SASDB49

Single stranded poly-deoxythymidine DNA (30mer, dT30) in 200 mM NaCl

数据类型：SASBDB 实验数据 状态：Published 曲线类型：Extrapolated to infinite dilution 最后更新：2019-12-06T13:07:15.624532+01:00

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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Single stranded poly-deoxythymidine DNA (30mer, dT30) in 200 mM NaCl

浓度	0.5 – 1.8	缓冲液 / pH	1mM Na MOPS, 200mM NaCl / 7.0
Experimental temperature	22.0	设备 / 束线	Cornell High Energy Synchrotron Source (CHESS) / G1
波长	0.1 nm	曝光	10.0 s × 20

分子组分

组分	类型 / Organism	UniProt 与Construct	寡聚状态	Molecular weight
Poly-deoxythymidine (30mer) 查看序列 TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT	DNA—	——–—	monomer分子数 1	9.064 kDa

实验曲线

曲线	点数 / 列	q range	误差质量	负强度点	来源文件
1	281[3]	0.01–0.29 1/A	含误差列缺失 0	0	sasbdb/entries/49/sasdb49/source/SASDB49.dat

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2. SASBDB 报告的指标 Reported Results

指标	方法	数值	误差	单位
i0	Guinier	53.03	0.57	—
mw	Experimental	9.4	—	kDa
rg	Guinier	2.72	0.05	Å

这些数值是 SASBDB 来源记录，不是 SAXSdb 对实验曲线重新计算的结果。

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3. 来源拟合与模型 Source Fits & Models

拟合 1 · EOM/GAJOE 1.3

χ²：0.99CorMap p：0.668018单位：1/A

拟合数据拟合图残差图

模型	名称 / 类型	软件	Symmetry	模型 MW	PDB 声明	来源文件
1	—dummy	Custom in-house	—	—	—	模型图片
2	—dummy	Custom in-house	—	—	—	模型图片
3	—dummy	Custom in-house	—	—	—	模型图片
4	—dummy	Custom in-house	—	—	—	模型图片
5	—dummy	Custom in-house	—	—	—	模型图片
6	—dummy	Custom in-house	—	—	—	模型图片
7	—dummy	Custom in-house	—	—	—	模型图片
8	—dummy	Custom in-house	—	—	—	模型图片
9	—dummy	Custom in-house	—	—	—	模型图片
10	—dummy	Custom in-house	—	—	—	模型图片
11	—dummy	Custom in-house	—	—	—	模型图片
12	—dummy	Custom in-house	—	—	—	模型图片
13	—dummy	Custom in-house	—	—	—	模型图片
14	—dummy	Custom in-house	—	—	—	模型图片
15	—dummy	Custom in-house	—	—	—	模型图片
16	—dummy	Custom in-house	—	—	—	模型图片
17	—dummy	Custom in-house	—	—	—	模型图片
18	—dummy	Custom in-house	—	—	—	模型图片
19	—dummy	Custom in-house	—	—	—	模型图片
20	—dummy	Custom in-house	—	—	—	模型图片

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4. 来源文件索引 Source Files

类别	路径	Download状态	大小
curve	sasbdb/entries/49/sasdb49/source/SASDB49.dat	downloaded	5935
full_entry_zip	sasbdb/entries/49/sasdb49/source/SASDB49.zip	downloaded	205308
pddf	sasbdb/entries/49/sasdb49/source/SASDB49.out	not_listed	—
sascif	sasbdb/entries/49/sasdb49/source/SASDB49.sascif	downloaded	1161994
summary	sasbdb/entries/49/sasdb49/source/summary.json	downloaded	17333

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5. 实验说明与论文 Experiment & Publication

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6. 完整来源记录 Complete Source Record

下列内容直接来自 SASBDB 条目。字段没有值时显示“—”；Not declared的单位不会由 SAXSdb 猜测。

打开 SASBDB 原始条目

缓冲液与样品属性

缓冲液名称	1mM Na MOPS, 200mM NaCl	缓冲液浓度	—
pH	7.0	添加剂	—
缓冲液说明	—
纯度测定方法	—	消光系数	—
吸收值	—	散射对比度	—
比体积 / 干体积	— / —	混合物 / 氘代	— / —

