SASDXA3

T. brucei H3.V-only Nucleosome Core Particle

Data type: SASBDB experimental data Status: Published Curve type: SEC-SAS Last updated: 2026-01-22T11:46:05.821740+01:00

▼

1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · T. brucei H3.V-only Nucleosome Core Particle

Concentration	— – 2.0	Buffer / pH	20 mM HEPES, 150 mM NaCl, 1 mM DTT / 7.5
Experimental temperature	15.0	Facility / beamline	Diamond Light Source / B21
Wavelength	0.09464 nm	Exposure	3.0 s × 600

Molecular Components

Component	Type / organism	UniProt and Construct	Oligomeric State	Molecular weight
Histone H2A View sequence MATPKQAVKKASKGGSSRSVKAGLIFPVGRVGTLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQTKKTKRLTPRTVTLAVRHDDDLGALLRNVTMSRGGVMPSLNKALAKKQKSGKHAKATPSV	proteinTrypanosoma brucei brucei (strain 927/4 GUTat10.1)	Q57YA32–134	otherMolecule count 2	14.212 kDa
Histone H2B View sequence ATPKSTPAKTRKEAKKTRRQRKRTWNVYVSRSLRSINSQMSMTSRTMKIVNSFVNDLFERIAAEAATIVRVNRKRTLGARELQTAVRLVLPADLAKHAMAEGTKAVSHASS	proteinTrypanosoma brucei brucei (strain 927/4 GUTat10.1)	Q389T12–112	otherMolecule count 2	12.438 kDa
Histone H4 View sequence AKGKKSGEAKGSQKRQKKVLRENVRGITRGSIRRLARRGGVKRISGVIYDEVRGVLKSFVEGVVRDATAYTEYSRKKTVTAVDVVNALRKRGKILYGYA	proteinTrypanosoma brucei brucei (strain 927/4 GUTat10.1)	Q57Z312–100	otherMolecule count 2	11.011 kDa
Widom 601 145 bp DNA - strand 1 View sequence ATCGATGTATATATCTGACACGTGCCTGGAGACTAGGGAGTAATCCCCTTGGCGGTTAAAACGCGGGGGACAGCGCGTACGTGCGTTTAAGCGGTGCTAGAGCTGTCTACGACCAATTGAGCGGCCTCGGCACCGGGATTCTGAT	DNA—	——–—	otherMolecule count 1	45.055 kDa
Widom 601 145 bp DNA - strand 2 View sequence ATCAGAATCCCGGTGCCGAGGCCGCTCAATTGGTCGTAGACAGCTCTAGCACCGCTTAAACGCACGTACGCGCTGTCCCCCGCGTTTTAACCGCCAAGGGGATTACTCCCTAGTCTCCAGGCACCTGTCAGATATATACATCGAT	DNA—	——–—	otherMolecule count 1	44.543 kDa
Histone H3 variant View sequence AQMKKITPRPVRPKSVASRPIQSVARAPVKKVENTPPQKRHHRWRPGTVALREIRRLQSSTDFLIQRAPFRRFLREVVSNLKDSYRMSAACVDAIQEATETYITSVFMDANLCTLHANRVTLFPKDIQLALKLRGERN	proteinTrypanosoma brucei brucei (strain 927/4 GUTat10.1)	Q387X72–139	otherMolecule count 2	15.89 kDa

Experimental Curves

Curve	Points / columns	q range	Uncertainty quality	Negative-intensity points	Source file
1	2574[3]	0.0045–0.34 1/A	Has uncertainty columnMissing 0	225	sasbdb/entries/a3/sasdxa3/source/SASDXA3.dat

▼

2. Measurements Reported by SASBDB Reported Results

Metric	Method	Value	Uncertainty	Unit
dmax	P(r)	13.15	—	Å
i0	Guinier	0.0909313	—	1/cm
i0	P(r)	0.0899	—	1/cm
mw	Experimental	210.867	—	kDa
porod_volume	Porod	481.42	—	Å³
rg	Guinier	4.401	0.067	Å
rg	P(r)	4.33	—	Å

These values are reported by SASBDB; SAXSdb did not recalculate them from the experimental curve.

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3. Source Fits and Models Source Fits & Models

This entry has no source fit record.

