Table 2.

Binding affinity of Cys-Tyr-PNA-Lys₄ by the Dynabead-based solution binding assay

Entry	Site	Code	Calcd M + 1a	Obsvd M + 1a	PNA sequence	Kd (pM)
1	899	S3-2	5571	5576	TATCTCCAGTTTCCAGCT	6 ± 3
2	673	7-2	5588	5594	TTTCCCAGTCCGTCGGTC	12 ± 4
3	476	5-2	5641	5646	CATTATGTCCATTGTTGT	17 ± 6
4	2848	50-2	5779	5784	TGGTGTGCTTTGTGGATG	20 ± 7
5	1414	S5-2	5651	5659	TAATTTGTCACGTCGGTC	49 ± 6
6	1927	29	5592	5594	CCTCTGTTTGTCACTAAT	300 ± 30
7	2020	32	5603	5604	CCAAAATTATCCTTCAGA	380 ± 60
8	2114	35	5587	5591	TGTCCCCCAGTTCCAGGC	680 ± 100
9	1389	20	5658	5660	TATTAAACCTAACATGGT	820 ± 190
10	1263	1263	5653	5655	TTTTTACTGGGTACTTTT	340 ± 60
11	1012	1012	5604	5608	CTTCATGGCACAAACTAC	650 ± 170
12	1526	1526	5637	5640	CACACTTGATGAAACCAA	1000 ± 310
13	1653	1653	5680	5683	ATAGCATGATTTCTTTGA	1000 ± 190
14	nab	50-2S	5562	5568	CATCCACAAAGCACACCA	>10 000

The site refers to the position in the mRNA that is complementary to the 3′ end of the PNA sequence shown (the start codon is at 448). The code number X-Y is the same as that for the corresponding ODN listed in Table 1.

^aCalculated MW is for the average M + 1 ion, observed MW is for the M + 1 ion detected by MALDI-TOF.

^bnot applicable.