采集条件与仪器

测量日期	2015-04-01	储存 / 测量温度	4.0 / 22.0
曝光时间	10.0	帧数	20
波长	0.1	样品-探测器距离	1.8
光源	X-ray synchrotron	探测器	Finger Lakes CCD
机构 / 束线	Cornell High Energy Synchrotron Source (CHESS) / G1 · Ithaca, NY, USA
q range	0.1 – 2.9	样品体积 / 流速	— / —

SASBDB 原始图

可Download文件

类别	文件	状态	大小	校验值	Download与查看
curve	sasbdb/entries/49/sasdb49/source/SASDB49.dat	downloaded	5935	48127e0af2e81806449bf68f5bd6f2cd63f5b61db691d282db8dc471e6f6dc10	Download查看原文件源站
full_entry_zip	sasbdb/entries/49/sasdb49/source/SASDB49.zip	downloaded	205308	18443caa5ef7c686a30ba3809519b0b45ccd0a11c8ab7ca66482b162b31515cf	Download查看原文件源站
pddf	sasbdb/entries/49/sasdb49/source/SASDB49.out	not_listed	—	—	Download查看原文件
sascif	sasbdb/entries/49/sasdb49/source/SASDB49.sascif	downloaded	1161994	b90477521286c263cd442b42bad50325d22ca09daf018d30b266305fb18f9dd0	Download查看原文件源站
summary	sasbdb/entries/49/sasdb49/source/summary.json	downloaded	17333	b8bd9ce42fe69897b1dfd717e508724df36f8de98f89bf5ff68a415d98577ff3	Download查看原文件源站

curve：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/49/sasdb49/source/SASDB49.dat",
  "role": "curve",
  "sha256": "48127e0af2e81806449bf68f5bd6f2cd63f5b61db691d282db8dc471e6f6dc10",
  "size": 5935,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/intensities_files/SASDB49.dat"
}

full_entry_zip：来源记录与 ZIP 内部目录（22 项）

{
  "path": "/data/saxsdb/sasbdb/entries/49/sasdb49/source/SASDB49.zip",
  "role": "full_entry_zip",
  "sha256": "18443caa5ef7c686a30ba3809519b0b45ccd0a11c8ab7ca66482b162b31515cf",
  "size": 205308,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/zip_directories/SASDB49.zip",
  "zip_member_count": 22,
  "zip_members": [
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      "crc32": "6db78991",
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    {
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      "name": "SASDB49/SASDB49_fit1.fit",
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    {
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    {
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      "name": "SASDB49/SASDB49_fit1_model9.pdb",
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    {
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      "name": "SASDB49/SASDB49_fit1_model11.pdb",
      "size": 47163
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    {
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      "name": "SASDB49/SASDB49_fit1_model12.pdb",
      "size": 47163
    },
    {
      "crc32": "8caf8aee",
      "name": "SASDB49/SASDB49_fit1_model13.pdb",
      "size": 47163
    },
    {
      "crc32": "25c9c138",
      "name": "SASDB49/SASDB49_fit1_model14.pdb",
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    },
    {
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      "name": "SASDB49/SASDB49_fit1_model15.pdb",
      "size": 47163
    },
    {
      "crc32": "a84966c2",
      "name": "SASDB49/SASDB49_fit1_model16.pdb",
      "size": 47163
    },
    {
      "crc32": "2e5a2e50",
      "name": "SASDB49/SASDB49_fit1_model17.pdb",
      "size": 47163
    },
    {
      "crc32": "62df8fa9",
      "name": "SASDB49/SASDB49_fit1_model18.pdb",
      "size": 47163
    },
    {
      "crc32": "e6e9c02c",
      "name": "SASDB49/SASDB49_fit1_model19.pdb",
      "size": 47163
    },
    {
      "crc32": "7f91701f",
      "name": "SASDB49/SASDB49_fit1_model20.pdb",
      "size": 47163
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  ],
  "zip_validation": "central_directory_readable"
}

pddf：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/49/sasdb49/source/SASDB49.out",
  "role": "pddf",
  "status": "not_listed"
}

sascif：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/49/sasdb49/source/SASDB49.sascif",
  "role": "sascif",
  "sha256": "b90477521286c263cd442b42bad50325d22ca09daf018d30b266305fb18f9dd0",
  "size": 1161994,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDB49.sascif"
}

summary：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/49/sasdb49/source/summary.json",
  "sha256": "b8bd9ce42fe69897b1dfd717e508724df36f8de98f89bf5ff68a415d98577ff3",
  "size": 17333,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDB49/"
}

