Rockefeller University Press

Table 3

The Binding Affinity (IC₅₀) of p24-1 Variant Peptides to HLA-DR1

Peptide no.		Peptide		Binding results
Peptide no.		Peptide		IC₅₀ av.^*		IC₅₀/index^‡
Truncated peptides
p24-1/11		PIVQNLQGQMV		0.07		1.75
p24-1/12		VQNLQGQMVHQ		0.08		2
p24-1/13		NLQGQMVHQAI		8.74		475
p24-1/14		QGQMVHQAISP		11.77		600
p24-1/15		QMVHQAISPRTL		6.62		325
p24-1/26		VQNLQGQMV		12.79		450
p24-1/27		PGVQNLQGQMVHQ		0.09		2.25
p24-1/28		PIGQNLQGQMVHQ		0.64		16
Ii		LPKPPKPVSKMRMATPLLMQ		0.04		1
HA		PKYVKQNTLKLAT (306–318)		0.14		3.5

Natural database variants^§
p24-1/18		PIVQNAQGQMVHQAISPRTL		0.04		1
p24-1/20		PIVQNLRGQMVHQAISPRTL		0.91		22.75

Natural 744 variants
p24-1		PIVQNLQGQMVHQAISPRTL		0.04		1
p24-1/16		PIVQNIQGQMVHQAISPRTL		0.1		2.5
p24-1/17		PIVQNQQGQMVHQPISPRTL		0.1		2.5
p24-1/19		PIVQNLQGQMVHQPISPRTL		1.19		29.75
p24-1/21		PIAQNIQGQMVHQAISPRTL		0.16		4
p24-1/23		PMVQNIRGQMVHQAISPRTL		0.01		0.25
p24-1/24		PIVQNIQGQVVHQAISPRTL		0.05		1.25
p24-1/25		PIVENIQGQMVHQAISPRTL		0.02		0.5
p24-1/29		FIVQNAQGQMVHQAISPRTL		0.32		8
p24-1/30		PIVENIQGQIIHQAISPRTL		0.44		11

Peptide no.		Peptide		Binding results
Peptide no.		Peptide		IC₅₀ av.^*		IC₅₀/index^‡
Truncated peptides
p24-1/11		PIVQNLQGQMV		0.07		1.75
p24-1/12		VQNLQGQMVHQ		0.08		2
p24-1/13		NLQGQMVHQAI		8.74		475
p24-1/14		QGQMVHQAISP		11.77		600
p24-1/15		QMVHQAISPRTL		6.62		325
p24-1/26		VQNLQGQMV		12.79		450
p24-1/27		PGVQNLQGQMVHQ		0.09		2.25
p24-1/28		PIGQNLQGQMVHQ		0.64		16
Ii		LPKPPKPVSKMRMATPLLMQ		0.04		1
HA		PKYVKQNTLKLAT (306–318)		0.14		3.5

Natural database variants^§
p24-1/18		PIVQNAQGQMVHQAISPRTL		0.04		1
p24-1/20		PIVQNLRGQMVHQAISPRTL		0.91		22.75

Natural 744 variants
p24-1		PIVQNLQGQMVHQAISPRTL		0.04		1
p24-1/16		PIVQNIQGQMVHQAISPRTL		0.1		2.5
p24-1/17		PIVQNQQGQMVHQPISPRTL		0.1		2.5
p24-1/19		PIVQNLQGQMVHQPISPRTL		1.19		29.75
p24-1/21		PIAQNIQGQMVHQAISPRTL		0.16		4
p24-1/23		PMVQNIRGQMVHQAISPRTL		0.01		0.25
p24-1/24		PIVQNIQGQVVHQAISPRTL		0.05		1.25
p24-1/25		PIVENIQGQMVHQAISPRTL		0.02		0.5
p24-1/29		FIVQNAQGQMVHQAISPRTL		0.32		8
p24-1/30		PIVENIQGQIIHQAISPRTL		0.44		11

IC₅₀, concentration of peptide required to bind 50% of Ii. Ii, invariant chain CLIP peptide. HA, influenza hemagglutinin peptide.

Average of triplicate binding assays.

IC₅₀ of variant peptides divided by value for index p24-1.

Reference 28.