ArticleJournal of proteome research2010
Isotope signatures allow identification of chemically cross-linked peptides by mass spectrometry: a novel method to determine interresidue distances in protein structures through cross-linking.
Article in Journal of proteome research, 2010. The graph could read no effect estimate from its abstract, so it casts no vote on the map. Cited by 16 papers.
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Who cites it
16 citing papers in PubMed, 40 citations in OpenAlex.
- Dehydroamino acids and their crosslinks in Alzheimer's disease aggregates.Brain communications · 2025Article
- Molecular networking and collision cross section prediction for structural isomer and unknown compound identification in plant metabolomics: a case study applied to Zhanthoxylum heitzii extracts.Analytical and bioanalytical chemistry · 2022Article
- Cross-linking mass spectrometry: methods and applications in structural, molecular and systems biology.Nature structural & molecular biology · 2018Review
- Structure of γ-tubulin small complex based on a cryo-EM map, chemical cross-links, and a remotely related structure.Journal of structural biology · 2016Article
- The molecular architecture of the Dam1 kinetochore complex is defined by cross-linking based structural modelling.Nature communications · 2015Article
- Kojak: efficient analysis of chemically cross-linked protein complexes.Journal of proteome research · 2015Article
- Distance restraints from crosslinking mass spectrometry: mining a molecular dynamics simulation database to evaluate lysine-lysine distances.Protein science : a publication of the Protein Society · 2014Article
- A mass spectrometry view of stable and transient protein interactions.Advances in experimental medicine and biology · 2014Review
- Discovery of undefined protein cross-linking chemistry: a comprehensive methodology utilizing 18O-labeling and mass spectrometry.Analytical chemistry · 2013Article
- Proteomics-based methods for discovery, quantification, and validation of protein-protein interactions.Analytical chemistry · 2013Review
- Cross-link guided molecular modeling with ROSETTA.PloS one · 2013Article
- Identification of peptide features in precursor spectra using Hardklör and Krönik.Current protocols in bioinformatics · 2012Article
- An integrated chemical cross-linking and mass spectrometry approach to study protein complex architecture and function.Molecular & cellular proteomics : MCP · 2012Article
- Isotopic signature transfer and mass pattern prediction (IsoStamp): an enabling technique for chemically-directed proteomics.ACS chemical biology · 2011Article
- Xwalk: computing and visualizing distances in cross-linking experiments.Bioinformatics (Oxford, England) · 2011Article
- The beginning of a beautiful friendship: cross-linking/mass spectrometry and modelling of proteins and multi-protein complexes.Journal of structural biology · 2011Article
Corrections and comments
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Authors and funding
6 authors at 1 institution in 1 country.
Funding
Abstract
Knowledge of protein structures and protein-protein interactions is essential for understanding of biological processes. Recent advances in protein cross-linking and mass spectrometry (MS) have shown significant potential to contribute to this area. Here we report a novel method to rapidly and accurately identify cross-linked peptides based on their unique isotope signature when digested in the presence of H(2)(18)O. This method overcomes the need for specially synthesized cross-linkers and/or multiple MS runs required by other techniques. We validated our method by performing a "blind" analysis of 5 proteins/complexes of known structure. Side chain repacking calculations using Rosetta show that 17 of our 20 positively identified cross-links fit the published atomic structures. The remaining 3 cross-links are likely due to protein aggregation. The accuracy and rapid throughput of our workflow will advance the use of protein cross-linking in structural biology.
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Registered trials
Read under generation 80e0d062 · epoch 390. Bibliography from PubMed, PubMed Central and OpenAlex; grants from NIH RePORTER; trial links from ClinicalTrials.gov; estimates, votes and beliefs from the OpenQuestion graph.