▶

4. Source File Index Source Files

Category	Path	Download status	Size
curve	sasbdb/entries/a3/sasdxa3/source/SASDXA3.dat	downloaded	103655
full_entry_zip	sasbdb/entries/a3/sasdxa3/source/SASDXA3.zip	downloaded	36630
pddf	sasbdb/entries/a3/sasdxa3/source/SASDXA3.out	downloaded	4023
sascif	sasbdb/entries/a3/sasdxa3/source/SASDXA3.sascif	not_available	—
summary	sasbdb/entries/a3/sasdxa3/source/summary.json	downloaded	9262

▶

5. Experiment Description and Publication Experiment & Publication

▼

6. Complete Source Record Complete Source Record

The following content comes directly from the SASBDB entry. Missing values are shown as “—”; SAXSdb does not infer undeclared units.

Open the original SASBDB entry

Buffer and Sample Properties

Buffer name	20 mM HEPES, 150 mM NaCl, 1 mM DTT	Buffer concentration	—
pH	7.5	Additives	—
Buffer description	—
Purity measurement method	—	Extinction coefficient	—
Absorbance	—	Scattering contrast	—
Specific volume / dry volume	— / —	Mixture / deuteration	— / —

Acquisition Conditions and Instrument

Measurement date	2023-10-10	Storage / measurement temperature	4.0 / 15.0
Exposure time	3.0	Frames	600
Wavelength	0.09464	Sample-to-detector distance	3.721
Source	X-ray synchrotron	Detector	Eiger 4M
Facility / beamline	Diamond Light Source / B21 · Didcot, UK
q range	0.045 – 3.4	Sample volume / flow rate	50.0 / 0.08

Original SASBDB Plots

Downloadable Files

Category	File	Status	Size	Checksum	Download and View
curve	sasbdb/entries/a3/sasdxa3/source/SASDXA3.dat	downloaded	103655	1c3180672e5d66a75c19aa0d78b5dde45c6ee786f43a67c3ffb015747a4f47e7	DownloadView source fileSource site
full_entry_zip	sasbdb/entries/a3/sasdxa3/source/SASDXA3.zip	downloaded	36630	01ac106260bbe8e4fcb9aa6be3d9e134970ff764d59a21a5b5929eb7e495f4de	DownloadView source fileSource site
pddf	sasbdb/entries/a3/sasdxa3/source/SASDXA3.out	downloaded	4023	7211acf3b1708a07a13ef12c46155e98941748586af92d964e6b4aff8bde73f2	DownloadView source fileSource site
sascif	sasbdb/entries/a3/sasdxa3/source/SASDXA3.sascif	not_available	—	—	DownloadView source fileSource site
summary	sasbdb/entries/a3/sasdxa3/source/summary.json	downloaded	9262	45a0818f7ceec58110fefab9abe59186f965dc412ca2698171e135313597b378	DownloadView source fileSource site

curve：source record

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  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/intensities_files/SASDXA3.dat"
}

full_entry_zip：source record and ZIP contents (2 items)

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  "zip_member_count": 2,
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pddf：source record

{
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  "role": "pddf",
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sascif：source record

{
  "path": "/data/saxsdb/sasbdb/entries/a3/sasdxa3/source/SASDXA3.sascif",
  "role": "sascif",
  "status": "not_available",
  "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDXA3.sascif"
}

summary：source record

{
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}

All source fields (unfiltered)

Every source field is expanded here, including empty values, list members and fields already shown above.

