Table 4: List of best six epitopes that bind with high affinity with the human MHC class II alleles.

Core SequencePeptide SequenceStartEndAlleleIC50

LLRSTVSKALPLVPSLLRSTVSKA192206HLA-DQA101:02/DQB106:02824.7
HLA-DRB101:0199.4
HLA-DRB103:01421.6
HLA-DRB104:01300.9
HLA-DRB104:05768.9
HLA-DRB107:01155.6
HLA-DRB108:02143.9
HLA-DRB109:01783.8
HLA-DRB115:01888.9
PLVPSLLRSTVSKAF193207HLA-DPA102:01/DPB101:01436
HLA-DQA101:02/DQB106:02538.2
HLA-DQA105:01/DQB103:01413.8
HLA-DRB101:0142.1
HLA-DRB103:01123.5
HLA-DRB104:01185.5
HLA-DRB104:04166.7
HLA-DRB104:05478
HLA-DRB108:02103
HLA-DRB109:01394.9
HLA-DRB113:02774.7
HLA-DRB115:01978
LVPSLLRSTVSKAFH194208HLA-DPA102:01/DPB101:01464.3
HLA-DQA101:02/DQB106:02457.4
HLA-DQA105:01/DQB103:01378.5
HLA-DRB101:0126.9
HLA-DRB103:0157.1
HLA-DRB104:01147.6
HLA-DRB104:05360
HLA-DRB108:0271.5
HLA-DRB109:01336.5
HLA-DRB111:01148.8
HLA-DRB113:02652.3
HLA-DRB115:01824.6
VPSLLRSTVSKAFHT195209HLA-DPA102:01/DPB101:01682.2
HLA-DQA101:02/DQB106:02397.2
HLA-DRB101:0118
HLA-DRB103:0132.8
HLA-DRB104:01108.8
HLA-DRB104:05303.1
HLA-DRB108:0252
HLA-DRB109:01219.9
HLA-DRB113:02568.1
HLA-DRB115:01745
PSLLRSTVSKAFHTT196210HLA-DPA102:01/DPB101:01871.8
HLA-DQA101:02/DQB106:02506.4
HLA-DRB101:0126.3
HLA-DRB103:0149.1
HLA-DRB104:01126.7
HLA-DRB104:04178.1
HLA-DRB104:05369.2
HLA-DRB108:0261.5
HLA-DRB115:01809.3
SLLRSTVSKAFHTTN197211HLA-DQA101:02/DQB106:02609.2
HLA-DRB101:0136.6
HLA-DRB103:0189.2
HLA-DRB104:01130.9
HLA-DRB104:05467.4
HLA-DRB108:0275.6
LLRSTVSKAFHTTNF198212HLA-DQA101:02/DQB106:02836.1
HLA-DRB103:01218.7
HLA-DRB104:01184.1
HLA-DRB104:04384.5
HLA-DRB104:05643.2
HLA-DRB108:02106

FLEIANYQVVYRDYRFLEIANYQV
271
285
HLA-DRB107:019.1
HLA-DRB108:02752
HLA-DRB113:02288.3
HLA-DRB501:0167.4
YRDYRFLEIANYQVR
272
286
HLA-DRB107:0110.9
HLA-DRB108:02565
HLA-DRB113:02237.5
HLA-DRB501:0129.8
RDYRFLEIANYQVRD273287HLA-DPA101/DPB104:01284.1
HLA-DPA101:03/DPB102:0190.8
HLA-DRB101:018.9
HLA-DRB104:0141.8
HLA-DRB107:0115.6
HLA-DRB108:02585.2
HLA-DRB111:0154.1
HLA-DRB113:02216.2
HLA-DRB301:01875
HLA-DRB501:0127.2
HLA-DPA102:01/DPB105:01218.5
HLA-DQA101:01/DQB105:01637.4
HLA-DQA101:02/DQB106:02331.2
HLA-DRB104:0481.1
HLA-DRB104:0532.1
HLA-DRB109:01273.4
DYRFLEIANYQVRDL274288HLA-DPA101/DPB104:01475
HLA-DPA101:03/DPB102:0172.5
HLA-DPA102:01/DPB101:0142.9
HLA-DPA102:01/DPB105:01294.4
HLA-DPA103:01/DPB104:02462.5
HLA-DRB101:018.3
HLA-DRB104:0158.2
HLA-DRB104:0539.5
HLA-DRB107:0115.9
HLA-DRB108:02704.3
HLA-DRB111:0143.5
HLA-DRB113:02190.3
HLA-DRB301:01979.2
HLA-DRB501:0118.3
RFLEIANYQVRDLET276290HLA-DPA101/DPB104:01594
HLA-DPA101:03/DPB102:01113.7
HLA-DPA102:01/DPB101:0166
HLA-DPA102:01/DPB105:01726.4
HLA-DRB101:0115.5
HLA-DRB104:01261.2
HLA-DRB104:04174.2
HLA-DRB104:05174.3
HLA-DRB107:0131
HLA-DRB109:01931.6
HLA-DRB111:01140.6
HLA-DRB113:02486.4
HLA-DRB501:0139
FLEIANYQVRDLETG277291HLA-DPA101:03/DPB102:01336.8
HLA-DPA102:01/DPB101:01146.9
HLA-DRB101:0128.9
HLA-DRB104:04273.3
HLA-DRB104:05325.2
HLA-DRB107:0157.2
HLA-DRB111:01340.9
HLA-DRB113:02852.9
HLA-DRB501:01101.7

