BDB -BiopanningDataSet Details

Biopanning Data

BiopanningDataSet ID: 3005

Peptides:

Sequences
STYTSVS(11) NQVANHQ(5) STYLYCA(1) PDYTSVS(1) YYAAESL(1) IRLPNHQ(1)

Sequences Features:

Motif:

TSVS

Unique Sequence Number:

Experimental Method:

Phage display (subtractive panning)

Sequencing Platform:

Sequencing Method:

Sanger sequencing

Rounds of Panning:

Reference:

PMID: 23375098

Target Name:

Helix 69 of Escherichia coli 23S rRNA

Template Name:

Not determined.

Structure of Target-Template Complex:

Not determined.

Structure of Target-Peptide Complex:

Not determined.

Library Name:

Ph.D.-7 phage display library (X7)

Affinity Measurement Method:

Affinity Measurement Description:

Brief Description:

Before the positive selection, the phage solution (10 μL of the original library in 100 μL buffer A, 2.0e11 pfu, in which pfu is plaque forming unit) was pipetted into a well having no immobilized target RNA and incubated for 1 h at RT with gentle shaking for prescreening of the library.

BiopanningDataSet Comments:

One selected sequence, NQVANHQ, was shown through a bead assay to interact with helix 69. Electrospray ionization mass spectroscopy revealed an apparent dissociation constant for the amidated peptide and helix 69 in the low micromolar range. This value is comparable to that of aminoglycoside antibiotics binding to the A site of 16S rRNA or helix 69. Helix 69 variants (human) and unrelated RNAs (helix 31 or A site of 16S rRNA) showed two to four fold lower affinity for NQVANHQ-NH2. These results suggest that the peptide has desirable features for development as a lead compound for novel antimicrobials.

Curator:

Curation Date:

0000-00-00

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