Back

Open Dataset XSPKOJGM

NUB1 sequesters unfolded FAT10 for ubiquitin- independent degradation by the 26S proteasome

Abstract

FAT10, a ubiquitin-like modifier, can target hundreds of proteins in the mammalian immune system to the 26s proteasome for degradation. Required for the degradation pathway is its Cofactor NEDD8-ultimate-buster-1 (NUB1). This entry contains SEC-SAXS data collected on FAT10 and NUB1 complexes, where full-length NUB1 was used and a mutant with the Ubiquitin-like (UBL) domain removed (referred here as CA167 or NUB1ΔUBL). The data help support a mechanism as to how FAT10 activates NUB1 by trapping the NUB1 ubiquitin-like domain to dock it to the 26S proteasome.

Experimental description

SEC-SAXS data were collected at SIBYLY Beamline 12.3.1 at Lawerence Berkeley National Lab using a Shodex 803 size-exclusion column with a buffer containing 60 HEPES pH7.4, 150 mM NaCl, 5% glycerol, 0.5 mM TCEP. Images were recorded every 2 seconds. Following buffer background subtraction of the images, the data here were merged with BioXTAS RAW software.

File description

Nub1FAT10.dat - Full-length NUB1 in complex with FAT10, Nub1_1.dat - Full-length NUB1 alone, FAT10_pk3.dat - FAT10 alone from merged data from the 3rd peak of size-exclusion chromatography, CA167FAT10_1.dat - NUB1ΔUBL in complex with FAT10

Created

2024-08-05

Published

2024-12-11

Data collection technique

SEC-SAXS

Journal DOI

Source

Advanced Light Source

Beamline

SIBYLS BL12.3.1

Wavelength

1.127 Å

Sample to Detector Distance

2.1 m

Submitting Author

Aimee C. Soe

Lawrence Berkeley National Laboratory, The SIBYLS Beamline

United States of America

[email protected]

Collaborator

Project Leader

Michal Hammel

[email protected]


Data Download Terms:

The data available for download is free to use, however by clicking a download link, it signifies that you agree to our Terms of Service and Privacy Policy.

Complete Set of SAS Data Files

The complete SAS dataset is downloadable as a zip file.

Individual SAS Data Files (total 4)

These are individual SAS data files that may be raw or processed (merged, etc.). These may or not be included in a zip file containing a larger dataset.

Supplemental Data and Supporting Materials (total 1)

These data and materials may include X-ray crystal structure coordinates, multi-angle light scattering data, .etc. It may also include additional details or methods pertaining to the SAXS experiments, or the researcher's interpretations of the results.

Open SAXS data analysis sites in a new tab using these links

SAXS Similarity SAXS FrameSlice

Samples:

  • Macromolecule 1: NUB1
    • Sample Full Name: NEDD8-ultimate-buster-1
    • Sample Type: Protein
    • Source Organism: Homo sapiens
    • Source Organism NCBI Taxonomy ID: 9606
    • Expression System: Escherichia coli
    • Expression NCBI Taxonomy ID: 562
    • Uniprot ID: H3BM14
    • Sequence or Chemical Formula:
    • GPLGMAQKKYLQAKLTQFLREDRIQLWKPPYTDENKKVGLALKDLAKQYSDRLECCENEVEKVIEEIRCKAIERGTGNDNYRTTGIATIEVFLPPRLKKDRKNLLETRLHITGRELRSKIAETFGLQENYIKIVINKKQLQLGKTLEEQGVAHNVKAMVLELKQSEEDARKNFQLEEEEQNEAKLKEKQIQRTKRGLEILAKRAAETVVDPEMTPYLDIANQTGRSIRIPPSERKALMLAMGYHEKGRAFLKRKEYGIALPCLLDADKYFCECCRELLDTVDNYAVLQLDIVWCYFRLEQLECLDDAEKKLNLAQKCFKNCYGENHQRLVHIKGNCGKEKVLFLRLYLLQGIRNYHSGNDVEAYEYLNKARQLFKELYIDPSKVDNLLQLGFTAQEARLGLRACDGNVDHAATHITNRREELAQIRKEEKEKKRRRLENIRFLKGMGYSTHAAQQILLSNPQMWWLNDSNPETDNRQESPSQENIDRLVYMGFDALVAEAALRVFRGNVQLAAQTLAHNGGSLPPELPLSPEDSLSPPATSPSDSAGTSSASTDEDMETEAVNEILEDIPEHEEDYLDSTLEDEEIIIAEYLSYVENRKSATKKN
  • Macromolecule 2: NUB1ΔUBL
    • Sample Full Name: NUB1ΔUbiquitin-like domain mutant
    • Sample Type: Protein
    • Source Organism: Homo Sapiens
    • Source Organism NCBI Taxonomy ID: 9606
    • Expression System: Escherichia coli
    • Expression NCBI Taxonomy ID: 562
    • Uniprot ID's:
    • Sequence or Chemical Formula:
    • GPLGMAQKKYLQAKLTQFLREDRIQLWKPPYTDENKKVGLALKDLAKQYSDRLECCENEVEKVIEEIRCKAIERGTGNDNYRTTGIAGSTGSTHNVKAMVLELKQSEEDARKNFQLEEEEQNEAKLKEKQIQRTKRGLEILAKRAAETVVDPEMTPYLDIANQTGRSIRIPPSERKALMLAMGYHEKGRAFLKRKEYGIALPCLLDADKYFCECCRELLDTVDNYAVLQLDIVWCYFRLEQLECLDDAEKKLNLAQKCFKNCYGENHQRLVHIKGNCGKEKVLFLRLYLLQGIRNYHSGNDVEAYEYLNKARQLFKELYIDPSKVDNLLQLGFTAQEARLGLRACDGNVDHAATHITNRREELAQIRKEEKEKKRRRLENIRFLKGMGYSTHAAQQILLSNPQMWWLNDSNPETDNRQESPSQENIDRLVYMGFDALVAEAALRVFRGNVQLAAQTLAHNGGSLPPELPLSPEDSLSPPATSPSDSAGTSSASTDEDMETEAVNEILEDIPEHEEDYLDSTLEDEEIIIAEYLSYVENRKSATKKN
  • Macromolecule 3: FAT10
    • Sample Full Name: F-adjacent transcript 10
    • Sample Type: Protein
    • Source Organism: Homo sapiens
    • Source Organism NCBI Taxonomy ID: 9606
    • Expression System: Escherichia coli
    • Expression NCBI Taxonomy ID: 562
    • Uniprot ID: A0A0G2JH67
    • Sequence or Chemical Formula:
    • MAPNASCLCVHVRSEEWDLMTFDANPYDSVKKIKEHVRSKTKVPVQDQVLLLGSKILKPRRSLSSYGIDKEKTIHLTLKVVKPSDEELPLFLVESGDEAKRHLLQVRRSSSVAQVKAMIETKTGIIPETQIVTCNGKRLEDGKMMADYGIRKGNLLFLACYCIGG