全部来源字段（无筛选）

这里自动展开来源记录中的每一个字段，包括空值、列表成员和页面上方已展示过的字段。

summary.json：403 个字段值

字段路径	原始值
code	SASDB49
status	Published
type_of_curve	Extrapolated to infinite dilution
angular_unit	1/A
project.title	The impact of base stacking on the conformations and electrostatics of single-stranded DNA.
project.publication.title	The impact of base stacking on the conformations and electrostatics of single-stranded DNA.
project.publication.author_list	Plumridge A, Meisburger SP, Andresen K, Pollack L
project.publication.journal	Nucleic Acids Res
project.publication.doi	10.1093/nar/gkx140
project.publication.pmid	28334825
project.publication.published_date	2017 Apr 20
project.status	released
project.submitted_date	2016-12-16
project.released_date	2017-03-21
pddf_data	null
intensities_data	https://www.sasbdb.org/media/intensities_files/SASDB49.dat
intensities_log_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB49_dat_img.png
intensities_kratky_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB49_kratky_img.png
pddf_plot	null
intensities_guinier_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB49_guinier_img.png
sascif_data	https://www.sasbdb.org/media/sascif/sascif_files/SASDB49.sascif
experiment.instrument.detector.type	CCD
experiment.instrument.detector.name	Finger Lakes CCD
experiment.instrument.detector.resolution	0.0
experiment.instrument.name	Cornell High Energy Synchrotron Source (CHESS)
experiment.instrument.city	Ithaca, NY
experiment.instrument.country	USA
experiment.instrument.beamline_name	G1
experiment.instrument.beam_geometry
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	Poly-deoxythymidine (30mer)
experiment.sample.molecule[0].short_name	dT30
experiment.sample.molecule[0].sequence	TTTTTTTTTTTTTTTTTTTTTTTTTTTTTT
experiment.sample.molecule[0].organism	null
experiment.sample.molecule[0].uniprot_code	null
experiment.sample.molecule[0].uniprot_range_first	null
experiment.sample.molecule[0].uniprot_range_last	null
experiment.sample.molecule[0].oligomerization	monomer
experiment.sample.molecule[0].molecular_type	DNA
experiment.sample.molecule[0].uniprot_sequence	null
experiment.sample.molecule[0].mw	9.064
experiment.sample.molecule[0].total_mw	9.064
experiment.sample.molecule[0].number_molecules	1
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	null
experiment.sample.buffer.name	1mM Na MOPS, 200mM NaCl
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	7.0
experiment.sample.buffer.deuteration	null
experiment.sample.purity_method	null
experiment.sample.name	Single stranded poly-deoxythymidine DNA (30mer, dT30) in 200 mM NaCl
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	Ithaca, NY, United States
experiment.contributor[0].affiliation[0].full_name	Cornell University
experiment.contributor[0].affiliation[0].webpage	https://www.cornell.edu/
experiment.contributor[0].contributor_name	Alex
experiment.contributor[0].contributor_surname	Plumridge
experiment.contributor[0].orcid	null
experiment.concentration_method	null
experiment.concentration_unit	null
experiment.date	2015-04-01
experiment.storage_temperature	4.0
experiment.cell_temperature	22.0
experiment.exposure_time	10.0
experiment.number_of_frames	20
experiment.wavelength	0.1
experiment.sample_detector_distance	1.8
experiment.concentration_min	0.5
experiment.concentration_max	1.8
experiment.sample_volume	null
experiment.flow_rate	null
experiment.s_min	0.1
experiment.s_max	2.9
experiment.total_exposure_time	null
experiment.seccolumn	null
fits[0].models[0].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model1_img.png
fits[0].models[0].software	Custom in-house
fits[0].models[0].pdb_link	[]
fits[0].models[0].model_title	null
fits[0].models[0].type_of_model	dummy
fits[0].models[0].software_version
fits[0].models[0].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model1.pdb
fits[0].models[0].model_mw	null
fits[0].models[0].bead_radius	1.9
fits[0].models[0].log	null
fits[0].models[0].symmetry
fits[0].models[0].comment	State 1
fits[0].models[0].user	156
fits[0].models[1].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model2_img.png
fits[0].models[1].software	Custom in-house
fits[0].models[1].pdb_link	[]
fits[0].models[1].model_title	null
fits[0].models[1].type_of_model	dummy
fits[0].models[1].software_version
fits[0].models[1].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model2.pdb
fits[0].models[1].model_mw	null
fits[0].models[1].bead_radius	1.9
fits[0].models[1].log	null
fits[0].models[1].symmetry
fits[0].models[1].comment	State 2
fits[0].models[1].user	156
fits[0].models[2].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model3_img.png
fits[0].models[2].software	Custom in-house
fits[0].models[2].pdb_link	[]
fits[0].models[2].model_title	null
fits[0].models[2].type_of_model	dummy