summary.json：214 field values

Field path	Raw value
code	SASDXA3
status	Published
type_of_curve	SEC-SAS
angular_unit	1/A
project.title	Trypanosome histone variants H3.V and H4.V promote nucleosome plasticity in repressed chromatin
project.publication	null
project.status	released
project.submitted_date	2025-04-02
project.released_date	2026-01-22
pddf_data	https://www.sasbdb.org/media/p_of_R_files/SASDXA3.dat
intensities_data	https://www.sasbdb.org/media/intensities_files/SASDXA3.dat
intensities_log_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXA3_dat_img.png
intensities_kratky_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXA3_kratky_img.png
pddf_plot	https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDXA3_pofr_img.png
intensities_guinier_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXA3_guinier_img.png
sascif_data	https://www.sasbdb.org/media/sascif/sascif_files/SASDXA3.sascif
experiment.instrument.detector.type	null
experiment.instrument.detector.name	Eiger 4M
experiment.instrument.detector.resolution	75.0
experiment.instrument.name	Diamond Light Source
experiment.instrument.city	Didcot
experiment.instrument.country	UK
experiment.instrument.beamline_name	B21
experiment.instrument.beam_geometry	null
experiment.instrument.type_of_source	X-ray synchrotron
experiment.instrument.point_source	null
experiment.instrument.line_collimation	null
experiment.instrument.sample_path_length	null
experiment.instrument.line_collimation_slitlength	null
experiment.instrument.line_collimation_integrationwidth	null
experiment.instrument.xray_energy	null
experiment.instrument.beam_profile_ah	null
experiment.instrument.beam_profile_al	null
experiment.sample.molecule[0].long_name	Histone H2A
experiment.sample.molecule[0].short_name	H2A
experiment.sample.molecule[0].sequence	MATPKQAVKKASKGGSSRSVKAGLIFPVGRVGTLLRRGQYARRIGASGAVYMAAVLEYLTAELLELSVKAAAQQTKKTKRLTPRTVTLAVRHDDDLGALLRNVTMSRGGVMPSLNKALAKKQKSGKHAKATPSV
experiment.sample.molecule[0].organism	Trypanosoma brucei brucei (strain 927/4 GUTat10.1)
experiment.sample.molecule[0].uniprot_code	Q57YA3
experiment.sample.molecule[0].uniprot_range_first	2
experiment.sample.molecule[0].uniprot_range_last	134
experiment.sample.molecule[0].oligomerization	other
experiment.sample.molecule[0].molecular_type	protein
experiment.sample.molecule[0].uniprot_sequence	MATPKQAVKKASKGGSSRSVKAGLIFPVGRVGTLLRRGQYARRIGASGAVYMAAVLEYLT AELLELSVKAAAQQTKKTKRLTPRTVTLAVRHDDDLGALLRNVTMSRGGVMPSLNKALAK KQKSGKHAKATPSV
experiment.sample.molecule[0].mw	14.212
experiment.sample.molecule[0].total_mw	28.424
experiment.sample.molecule[0].number_molecules	2
experiment.sample.molecule[0].complex_state	False
experiment.sample.molecule[0].deuteration	null
experiment.sample.molecule[0].molecule_source	biological
experiment.sample.molecule[0].molecule_description
experiment.sample.molecule[1].long_name	Histone H2B
experiment.sample.molecule[1].short_name	H2B
experiment.sample.molecule[1].sequence	ATPKSTPAKTRKEAKKTRRQRKRTWNVYVSRSLRSINSQMSMTSRTMKIVNSFVNDLFERIAAEAATIVRVNRKRTLGARELQTAVRLVLPADLAKHAMAEGTKAVSHASS
experiment.sample.molecule[1].organism	Trypanosoma brucei brucei (strain 927/4 GUTat10.1)
experiment.sample.molecule[1].uniprot_code	Q389T1
experiment.sample.molecule[1].uniprot_range_first	2
experiment.sample.molecule[1].uniprot_range_last	112
experiment.sample.molecule[1].oligomerization	other
experiment.sample.molecule[1].molecular_type	protein
experiment.sample.molecule[1].uniprot_sequence	MATPKSTPAKTRKEAKKTRRQRKRTWNVYVSRSLRSINSQMSMTSRTMKIVNSFVNDLFE RIAAEAATIVRVNRKRTLGARELQTAVRLVLPADLAKHAMAEGTKAVSHASS
experiment.sample.molecule[1].mw	12.438
experiment.sample.molecule[1].total_mw	24.876
experiment.sample.molecule[1].number_molecules	2
experiment.sample.molecule[1].complex_state	False
experiment.sample.molecule[1].deuteration	null
experiment.sample.molecule[1].molecule_source	biological
experiment.sample.molecule[1].molecule_description
experiment.sample.molecule[2].long_name	Histone H4
