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PXD010895

PXD010895 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleNon-covalently associated peptides are observed during liquid chromatography-mass spectrometry and affect cross-link analyses
DescriptionCross-Linking/mass spectrometry draws structural information out of covalently linked peptide pairs. When these links do not match to previous structural models they may indicate changes of protein conformation. Unfortunately, such links can also be the result of experimental errors or artefacts. Here we describe the observation of non-covalently associated peptides during liquid chromatography-mass spectrometry analysis which can easily be misidentified as cross-linked. Strikingly, they often mismatch to the protein structure or may falsely suggest protein homo-dimerization. Non-covalently associated peptides presumably form during ionization and can be distinguished from cross-linked peptides by observing co-elution of the corresponding linear peptides in MS1, as well as the presence of the individual peptide fragments in mixed MS2 spectra. Interestingly, non-covalently associated peptides seem sensitive to ionization source design as we see them more prevalently on a Q Exactive than on an Orbitrap Velos mass spectrometer. Finally we show how more disruptive ionization settings such as moderate in-source fragmentation suppresses their presence.
HostingRepositoryPRIDE
AnnounceDate2024-10-22
AnnouncementXMLSubmission_2024-10-22_04:12:50.645.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterSven Giese
SpeciesList scientific name: Bos taurus (Bovine); NCBI TaxID: 9913; scientific name: Gallus gallus (Chicken); NCBI TaxID: 9031; scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationListmonohydroxylated residue; iodoacetamide derivatized residue
InstrumentQ Exactive HF; LTQ Orbitrap Velos; Q Exactive
Dataset History
RevisionDatetimeStatusChangeLog Entry
02018-08-28 04:02:41ID requested
12019-01-25 00:36:47announced
22024-10-22 04:12:51announced2024-10-22: Updated project metadata.
Publication List
10.1021/acs.analchem.8b04037;
Giese SH, Belsom A, Sinn L, Fischer L, Rappsilber J, Noncovalently Associated Peptides Observed during Liquid Chromatography-Mass Spectrometry and Their Effect on Cross-Link Analyses. Anal Chem, 91(4):2678-2685(2019) [pubmed]
Keyword List
curator keyword: Technical
submitter keyword: cross-linking, HSA, SDA
Contact List
Juri Rappsilber
contact affiliation1. Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany 2. Wellcome Centre for Cell Biology, School of Biological Sciences, University of Edinburgh, Edinburgh EH93BF, United Kingdom ( lab head )
contact emailjuri.rappsilber@tu-berlin.de
lab head
Sven Giese
contact affiliationDepartment of Bioanalytics, Institute of Biotechnology, Technische Universität Berlin, 13355 Berlin, Germany
contact emailsven.giese@tu-berlin.de
dataset submitter
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