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Volume 7, Number 4—August 2001
THEME ISSUE
West Nile Virus
West Nile Virus

Rapid Determination of HLA B*07 Ligands from the West Nile Virus NY99 Genome

Anne S. De Groot*†Comments to Author , Caitlin Saint-Aubin*, Andrew Bosma*, Hakima Sbai*, James Rayner†, and William Martin†
Author affiliations: *Brown University, Providence, Rhode Island, USA; †EpiVax, Inc., Providence, Rhode Island, USA

Main Article

Table 2

Selected West Nile virus peptides and their EpiMatrix scores

a. Peptides selected for screening in vitro
Peptide no. (B*07 rank) Source Sequence AA start EBP
WNB7 0004 NS-1 AVKDELNTLL 861 48
WNB7 0005 mpM APAYSFNCLG 286 47
WNB7 0006 NS-2A AAKKKGASLL 1337 45
WNB7 0007 NS-2A NPMILAAGLI 1357 37
WNB7 0008 NS-3 IPAGFEPEML 1680 36
WNB7 0009 env gp E TPAAPSYTLK 460 36
WNB7 0010 NS-5 VPCRGQDELV 3259 33
WNB7 0011 NS-5 GPGHEEPQLV 2635 32
WNB7 0013 NS-5 EPPEGVKYVL 2895 31
WNB7 0015 NS-5 KPTGSASSLV 2842 29
WNB7 0017 NS-3 RPRWIDARVY 2098 24
WNB7 0018 NS-4A VPGTKIAGML 2223 23
WNB7 0019 NS-1 RPQRHDEKTL 1127 22
WNB7 0020 NS-3 SPHRVPNYNL 1777 22
WNB7 0023 NS-5 RPAADGRTVM 3112 21
WNB7 0024 NS-2A TPGLRCLNLD 1306 21
WNB7 3399 pre-mpM PEDIDCWCTK 185 0
WNB7 3403 NS-1 PETPQGLAKI 827 0
WNB7 3411 NS-3 PFPESNSPIS 1830 0
WNB7 3415 NS-5 PRTNTILEDN 2073 0
b. Peptides excluded from screening in vitro
Peptide no. (B*07 rank)
Reason for not testing
Sequence
AA start
EBPa
WNB7 0001 EBP>50 RPSECCDTLL 2663 72
WNB7 0002 EBP>50 GPIRFVLALL 42 60
WNB7 0003 EBP>50 GPREFCVKVL 2703 55
WNB7 0012 Human-like AGMLLLSLLL 2229 31
WNB7 0014 Poor quality MPAILIALLV 1177 30
WNB7 0021 Poor quality IPMTIAGLMF 1405 22
WNB7 0025 Poor quality SVNMTSQVLL 2760 20
WNB7 0016 Not expressed IPTAAGKNLC 148 26
WNB7 0022 Not expressed MPRVLSLIGL 21 21

aEBP = estimated binding potential; env gp E = envelope glycoprotein E; prM = pre-membrane protein; nonstructural proteins NS-1, NS-2A, NS-2B, NS-3, NS-4A, NS-4B, and NS-5.

Main Article

Page created: April 27, 2012
Page updated: April 27, 2012
Page reviewed: April 27, 2012
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