experiment.sample.molecule[2].short_name	H4
experiment.sample.molecule[2].sequence	AKGKKSGEAKGSQKRQKKVLRENVRGITRGSIRRLARRGGVKRISGVIYDEVRGVLKSFVEGVVRDATAYTEYSRKKTVTAVDVVNALRKRGKILYGYA
experiment.sample.molecule[2].organism	Trypanosoma brucei brucei (strain 927/4 GUTat10.1)
experiment.sample.molecule[2].uniprot_code	Q57Z31
experiment.sample.molecule[2].uniprot_range_first	2
experiment.sample.molecule[2].uniprot_range_last	100
experiment.sample.molecule[2].oligomerization	other
experiment.sample.molecule[2].molecular_type	protein
experiment.sample.molecule[2].uniprot_sequence	MAKGKKSGEAKGSQKRQKKVLRENVRGITRGSIRRLARRGGVKRISGVIYDEVRGVLKSF VEGVVRDATAYTEYSRKKTVTAVDVVNALRKRGKILYGYA
experiment.sample.molecule[2].mw	11.011
experiment.sample.molecule[2].total_mw	22.022
experiment.sample.molecule[2].number_molecules	2
experiment.sample.molecule[2].complex_state	False
experiment.sample.molecule[2].deuteration	null
experiment.sample.molecule[2].molecule_source	biological
experiment.sample.molecule[2].molecule_description
experiment.sample.molecule[3].long_name	Widom 601 145 bp DNA - strand 1
experiment.sample.molecule[3].short_name	null
experiment.sample.molecule[3].sequence	ATCGATGTATATATCTGACACGTGCCTGGAGACTAGGGAGTAATCCCCTTGGCGGTTAAAACGCGGGGGACAGCGCGTACGTGCGTTTAAGCGGTGCTAGAGCTGTCTACGACCAATTGAGCGGCCTCGGCACCGGGATTCTGAT
experiment.sample.molecule[3].organism	null
experiment.sample.molecule[3].uniprot_code	null
experiment.sample.molecule[3].uniprot_range_first	null
experiment.sample.molecule[3].uniprot_range_last	null
experiment.sample.molecule[3].oligomerization	other
experiment.sample.molecule[3].molecular_type	DNA
experiment.sample.molecule[3].uniprot_sequence
experiment.sample.molecule[3].mw	45.055
experiment.sample.molecule[3].total_mw	45.055
experiment.sample.molecule[3].number_molecules	1
experiment.sample.molecule[3].complex_state	False
experiment.sample.molecule[3].deuteration	null
experiment.sample.molecule[3].molecule_source	biological
experiment.sample.molecule[3].molecule_description
experiment.sample.molecule[4].long_name	Widom 601 145 bp DNA - strand 2
experiment.sample.molecule[4].short_name	null
experiment.sample.molecule[4].sequence	ATCAGAATCCCGGTGCCGAGGCCGCTCAATTGGTCGTAGACAGCTCTAGCACCGCTTAAACGCACGTACGCGCTGTCCCCCGCGTTTTAACCGCCAAGGGGATTACTCCCTAGTCTCCAGGCACCTGTCAGATATATACATCGAT
experiment.sample.molecule[4].organism	null
experiment.sample.molecule[4].uniprot_code	null
experiment.sample.molecule[4].uniprot_range_first	null
experiment.sample.molecule[4].uniprot_range_last	null
experiment.sample.molecule[4].oligomerization	other
experiment.sample.molecule[4].molecular_type	DNA
experiment.sample.molecule[4].uniprot_sequence
experiment.sample.molecule[4].mw	44.543
experiment.sample.molecule[4].total_mw	44.543
experiment.sample.molecule[4].number_molecules	1
experiment.sample.molecule[4].complex_state	False
experiment.sample.molecule[4].deuteration	null
experiment.sample.molecule[4].molecule_source	biological
experiment.sample.molecule[4].molecule_description
experiment.sample.molecule[5].long_name	Histone H3 variant
experiment.sample.molecule[5].short_name	H3.V
experiment.sample.molecule[5].sequence	AQMKKITPRPVRPKSVASRPIQSVARAPVKKVENTPPQKRHHRWRPGTVALREIRRLQSSTDFLIQRAPFRRFLREVVSNLKDSYRMSAACVDAIQEATETYITSVFMDANLCTLHANRVTLFPKDIQLALKLRGERN
experiment.sample.molecule[5].organism	Trypanosoma brucei brucei (strain 927/4 GUTat10.1)
experiment.sample.molecule[5].uniprot_code	Q387X7
experiment.sample.molecule[5].uniprot_range_first	2
experiment.sample.molecule[5].uniprot_range_last	139
experiment.sample.molecule[5].oligomerization	other
experiment.sample.molecule[5].molecular_type	protein
experiment.sample.molecule[5].uniprot_sequence	MAQMKKITPRPVRPKSVASRPIQSVARAPVKKVENTPPQKRHHRWRPGTVALREIRRLQS STDFLIQRAPFRRFLREVVSNLKDSYRMSAACVDAIQEATETYITSVFMDANLCTLHANR VTLFPKDIQLALKLRGERN
experiment.sample.molecule[5].mw	15.89
experiment.sample.molecule[5].total_mw	31.78
