BDB -BiopanningDataSet Details

Biopanning Data

BiopanningDataSet ID: 3556

Peptides:

Sequences	Affinity Values
CQSLWMN(8) CKHSLWV(2) CLSDCRV(1)	[7.1±0.7,9.7±0.7] [NA, NA] [NA, NA]

Sequences Features:

Motif:

Unique Sequence Number:

Experimental Method:

Phage display (subtractive panning)

Sequencing Platform:

Sequencing Method:

Sanger sequencing

Rounds of Panning:

Reference:

PMID: 31398275

Target Name:

Histone deacetylase 8, HD8

Template Name:

Not determined.

Structure of Target-Template Complex:

Not determined.

Structure of Target-Peptide Complex:

Not determined.

Library Name:

pADLg3-TGC-(NNK)6-TAG phagemid library

Affinity Measurement Method:

Fluorescence polarization

Affinity Measurement Description:

We incubated a 25 nM 5-FAM-conjugated cyclic peptide and different concentrations of a target protein (160 nM to 160 µM) at black 96-well plates in a 200 µL total volume that was adjusted by adding the PBS buffer and then measured fluorescence polarization in a microplate reader at Ex/Em = 490 nm/520 nm. The Kd (μM) value was determined and shown in the firt column of the affinity values. In addition, IC50 (μM) values of selected cyclic peptides when binding to their protein targets were also determined and shown in the second column of the affinity values.

Brief Description:

In the selection, in order to remove individuals capable of non-specific binding we incubated the phage library with only streptavidin magnetic beads for every round of selection, collected the unbound phages, and then subjected them to bind protein-binding streptavidin magnetic beads.

BiopanningDataSet Comments:

All selected cyclic peptide ligands showed 4 to 6-fold stronger affinity to their protein targets than their linear counterparts.

Curator:

Chunchao Pu

Curation Date:

2020-12-29

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