English
 
User Manual Privacy Policy Disclaimer Contact us
  Advanced SearchBrowse

Item

ITEM ACTIONSEXPORT
  Large database for the analysis and prediction of spliced and non-spliced peptide generation by proteasomes

Specht, G., Roetschke, H. P., Mansurkhodzhaev, A., Henklein, P., Textoris-Taube, K., Urlaub, H., et al. (2020). Large database for the analysis and prediction of spliced and non-spliced peptide generation by proteasomes. Scientific Data, 7: 146. doi:10.1038/s41597-020-0487-6.

Item is

Basic

show hide
Item Permalink: http://hdl.handle.net/21.11116/0000-0006-CEDC-B Version Permalink: http://hdl.handle.net/21.11116/0000-0006-CEE1-4
Genre: Journal Article

Files

show Files
hide Files
:
3246661.pdf (Publisher version), 2MB
Name:
3246661.pdf
Description:
-
Visibility:
Public
MIME-Type / Checksum:
application/pdf / [MD5]
Technical Metadata:
Copyright Date:
-
Copyright Info:
-

Locators

show

Creators

show
hide
 Creators:
Specht, G.1, Author              
Roetschke, H. P.1, Author              
Mansurkhodzhaev, A.1, Author              
Henklein, P., Author
Textoris-Taube, K., Author
Urlaub, H.2, Author              
Mishto, M., Author
Liepe, J.1, Author              
Affiliations:
1Research Group of Quantitative and System Biology, MPI for Biophysical Chemistry, Max Planck Society, ou_2466694              
2Research Group of Bioanalytical Mass Spectrometry, MPI for biophysical chemistry, Max Planck Society, ou_578613              

Content

show
hide
Free keywords: Peptides; Proteases; Proteomic analysis
 Abstract: Proteasomes are the main producers of antigenic peptides presented to CD8+ T cells. They can cut proteins and release their fragments or recombine non-contiguous fragments thereby generating novel sequences, i.e. spliced peptides. Understanding which are the driving forces and the sequence preferences of both reactions can streamline target discovery in immunotherapies against cancer, infection and autoimmunity. Here, we present a large database of spliced and non-spliced peptides generated by proteasomes in vitro, which is available as simple CSV file and as a MySQL database. To generate the database, we performed in vitro digestions of 55 unique synthetic polypeptide substrates with different proteasome isoforms and experimental conditions. We measured the samples using three mass spectrometers, filtered and validated putative peptides, identified 22,333 peptide product sequences (15,028 spliced and 7,305 non-spliced product sequences). Our database and datasets have been deposited to the Mendeley (doi:10.17632/nr7cs764rc.1) and PRIDE (PXD016782) repositories. We anticipate that this unique database can be a valuable source for predictors of proteasome-catalyzed peptide hydrolysis and splicing, with various future translational applications.

Details

show
hide
Language(s): eng - English
 Dates: 2020-05-15
 Publication Status: Published online
 Pages: -
 Publishing info: -
 Table of Contents: -
 Rev. Type: Peer
 Identifiers: DOI: 10.1038/s41597-020-0487-6
 Degree: -

Event

show

Legal Case

show

Project information

show

Source 1

show
hide
Title: Scientific Data
Source Genre: Journal
 Creator(s):
Affiliations:
Publ. Info: -
Pages: 12 Volume / Issue: 7 Sequence Number: 146 Start / End Page: - Identifier: -