PXD038492 is an
original dataset announced via ProteomeXchange.
Dataset Summary
Title | LC-MSMS of Hela cell extracts on pull down with de novo modular peptide binding proteins |
Description | we describe a general approach for de novo design of proteins made out of repeating units that bind peptides with repeating sequences such that there is a one to one correspondence between repeat units on the protein and peptide. We develop a rapid docking plus geometric hashing method to identify protein backbones and protein-peptide rigid body arrangements that are compatible with bidentate hydrogen bonds between side chains on the protein and the backbone of the peptide; the remainder of the protein sequence is then designed using Rosetta to incorporate additional interactions with the peptide and drive folding to the desired structure. We use this approach to design, from scratch, alpha helical repeat proteins that bind six different tripeptide repeat sequences--PLP, LRP, PEW, IYP, PRM and PKW-- in near polyproline 2 helical conformations. |
HostingRepository | PRIDE |
AnnounceDate | 2023-03-17 |
AnnouncementXML | Submission_2023-03-17_05:42:28.415.xml |
DigitalObjectIdentifier | http://dx.doi.org/10.6019/PXD038492 |
ReviewLevel | Peer-reviewed dataset |
DatasetOrigin | Original dataset |
RepositorySupport | Supported dataset by repository |
PrimarySubmitter | TomosMorgan |
SpeciesList | scientific name: Homo sapiens (Human); NCBI TaxID: 9606; |
ModificationList | No PTMs are included in the dataset |
Instrument | Q Exactive HF |
Dataset History
Revision | Datetime | Status | ChangeLog Entry |
0 | 2022-12-01 03:47:40 | ID requested | |
⏵ 1 | 2023-03-17 05:42:28 | announced | |
Publication List
Keyword List
submitter keyword: Hela, gelbands,LC-MSMS |
Contact List
EmmanuelDerivery |
contact affiliation | Medical Research Council - Laboratory of molecular biology |
contact email | derivery@mrc-lmb.cam.ac.uk |
lab head | |
TomosMorgan |
contact affiliation | MRC-LMB |
contact email | tmorgan@mrc-lmb.cam.ac.uk |
dataset submitter | |
Full Dataset Link List
Dataset FTP location
NOTE: Most web browsers have now discontinued native support for FTP access within the browser window. But you can usually install another FTP app (we recommend FileZilla) and configure your browser to launch the external application when you click on this FTP link. Or otherwise, launch an app that supports FTP (like FileZilla) and use this address: ftp://ftp.pride.ebi.ac.uk/pride/data/archive/2023/03/PXD038492 |
PRIDE project URI |
Repository Record List
[ + ]
[ - ]
- PRIDE
- PXD038492
- Label: PRIDE project
- Name: LC-MSMS of Hela cell extracts on pull down with de novo modular peptide binding proteins