PXD033107

PXD033107 is an original dataset announced via ProteomeXchange.

Title	A photo-crosslink approach to identify class II SUMO binders
Description	The small ubiquitin-like modifier (SUMO) is involved in various cellular processes and mediates known non-covalent protein-protein interactions by three distinct binding surfaces, whose interactions are termed class I to class III. While interactors for the class I interaction, which involves binding of a SUMO-interacting motif (SIM) to a hydrophobic groove in SUMO-1 and SUMO-2/3, are widely abundant, only a couple of examples have been reported for the other two types of interactions. Class II binding is conveyed by the E67 loop region on SUMO-1. Many previous studies to identify SUMO binders using pull-down or microarray approaches did not strategize on the SUMO binding mode. Identification of SUMO binding partners is further complicated due to the typically transient and low affinity interactions with the modifier. Here we aimed to identify SUMO binders selectively enriched for class II binding. Using a genetically encoded photo-crosslinker approach, we have designed SUMO-1 probes to covalently capture class II SUMO interactors by strategically positioning the photo crosslinking moiety on the SUMO-1 surface. The probes were validated using known class II and class I binding partners. We utilized the probe with p-benzoyl-phenylalanine (BzF, also termed BpF or Bpa) at the position of Gln69 to identify binding proteins from mammalian cell extracts using mass spectrometry. By comparison with results obtained with a similarly designed SUMO-1 probe to target SIM-mediated binders of the class I type, we identified 192 and 96 proteins specifically enriched by either probe, respectively. The implicated preferential class I or class II binding modes of these proteins will further contribute to unveiling the complex interplay of SUMO-mediated interactions.
HostingRepository	PRIDE
AnnounceDate	2022-08-12
AnnouncementXML	Submission_2022-08-12_05:34:47.518.xml
DigitalObjectIdentifier
ReviewLevel	Peer-reviewed dataset
DatasetOrigin	Original dataset
RepositorySupport	Unsupported dataset by repository
PrimarySubmitter	Kira Brüninghoff
SpeciesList	scientific name: Homo sapiens (Human); NCBI TaxID: 9606;
ModificationList	No PTMs are included in the dataset
Instrument	maXis

Revision	Datetime	Status	ChangeLog Entry
0	2022-04-08 07:27:27	ID requested
⏵ 1	2022-08-12 05:34:48	announced

Br, ü, ninghoff K, Wulff S, D, ö, rner W, Geiss-Friedlander R, Mootz HD, A Photo-Crosslinking Approach to Identify Class II SUMO-1 Binders. Front Chem, 10():900989(2022) [pubmed]

submitter keyword: genetic code expansion, chemical crosslinking, mass spectrometry, p-benzoyl-phenylalanine, ubiquitin-like protein, SUMO

Henning D. Mootz
contact affiliation	Institute of Biochemistry, University of Muenster, Corrensstraße 36, 48149 Muenster
contact email	Henning.Mootz@uni-muenster.de
lab head
Kira Brüninghoff
contact affiliation	Institute of Biochemistry, University of Muenster, Corrensstraße 36, 48149 Muenster
contact email	kira.brueninghoff@uni-muenster.de
dataset submitter

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/2022/08/PXD033107

PRIDE project URI

• PRIDE
  1. PXD033107
     1. Label: PRIDE project
     2. Name: A photo-crosslink approach to identify class II SUMO binders