SELVF | ASGRR/SVGDV | PGKQR/SSDDN | TGTRR/GGADG |
| WNVAJ965628 | KQKKR/GGKTG | ASVGA/VTLSN | RHSRR/SRRSL | APAYS/FNCLG | VNVHA/DTGCA | SQVNA/YNADM | PNRKR/GWPAT | QYTKR/GGVLW | ASGKR/SQIGL | PEKQR/SQTDN | PGLKR/GGAKG |
| JEVNC_001437 | KQNKR/GGNEG | AYAGA/MKLSN | KRSRR/SVSVQ | APAYS/FNCLG | TNVHA/DTGCA | SQVDA/FNGEM | PNKKR/GWPAT | KTTKR/GGVFW | AAGKR/SAISF | PEKQR/SQTDN | PSLKR/GRPGG |
| NOUVEU159426 | VSKRR/GSASL | GVASA/VTFTT | QRSRR/SVGIS | IPAYS/MKCIG | TSVSA/ELGCS | LGVLA/MTMMF | KTTKR/SVPQS | ENRKR/SNDTP | AGGKR/SAVDL | EGKQR/SMVDN | AYKKR/GIWEV |
| KRVNC_005064 | LEKQR/SGPNL | GLCYG/EMLRY | VRRRR/APQPQ | NVVKA/SSIEP | RSVSA/DVGCG | GKAHA/CSDFR | AAERA/QQPTI | SEQNR/SDDLL | WDTRK/LSIEF | CGVLA/WEMRL | FNQFR/ALEKS |
| LAMVFJ606789 | KNGKR/STEIS | GAAMA/ASMFT | RRGKR/SVALA | GPAYS/LQCVD | TTTVA/LSEVG | SKVSA/GTFQI | TSGKR/SWPAG | KSGRR/GTVLM | AEGRR/SYVPL | EPGSQ/RSVQD | GVPRR/GMTIC |
| AEFVAB488408 | LEAQR/SHSPV | GLALS/ETLRY | PRKRR/SSPQR | NVVRA/TSIEP | IRRVA/GDIGC | GKADA/TADFH | AAERA/DHPSA | NEHCR/SDDLL | WDQRR/LSIEM | CSVLA/WEMRL | FSKFR/ALEKS |
| CxFVAB262759 | LEAKR/SAKNA | MVLGA/VVIDM | KRERR/VASTN | TTVKG/EFVEP | VYTKA/DVGCG | VTIDA/DGEDM | RASRR/SLVAG | VSVFR/SNEVN | ELDKR/SKIML | MGVVA/WEMDL | RMALR/SLVKT |
| QBVNC_012671 | LENRR/SANPL | TLCGT/MVIDM | KRVKR/ATEQP | STVKG/EFVEP | YYTRA/DVGCG | LIIEN/EGVEI | LRASK/RSALL | TSNRR/SGVND | ELEKR/SKIML | MGIVA/WELEL | RLATR/SLVKT |
| CFAVNC_001564 | LESRR/TTGNP | VLCGC/VVIDM | KREKR/SREPP | TTVKG/EFVEP | YYVRA/DLGCG | GKANA/QSDFR | AAEKA/HQPTV | TASNR/SDDLL | WETRK/VSIDF | SIGNR/SYMDS | FNQFR/ALEKS |
| CTFV | LENRR/SANNP | VLCGC/VIIDM | KRVKR/APETP | TTVKG/EFVEP | YFARA/DVGCG | LTIEK/GGQTI | LRASK/SSMLL | STAYR/AGVND | ELEKR/TKLSI | MGVVA/WELNL | RGGLR/SLVKT |
The amino acid residues highlighted in bold-face represent cleavage sites for the NS3 serine protease of flaviviruses.
Cleavage sites with underlined residues seem to follow a host signalase cleavage consensus (von Heijne, 1984, Chambers et al., 1990).
AEFV – Aedes flavivirus, ALKV – Alkhurma virus, APOIV – Apoi virus, CFAV – cell fusing agent virus, CxFV – Culex flavivirus, CTFV – Culex theileri flavivirus, JEV – Japanese Encephalitis virus, KRV – Kamiti River virus, LAMV – Lammi virus, NOUV – Nounane virus, QBV – Quang Binh virus, WNV – West Nile virus.