International Journal of Peptides

Research Article

In Vitro Selection of Cathepsin E-Activity-Enhancing Peptide Aptamers at Neutral pH

Table 1

Oligonucleotides used for the secondary library (ASAC) construction for CatE-activating peptides at neutral pH.


No.	Nucleotide sequence (5′→3′)	Size (nucleotides)	Amino acid sequence of the block

Definition ^a

	GGCTCGCGAA TACTGCGAAG AAAGGTCGT (D₅)	29
	GATCTCACTC CTTCGCAGTA TTCGCGAGCC (D₃)	30

Starting 5′/3′ -halves for ASAC library

1	D₅-GACCCATCCC CA/GACCCATCCC CA-D₃	41/42	DPSP
2	D₅-ATTATTATTA TT/ATTATTATTA TT-D₃	41/42	IIII
3	D₅-AAAGGCCCAC CA/AAAGGCCCAC CA-D₃	41/42	KGPP
4	D₅-CCATGCCCAT GC/CCATGCCCAT GC-D₃	41/42	PCPC
5	D₅-CCAGGCCCAC CA/CCAGGCCCAC CA-D₃	41/42	PGPP
6	D₅-TCCTGCTCCT GC/TCCTGCTCCT GC-D₃	41/42	SCSC
7	D₅-GTCGGGTGTG AC/GTCGGGTGTG AC-D₃	41/42	VGCD
8	D₅-TTCATGTACG TG/TTCATGTACG TG-D₃	41/42	FMYV
9	D₅-TGCTGCCCAC GC/TGCTGCCCAC GC-D₃	41/42	CCPR
10	D₅-CCAGGCATTA AA/CCAGGCATTA AA-D₃	41/42	PGIK
11	D₅-GACCCATCCC AA/GACCCATCCC AA-D₃	41/42	DPSQ
12	D₅-GGAGGACGGC GG/GGAGGACGGC GG-D₃	41/42	GGRR
13	D₅-TCCGCCACTT GC/TCCGCCACTT GC-D₃	41/42	SGTC
14	D₅-GCCGCCTTTA GA/GGCGGCTTTA GA-D₃	41/42	GGFR
15	D₅-CTGAAGGACT AC/CTGAAGGACT AC-D₃	41/42	LKDY
16	D₅-AAAGATGACG AT/AAAGATGACG AT-D₃	41/42	KDDD
17	D₅-TCCCCAATTA TT/TCCCCAATTA TT-D₃	41/42	SPII
18	D₅-CCACCACCAT GC/CCACCACCAT GC-D₃	41/42	PPPC
19	D₅-CCACCATCCT GC/CCACCATCCT GC-D₃	41/42	PPSC
20	D₅-TGTGACTTCA TG/TGTGACTTCA TG-D₃	41/42	CDFM
21	D₅-CCACGCCCAG GC/CCACGCCCAG GC-D₃	41/42	PRPG
22	D₅-TCCCAAATTA TT/TCCCAAATTA TT-D₃	41/42	SQII
23	D₅-GGAGGCGGAG GC/GGAGGCGGAG GC-D₃	41/42	GGGG

^aFor simplicity, the device sequences are defined and symbolized (D₅ and D₃). For the YLBS block shuffling, 5′-half and 3′-half oligonucleotides are hybridized at their stem sequences (i.e., D₅ and D₃) and then ligated (for detail, see [19]).