BAIT

VPS-35

CELE_F59G1.3, F59G1.3
related to yeast Vacuolar Protein Sorting factor
Caenorhabditis elegans
PREY

SNX-1

CELE_C05D9.1, vps-5, C05D9.1
snx-1 encodes a PX and BAR domain-containing protein that is the C. elegans ortholog of the Vps5/SNX1 subunit of the core retromer complex; in C. elegans, SNX-1 functions as a component of the retromer complex that, along with RME-8 and HSP-1, regulates retrograde endosome-to-Golgi transport through control of endosomal clathrin dynamics; SNX-1 binds RME-8 in vitro; SNX-1 is expressed in several different tissues, including the intestine, coelomocytes, and hypodermis; SNX-1 localizes to early endosomes, co-localizing with RME-8.
Caenorhabditis elegans

Co-fractionation

Interaction inferred from the presence of two or more protein subunits in a partially purified protein preparation. If co-fractionation is demonstrated between 3 or more proteins, then add them as a complex.

Publication

EPIC: software toolkit for elution profile-based inference of protein complexes.

Hu LZ, Goebels F, Tan JH, Wolf E, Kuzmanov U, Wan C, Phanse S, Xu C, Schertzberg M, Fraser AG, Bader GD, Emili A

Protein complexes are key macromolecular machines of the cell, but their description remains incomplete. We and others previously reported an experimental strategy for global characterization of native protein assemblies based on chromatographic fractionation of biological extracts coupled to precision mass spectrometry analysis (chromatographic fractionation-mass spectrometry, CF-MS), but the resulting data are challenging to process and interpret. Here, we describe EPIC ... [more]

Nat. Methods Jul. 15, 2019; (); [Pubmed: 31308550]

Quantitative Score

  • 0.891 [Confidence Score]

Throughput

  • High Throughput

Additional Notes

  • High confidence protein interactions have an EPIC PPI score >= 0.5

Related interactions

InteractionExperimental Evidence CodeDatasetThroughputScoreCurated ByNotes
VPS-35 SNX-1
Reconstituted Complex
Reconstituted Complex

An interaction is inferred between proteins in vitro. This can include proteins in recombinant form or proteins isolated directly from cells with recombinant or purified bait. For example, GST pull-down assays where a GST-tagged protein is first isolated and then used to fish interactors from cell lysates are considered reconstituted complexes (e.g. PUBMED: 14657240, Fig. 4A or PUBMED: 14761940, Fig. 5). This can also include gel-shifts, surface plasmon resonance, isothermal titration calorimetry (ITC) and bio-layer interferometry (BLI) experiments. The bait-hit directionality may not be clear for 2 interacting proteins. In these cases the directionality is up to the discretion of the curator.

Low-BioGRID
-

Curated By

  • BioGRID