FLTDEQFTIPPKKRNFLTDEQFTI295309HLA-DPA101/DPB104:01246.4
HLA-DPA101:03/DPB102:0135.5
HLA-DPA102:01/DPB101:0193.6
HLA-DPA102:01/DPB105:01541
HLA-DPA103:01/DPB104:02506.6
HLA-DRB103:0176.1
HLA-DRB104:01198.7
HLA-DRB104:05274.9
HLA-DRB107:0198.6
HLA-DRB301:014.9
HLA-DRB501:01948.8
PKKRNFLTDEQFTIG296310HLA-DPA101/DPB104:01172.7
HLA-DPA101:03/DPB102:0124.5
HLA-DPA102:01/DPB101:0182.3
HLA-DPA102:01/DPB105:01475.5
HLA-DPA103:01/DPB104:02341.5
HLA-DRB101:01850.7
HLA-DRB103:0159.9
HLA-DRB104:01136.1
HLA-DRB104:04869.9
HLA-DRB104:05325
HLA-DRB107:01162
HLA-DRB301:014.8
HLA-DRB501:01769
KKRNFLTDEQFTIGW297311HLA-DPA101/DPB104:01123
HLA-DPA101:03/DPB102:0120.1
HLA-DPA102:01/DPB101:0166.4
HLA-DPA102:01/DPB105:01394.6
HLA-DPA103:01/DPB104:02199
HLA-DRB101:01342.9
HLA-DRB103:0137.7
HLA-DRB104:01103.7
HLA-DRB104:04805.9
HLA-DRB104:05330.3
HLA-DRB107:01203.9
HLA-DRB301:014.6
HLA-DRB501:01527
KRNFLTDEQFTIGWD298312HLA-DPA101/DPB104:01110.8
HLA-DPA101:03/DPB102:0121.6
HLA-DPA102:01/DPB101:0165
HLA-DPA102:01/DPB105:01405.2
HLA-DPA103:01/DPB104:02148.2
HLA-DRB101:01354.3
HLA-DRB103:0131.7
HLA-DRB104:0198.2
HLA-DRB104:05398.7
HLA-DRB107:01325.7
HLA-DRB301:014.4
HLA-DRB501:01505.9
RNFLTDEQFTIGWDA299313HLA-DPA101/DPB104:01115.3
HLA-DPA101:03/DPB102:0126.7
HLA-DPA102:01/DPB101:0188.5
HLA-DPA102:01/DPB105:01532.9
HLA-DPA103:01/DPB104:02182.5
HLA-DRB101:01687.7
HLA-DRB103:0164.7
HLA-DRB104:01178.3
HLA-DRB104:05700.1
HLA-DRB301:015.9
HLA-DRB501:01948.3
NFLTDEQFTIGWDAM300314HLA-DPA101/DPB104:01244
HLA-DPA101:03/DPB102:0144.6
HLA-DPA102:01/DPB101:01173.3
HLA-DPA103:01/DPB104:02250.2
HLA-DQA105:01/DQB102:01475.1
HLA-DRB103:01164.3
HLA-DRB104:01278.3
HLA-DRB301:019
FLTDEQFTIGWDAME301315HLA-DPA101/DPB104:01640
HLA-DPA101:03/DPB102:01154.8
HLA-DPA102:01/DPB101:01395.6
HLA-DPA103:01/DPB104:02437.8
HLA-DQA105:01/DQB102:01459.5
HLA-DRB103:01433.9
HLA-DRB104:01271.4
HLA-DRB301:0115.5

