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PXD031245-2

PXD031245 is an original dataset announced via ProteomeXchange.

Dataset Summary
TitleProximity labelling and cryomill affinity purification compared for Trypanosoma brucei proteins with unconfined, semi-confined and confined localisation
DescriptionIdentification of protein-protein interactions is a major contributor for understanding protein function and elucidating molecular and cellular mechanisms. Two strategies are currently popular for identification of protein interaction partners directly from the cellular environment. Affinity purification (pulldown) isolates the protein of interest with the aid of a matrix that specifically captures the target and potential partners. In BioID, the protein of interest is fused to biotin ligase facilitating proximity biotinylation and biotinylated proteins are isolated under stringent conditions with streptavidin. Whilst clear that these two methods can provide insight, it is also apparent that they can reveal distinct interactomes, but the basis for these differences is less obvious. We compare these methods using four different trypanosome proteins as baits: the cytoplasmic poly(A) binding proteins PABP1 and PABP2, mRNA export receptor MEX67, that shuttles between the nucleus and the cytoplasm with predominant localisation at the nuclear pores, and the nucleoporin NUP158.
HostingRepositoryPRIDE
AnnounceDate2023-11-14
AnnouncementXMLSubmission_2023-11-14_07:42:33.446.xml
DigitalObjectIdentifier
ReviewLevelPeer-reviewed dataset
DatasetOriginOriginal dataset
RepositorySupportUnsupported dataset by repository
PrimarySubmitterMartin Zoltner
SpeciesList scientific name: Trypanosoma brucei; NCBI TaxID: 5691;
ModificationListiodoacetamide derivatized residue
InstrumentQ Exactive; Orbitrap Fusion
Dataset History
RevisionDatetimeStatusChangeLog Entry
02022-01-25 07:35:20ID requested
12022-11-30 07:02:39announced
22023-11-14 07:42:37announced2023-11-14: Updated project metadata.
Publication List
Moreira CMDN, Kelemen CD, Obado SO, Zahedifard F, Zhang N, Holetz FB, Gauglitz L, Dallagiovanna B, Field MC, Kramer S, Zoltner M, Impact of inherent biases built into proteomic techniques: Proximity labeling and affinity capture compared. J Biol Chem, 299(1):102726(2023) [pubmed]
Keyword List
submitter keyword: cryomilling,Affinity purification, proteome, BioID, interactome
Contact List
Martin Zoltner
contact affiliationHead of Drug Discovery and Evaluation Center for Research of Pathogenicity and Virulence of Parasites Charles University in Prague, BIOCEV Průmyslová 595 252 50 Vestec Czech Republic phone: +420 325 873 966
contact emailzoltnerm@natur.cuni.cz
lab head
Martin Zoltner
contact affiliationDivision of Biological Chemistry & Drug Discovery School of Life Sciences University of Dundee Dundee DD1 5EH
contact emailm.zoltner@dundee.ac.uk
dataset submitter
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