experiment.sample.molecule[5].number_molecules	2
experiment.sample.molecule[5].complex_state	False
experiment.sample.molecule[5].deuteration	null
experiment.sample.molecule[5].molecule_source	biological
experiment.sample.molecule[5].molecule_description
experiment.sample.buffer.name	20 mM HEPES, 150 mM NaCl, 1 mM DTT
experiment.sample.buffer.concentration_unit	null
experiment.sample.buffer.comment	null
experiment.sample.buffer.additive	null
experiment.sample.buffer.concentration	null
experiment.sample.buffer.pka	null
experiment.sample.buffer.ph	7.5
experiment.sample.buffer.deuteration	null
experiment.sample.purity_method	null
experiment.sample.name	T. brucei H3.V-only Nucleosome Core Particle
experiment.sample.ext_coefficient	null
experiment.sample.contrast	null
experiment.sample.specific_vol	null
experiment.sample.dry_vol	null
experiment.sample.absorbption	null
experiment.sample.deuteration	null
experiment.sample.mixture	null
experiment.contributor[0].affiliation[0].short_name	null
experiment.contributor[0].affiliation[0].address	null
experiment.contributor[0].affiliation[0].full_name	University of Edinburgh
experiment.contributor[0].affiliation[0].webpage	null
experiment.contributor[0].contributor_name	Gauri
experiment.contributor[0].contributor_surname	Deak
experiment.contributor[0].orcid	https://orcid.org/0000-0001-6296-9384
experiment.concentration_method	null
experiment.concentration_unit	null
experiment.date	2023-10-10
experiment.storage_temperature	4.0
experiment.cell_temperature	15.0
experiment.exposure_time	3.0
experiment.number_of_frames	600
experiment.wavelength	0.09464
experiment.sample_detector_distance	3.721
experiment.concentration_min	null
experiment.concentration_max	2.0
experiment.sample_volume	50.0
experiment.flow_rate	0.08
experiment.s_min	0.045
experiment.s_max	3.4
experiment.total_exposure_time	null
experiment.seccolumn	14
fits	[]
estimated_volume_method	null
pddf_software	ScÅtter
pddf_software_version	IV
i0_calibration_standard	null
description	null
experiment_description	null
tags	[]
intensity_unit	1/cm
experimental_mw	210.867
experimental_mw_error	null
guinier_i0_mw	null
guinier_i0_mw_error	null
porod_mw	null
porod_mw_error	null
pddf_i0	0.0899
pddf_i0_error	null
guinier_i0	0.0909313
guinier_i0_error	null
pddf_rg	4.33
pddf_rg_error	null
guinier_rg	4.401
guinier_rg_error	0.067
pddf_dmax	13.15
pddf_dmax_error	null
porod_volume	481.42
porod_volume_error	null
estimated_volume	null
estimated_volume_error	null
guinier_point_first	79
guinier_point_last	192
pddf_point_first	null
pddf_point_last	null
i0_calibration_standard_data	null
intensities_log_log_plot	SASDXA3_datloglog_img.png
symmetry	null
last_modified	2026-01-22T11:46:05.821740+01:00
bragg_peak	[]

manifest.json：34 field values

Field path	Raw value
code	SASDXA3
status	success
started_at	2026-08-11T13:56:25.985942+00:00
finished_at	2026-08-11T13:56:33.565702+00:00
source_last_modified	2026-01-22T11:46:05.821740+01:00
files[0].status	downloaded
files[0].url	https://www.sasbdb.org/rest-api/entry/summary/SASDXA3/
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files[0].size	9262
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files[2].role	pddf
files[3].status	not_available
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View the complete summary.json source

{
  "code": "SASDXA3",
  "status": "Published",
  "type_of_curve": "SEC-SAS",
  "angular_unit": "1/A",
  "project": {
    "title": "Trypanosome histone variants H3.V and H4.V promote nucleosome plasticity in repressed chromatin",
    "publication": null,
    "status": "released",
    "submitted_date": "2025-04-02",
    "released_date": "2026-01-22"
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            "address": null,
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        "contributor_name": "Gauri",
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View the complete manifest.json source

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