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Open Dataset XSTRXN7L

Full-length human EEPD1

Abstract

Full-length human EEPD1 is a flexibly tethered, multi-domain protein that uniquely dimerizes via the EEP domain.

Experimental description

Data were collected at SIBYLS beamline 12.3.1 at Advanced Light Source with recently reported developed SEC-SAXS-MALS modality (Rosenberg et al. 2022 Methods Enzymol). X-ray wavelength was set at λ=1.127 Å, and the sample to detector distance was 2100 mm, resulting in scattering vectors, q, ranging from 0.01 Å-1 to 0.47 Å-1. A total of 60-95 μL of EEPD1 protein with a concentration between 3 and 5 mg/ml were prepared in the SEC running buffer (50 mM HEPES pH 7.0, 150 mM KCl, 1 mM TCEP). The Shodex KW802.5 column was equilibrated with running buffer with a flow rate of 0.65 mL/min. Each sample was injected in an SEC column, and two second X-ray exposures were recorded continuously for 24 min. BioXTAS RAW was used for further SEC-SAXS processing, including buffer subtractions and merging SAXS frames across the elution peak.

File description

EEPD1_Results.zip: 660 SEC-SAXS frames; S_A_EEPD1_1_trim.dat experimental merged data; S_A_EEPD1_1_trim.txt experimental P(r) function; EEPD1_ensemble2.pdb Two-state ensemble modeled by BILBOMD

Created

2022-09-27

Published

2026-03-12

Data collection technique

SEC-SAXS

Journal DOI

https://doi.org/10.1093/nar/gkag188

Source

Advanced Light Source

Beamline

BL12.3.1

Wavelength

1.127 Å

Sample to Detector Distance

2.1 m

Submitting Author

R. Shen

University of Texas MD Anderson Cancer Center

United States of America

Collaborator

M. Hammel

Project Leader

J. Tainer


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Complete Set of SAS Data Files

The complete SAS dataset is downloadable as a zip file.

Individual SAS Data Files (Total: 1)

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: 2)

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

Sample:

  • Macromolecule 1: EEPD1
    • Sample Full Name: Endonuclease/exonuclease/phosphatase family domain-containing protein 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: Q7L9B9
    • Sequence or Chemical Formula:
    • MGSTLGCHRSIPRDPSDLSHSRKFSAACNFSNILVNQERLNINTATEEELMTLPGVTRAVARSIVEYREYIGGFKKVEDLALVSGVGATKLEQVKFEICVSSKGSSAQHSPSSLRRDLLAEQQPHHLATAVPLTPRVNINTATPAQLMSVRGLSEKMALSIVDFRREHGPFRSVEDLVRMDGINAAFLDRIRHQVFAERSRPPSTHTNGGLTFTAKPHPSPTSLSLQSEDLDLPPGGPTQIISTRPSVEAFGGTRDGRPVLRLATWNLQGCSVEKANNPGVREVVCMTLLENSIKLLAVQELLDREALEKFCTELNQPTLPNIRKWKGPRGCWKAVVAEKPSNQLQKGAGYAGFLWDAAAGMELRDAGSQESSPSNGHGKLAGPSPYLGRFKVGSHDLTLVNLHLAALTLLGSENPSKNHSDGHRLASFAQTLQETLKGEKDVIILGDFGQGPDSNDYDILRKEKFHHLIPAHTFTNISTKNPQGSKSLDNIWISKSLKKVFTGHWAVVREGLTNPWIPDNWSWGGVASEHCPVLAEFYTEKDWSKKDAPRNGSGVALERSEANIKHER