LLGDIVAVSQPVSARLLGDIVAVS519533HLA-DPA102:01/DPB101:01922.5
HLA-DPA103:01/DPB104:02822.3
HLA-DQA101:02/DQB106:02726
HLA-DQA105:01/DQB103:0142.2
HLA-DRB104:01494.1
HLA-DRB108:02914.5
HLA-DRB301:01211.5
PVSARLLGDIVAVSK520534HLA-DPA102:01/DPB101:01752.7
HLA-DPA103:01/DPB104:02853.4
HLA-DQA101:02/DQB106:02715.4
HLA-DQA105:01/DQB103:0134
HLA-DRB103:01380.3
HLA-DRB104:01298
HLA-DRB104:05458.8
HLA-DRB108:02571.8
HLA-DRB301:01196.5
VSARLLGDIVAVSKC521535HLA-DPA102:01/DPB101:01723.1
HLA-DPA103:01/DPB104:02733.4
HLA-DQA101:02/DQB106:02502.8
HLA-DQA105:01/DQB103:0129.9
HLA-DRB103:01214.3
HLA-DRB104:01237
HLA-DRB104:05429.4
HLA-DRB108:02541.8
HLA-DRB301:01172.3
SARLLGDIVAVSKCI522536HLA-DPA102:01/DPB101:01677.6
HLA-DPA103:01/DPB104:02650.5
HLA-DQA101:02/DQB106:02555.2
HLA-DQA105:01/DQB103:0126.4
HLA-DRB101:01175.3
HLA-DRB103:01124.9
HLA-DRB104:01187.9
HLA-DRB104:05396.3
HLA-DRB108:02396.7
HLA-DRB301:01143.4
ARLLGDIVAVSKCIE523537HLA-DPA102:01/DPB101:01791.2
HLA-DPA103:01/DPB104:02787.4
HLA-DQA101:02/DQB106:02590.2
HLA-DQA105:01/DQB103:0131.5
HLA-DRB101:01270.9
HLA-DRB103:01199.3
HLA-DRB104:01255.3
HLA-DRB104:05643.6
HLA-DRB108:02360.5
HLA-DRB301:01379.2
RLLGDIVAVSKCIEI524538HLA-DPA102:01/DPB101:01807.2
HLA-DPA103:01/DPB104:02911.1
HLA-DQA101:02/DQB106:02621.6
HLA-DQA105:01/DQB103:0135.4
HLA-DRB103:01347.3
HLA-DRB104:01375.6
HLA-DRB104:05977.9
HLA-DRB108:02414.9
HLA-DRB301:01974.2
LLGDIVAVSKCIEIP525539HLA-DPA102:01/DPB101:01941
HLA-DQA101:02/DQB106:02748.6
HLA-DQA105:01/DQB103:0137.1
HLA-DRB103:01688
HLA-DRB104:01848.5
HLA-DRB108:02521