fits[0].models[2].software_version
fits[0].models[2].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model3.pdb
fits[0].models[2].model_mw	null
fits[0].models[2].bead_radius	1.9
fits[0].models[2].log	null
fits[0].models[2].symmetry
fits[0].models[2].comment	State 3
fits[0].models[2].user	156
fits[0].models[3].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model4_img.png
fits[0].models[3].software	Custom in-house
fits[0].models[3].pdb_link	[]
fits[0].models[3].model_title	null
fits[0].models[3].type_of_model	dummy
fits[0].models[3].software_version
fits[0].models[3].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model4.pdb
fits[0].models[3].model_mw	null
fits[0].models[3].bead_radius	1.9
fits[0].models[3].log	null
fits[0].models[3].symmetry
fits[0].models[3].comment	State 4
fits[0].models[3].user	156
fits[0].models[4].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model5_img.png
fits[0].models[4].software	Custom in-house
fits[0].models[4].pdb_link	[]
fits[0].models[4].model_title	null
fits[0].models[4].type_of_model	dummy
fits[0].models[4].software_version
fits[0].models[4].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model5.pdb
fits[0].models[4].model_mw	null
fits[0].models[4].bead_radius	1.9
fits[0].models[4].log	null
fits[0].models[4].symmetry
fits[0].models[4].comment	State 5
fits[0].models[4].user	156
fits[0].models[5].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model6_img.png
fits[0].models[5].software	Custom in-house
fits[0].models[5].pdb_link	[]
fits[0].models[5].model_title	null
fits[0].models[5].type_of_model	dummy
fits[0].models[5].software_version
fits[0].models[5].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model6.pdb
fits[0].models[5].model_mw	null
fits[0].models[5].bead_radius	1.9
fits[0].models[5].log	null
fits[0].models[5].symmetry
fits[0].models[5].comment	State 6
fits[0].models[5].user	156
fits[0].models[6].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model7_img.png
fits[0].models[6].software	Custom in-house
fits[0].models[6].pdb_link	[]
fits[0].models[6].model_title	null
fits[0].models[6].type_of_model	dummy
fits[0].models[6].software_version
fits[0].models[6].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model7.pdb
fits[0].models[6].model_mw	null
fits[0].models[6].bead_radius	1.9
fits[0].models[6].log	null
fits[0].models[6].symmetry
fits[0].models[6].comment	State 7
fits[0].models[6].user	156
fits[0].models[7].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model8_img.png
fits[0].models[7].software	Custom in-house
fits[0].models[7].pdb_link	[]
fits[0].models[7].model_title	null
fits[0].models[7].type_of_model	dummy
fits[0].models[7].software_version
fits[0].models[7].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model8.pdb
fits[0].models[7].model_mw	null
fits[0].models[7].bead_radius	1.9
fits[0].models[7].log	null
fits[0].models[7].symmetry
fits[0].models[7].comment	State 8
fits[0].models[7].user	156
fits[0].models[8].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDB49_fit1_model9_img.png
fits[0].models[8].software	Custom in-house
fits[0].models[8].pdb_link	[]
fits[0].models[8].model_title	null
fits[0].models[8].type_of_model	dummy
fits[0].models[8].software_version
fits[0].models[8].model_data	https://www.sasbdb.org/media/pdb_file/SASDB49_fit1_model9.pdb
fits[0].models[8].model_mw	null
fits[0].models[8].bead_radius	1.9
fits[0].models[8].log	null
fits[0].models[8].symmetry
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i0_calibration_standard	null
description	null
experiment_description	Synchrotron SAXS data from solutions of single stranded poly-deoxythymidine DNA (30mer, dT30) in 200 mM NaCl in 1mM Na MOPS, 200mM NaCl, pH 7 were collected on the G1 beam line at the Cornell High Energy Synchrotron Source (CHESS, Ithaca, NY, USA) using a CCD Finger Lakes CCD detector at a sample-detector distance of 1.8 m and at a wavelength of λ = 0.1 nm (I(s) vs s, where s = 4π sin θ/λ and 2θ is the scattering angle). Solute concentrations ranging between 0.5 and 1.8 mg/ml were measured at 22°C. 20 successive 10 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted and the different curves were scaled for solute concentration. The low angle data collected at lower concentrations were extrapolated to infinite dilution and merged with the higher concentration data to yield the final composite scattering curve.
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porod_volume	null
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guinier_point_first	null
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i0_calibration_standard_data	null
intensities_log_log_plot	SASDB49_datloglog_img.png
symmetry	null
last_modified	2019-12-06T13:07:15.624532+01:00
bragg_peak	[]

