SaLT&PepPr is an Interface-Predicting Language Model for Designing Peptide-Guided Protein Degraders

ABSTRACT: Cell lysates were adjusted to 5% SDS, and 20 ugs was reduced with 10 mM DTT and alkylated with 25 mM iodoacetamide followed by digestion with 1:15 trypsin using an S-trap at 47 degC for 1 h. Lyophilized peptides were reconstituted at 0.5 ugs/uL, and a study pool QC sample was made by mixing equal volumes of all samples. 1.75 uL of each sample was analyzed once, interspersed with 3 replicates of the SPQC pool, using a Waters M-Class in trap-elute configuration (75 uM x 25 cm HSS-T3 analytical column at 400 nl/min, 5-30% MeCN over 90 min) interfaced to a Thermo Exploris 480 with staggered overlapping window DIA MS analysis. Raw files were deconvoluted with .HTRMS converter (Biognosys) followed by direct-DIA and peptide/protein quantification with Spectronaut 16 (Biognosys).

INSTRUMENT(S): Orbitrap Exploris 480

ORGANISM(S): Homo Sapiens (ncbitaxon:9606)

SUBMITTER: Pranam Chatterjee  

PROVIDER: MSV000093088 | MassIVE | Thu Oct 12 06:44:00 BST 2023

SECONDARY ACCESSION(S): PXD046088

REPOSITORIES: MassIVE