IASFLSNPFISTVSGIASFLSNPF737751HLA-DPA102:01/DPB101:01264.9
HLA-DQA105:01/DQB102:01384.2
HLA-DRB104:0153.5
HLA-DRB104:0492.5
HLA-DRB104:0516.2
HLA-DRB107:0125
HLA-DRB109:01104.9
HLA-DRB115:0124.4
HLA-DRB501:01103.5
STVSGIASFLSNPFA738752HLA-DPA101/DPB104:01559.3
HLA-DPA101:03/DPB102:01320.6
HLA-DPA102:01/DPB101:01240.5
HLA-DQA101:01/DQB105:01976.4
HLA-DQA105:01/DQB102:01474.6
HLA-DRB101:01101.3
HLA-DRB104:0141.8
HLA-DRB104:0515.5
HLA-DRB107:0131.3
HLA-DRB108:02589.8
HLA-DRB109:0174.3
HLA-DRB115:0118.9
HLA-DRB501:0177.6
TVSGIASFLSNPFAA739753HLA-DPA101:03/DPB102:01179.9
HLA-DPA102:01/DPB101:01219.5
HLA-DQA101:01/DQB105:01915.8
HLA-DQA105:01/DQB102:01611.8
HLA-DRB101:0140.6
HLA-DRB104:0127.7
HLA-DRB104:0515.5
HLA-DRB107:0144
HLA-DRB108:02538.8
HLA-DRB109:0172.2
HLA-DRB115:0115.9
HLA-DRB501:0157.1
VSGIASFLSNPFAAL740754HLA-DQA101:01/DQB105:01710
HLA-DQA105:01/DQB102:01755.5
HLA-DRB101:0114.2
HLA-DRB103:01427.9
HLA-DRB104:0122
HLA-DRB104:0514.6
HLA-DRB107:0143.3
HLA-DRB108:02486.4
HLA-DRB109:0152.2
HLA-DRB111:01377.7
HLA-DRB115:0112.8
HLA-DRB501:0129.4
SGIASFLSNPFAALG741755HLA-DQA101:01/DQB105:01936.1
HLA-DRB103:01629.7
HLA-DRB104:0127.6
HLA-DRB104:0518
HLA-DRB107:0167.9
HLA-DRB108:02582.5
HLA-DRB109:0156.2
HLA-DRB115:0114.6
HLA-DRB501:0150.2
GIASFLSNPFAALGI742756HLA-DRB101:0127.1
HLA-DRB104:0138.1
HLA-DRB104:0527.3
HLA-DRB108:02594.2
HLA-DRB109:0158.6
HLA-DRB115:0117.4
HLA-DRB501:0173.5
IASFLSNPFAALGIG743757HLA-DRB104:0167
HLA-DRB104:0541.9
HLA-DRB115:0128.6
HLA-DRB401:01735.5
HLA-DRB501:01119.8

LLGDIVAVSQPVSARLLGDIVAVS519533HLA-DPA102:01/DPB101:01922.5
HLA-DPA103:01/DPB104:02822.3
HLA-DQA101:02/DQB106:02726
HLA-DQA105:01/DQB103:0142.2
HLA-DRB104:01494.1
HLA-DRB108:02914.5
HLA-DRB301:01211.5
PVSARLLGDIVAVSK520534HLA-DPA102:01/DPB101:01752.7
HLA-DPA103:01/DPB104:02853.4
HLA-DQA101:02/DQB106:02715.4
HLA-DQA105:01/DQB103:0134
HLA-DRB103:01380.3
HLA-DRB104:01298
HLA-DRB104:05458.8
HLA-DRB108:02571.8
HLA-DRB301:01196.5
VSARLLGDIVAVSKC521535HLA-DPA102:01/DPB101:01723.1
HLA-DPA103:01/DPB104:02733.4
HLA-DQA101:02/DQB106:02502.8
HLA-DQA105:01/DQB103:0129.9
HLA-DRB103:01214.3
HLA-DRB104:01237
HLA-DRB104:05429.4
HLA-DRB108:02541.8
HLA-DRB301:01172.3
SARLLGDIVAVSKCI522536HLA-DPA102:01/DPB101:01677.6
HLA-DPA103:01/DPB104:02650.5
HLA-DQA101:02/DQB106:02555.2
HLA-DQA105:01/DQB103:0126.4
HLA-DRB101:01175.3
HLA-DRB103:01124.9
HLA-DRB104:01187.9
HLA-DRB104:05396.3
HLA-DRB108:02396.7
HLA-DRB301:01143.4
ARLLGDIVAVSKCIE523537HLA-DPA102:01/DPB101:01791.2
HLA-DPA103:01/DPB104:02787.4
HLA-DQA101:02/DQB106:02590.2
HLA-DQA105:01/DQB103:0131.5
HLA-DRB101:01270.9
HLA-DRB103:01199.3
HLA-DRB104:01255.3
HLA-DRB104:05643.6
HLA-DRB108:02360.5
HLA-DRB301:01379.2
RLLGDIVAVSKCIEI524538HLA-DPA102:01/DPB101:01807.2
HLA-DPA103:01/DPB104:02911.1
HLA-DQA101:02/DQB106:02621.6
HLA-DQA105:01/DQB103:0135.4
HLA-DRB103:01347.3
HLA-DRB104:01375.6
HLA-DRB104:05977.9
HLA-DRB108:02414.9
HLA-DRB301:01974.2
LLGDIVAVSKCIEIP525539HLA-DPA102:01/DPB101:01941
HLA-DQA101:02/DQB106:02748.6
HLA-DQA105:01/DQB103:0137.1
HLA-DRB103:01688
HLA-DRB104:01848.5
HLA-DRB108:02521

Inhibitory concentration needed for binding MHC II to the IEDB NN-align method; the lower value is better.