manifest.json：33 个字段值

字段路径	原始值
code	SASDB49
status	success
started_at	2026-08-11T16:38:35.506857+00:00
finished_at	2026-08-11T16:38:43.020452+00:00
source_last_modified	2019-12-06T13:07:15.624532+01:00
files[0].status	downloaded
files[0].url	https://www.sasbdb.org/rest-api/entry/summary/SASDB49/
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files[0].size	17333
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查看完整 summary.json 原文

{
  "code": "SASDB49",
  "status": "Published",
  "type_of_curve": "Extrapolated to infinite dilution",
  "angular_unit": "1/A",
  "project": {
    "title": "The impact of base stacking on the conformations and electrostatics of single-stranded DNA.",
    "publication": {
      "title": "The impact of base stacking on the conformations and electrostatics of single-stranded DNA.",
      "author_list": "Plumridge A, Meisburger SP, Andresen K, Pollack L",
      "journal": "Nucleic Acids Res",
      "doi": "10.1093/nar/gkx140",
      "pmid": "28334825",
      "published_date": "2017 Apr 20"
    },
    "status": "released",
    "submitted_date": "2016-12-16",
    "released_date": "2017-03-21"
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  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB49_guinier_img.png",
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        "resolution": 0.0
      },
      "name": "Cornell High Energy Synchrotron Source (CHESS)",
      "city": "Ithaca, NY",
      "country": "USA",
      "beamline_name": "G1",
      "beam_geometry": "",
      "type_of_source": "X-ray synchrotron",
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      "sample_path_length": null,
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      "name": "Single stranded poly-deoxythymidine DNA (30mer, dT30) in 200 mM NaCl",
      "ext_coefficient": null,
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      "absorbption": null,
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    "contributor": [
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        "affiliation": [
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            "short_name": null,
            "address": "Ithaca, NY, United States",
            "full_name": "Cornell University",
            "webpage": "https://www.cornell.edu/"
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        "contributor_name": "Alex",
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      }
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查看完整 manifest.json 原文

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Title	The impact of base stacking on the conformations and electrostatics of single-stranded DNA.
作者	Plumridge A, Meisburger SP, Andresen K, Pollack L
DOI / PMID	10.1093/nar/gkx140 / 28334825