SASDA88

RAID3 in PBS

数据类型：SASBDB 实验数据 状态：Published 曲线类型：Single concentration 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 · RAID3 in PBS

浓度	— – 0.2 mg/ml	缓冲液 / pH	PBS 137 mM NaCl 2,7 mM KCl 6,5 mM Na2HPO4 1,5 mM KH2PO4 / 7.4
实验温度	—	设备 / 束线	Diamond Light Source / B21
波长	— nm	曝光	— s × —

分子组分

组分	类型 / 物种	UniProt 与构建体	寡聚状态	分子量
RAID3 查看序列 GGGAGAACUGUGGGAGUGGAGGGUGGAUGGUUCU	RNA—	——–—	dimer分子数 2	11.267 kDa

实验曲线

曲线	点数 / 列	q 范围	误差质量	负强度点	来源文件
1	1400[3]	0.165899–4.01135 1/nm	含误差列缺失 0	245	sasbdb/entries/88/sasda88/source/SASDA88.dat

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2. SASBDB 报告的指标 Reported Results

指标	方法	数值	误差	单位
dmax	P(r)	10.0	—	nm
i0	Guinier	0.002	—	—
mw	Experimental	26.0	—	kDa
mw	Porod	26.0	—	kDa
porod_volume	Porod	26.0	—	nm³
rg	Guinier	2.7	—	nm
rg	P(r)	2.7	—	nm

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 · —

χ²：1.188CorMap p：0.2774单位：1/A

拟合数据拟合图残差图

模型	名称 / 类型	软件	对称性	模型 MW	PDB 声明	来源文件
1	—dummy	DAMMIN	P2	—	—	模型图片

拟合 2 · —

χ²：1.04CorMap p：0.056437单位：1/A

拟合数据拟合图残差图

模型	名称 / 类型	软件	对称性	模型 MW	PDB 声明	来源文件
1	—atomic	SASREF CV	P2	19.77	—	模型图片

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4. 来源文件索引 Source Files

类别	路径	下载状态	大小
curve	sasbdb/entries/88/sasda88/source/SASDA88.dat	downloaded	63364
full_entry_zip	sasbdb/entries/88/sasda88/source/SASDA88.zip	downloaded	93019
pddf	sasbdb/entries/88/sasda88/source/SASDA88.out	downloaded	64964
sascif	sasbdb/entries/88/sasda88/source/SASDA88.sascif	downloaded	448575
summary	sasbdb/entries/88/sasda88/source/summary.json	downloaded	7455

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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“—”；未声明的单位不会由 SAXSdb 猜测。

打开 SASBDB 原始条目

缓冲液与样品属性

缓冲液名称	PBS 137 mM NaCl 2,7 mM KCl 6,5 mM Na2HPO4 1,5 mM KH2PO4	缓冲液浓度	—
pH	7.4	添加剂	137 mM NaCl; 2,7 mM KCl; 6,5 mM Na2HPO4; 1,5 mM KH2PO4
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	2013-10-31	储存 / 测量温度	— / —
曝光时间	—	帧数	—
波长	—	样品-探测器距离	3.9
光源	X-ray synchrotron	探测器	Pilatus 2M
机构 / 束线	Diamond Light Source / B21 · Didcot, UK
q 范围	0.166 – 4.011	样品体积 / 流速	— / —

SASBDB 原始图

可下载文件

类别	文件	状态	大小	校验值	下载与查看
curve	sasbdb/entries/88/sasda88/source/SASDA88.dat	downloaded	63364	b2a645de7933b6950709578a1c676c3410a5fc9d0ba626903bed309349ec0f62	下载查看原文件源站
full_entry_zip	sasbdb/entries/88/sasda88/source/SASDA88.zip	downloaded	93019	b132437495642f215aefcda6a42c5e60c94ffbc1bcf11bbcc6cfb65941405173	下载查看原文件源站
pddf	sasbdb/entries/88/sasda88/source/SASDA88.out	downloaded	64964	817246eb823d5b523ee2d70e1ebbb0be53ee3004fbd0d86a9a44cea44570e63e	下载查看原文件源站
sascif	sasbdb/entries/88/sasda88/source/SASDA88.sascif	downloaded	448575	50804da4054ef03195ab40a2720626eb618f8e66357e43b18f365b1b8a509053	下载查看原文件源站
summary	sasbdb/entries/88/sasda88/source/summary.json	downloaded	7455	04c5f5a839df8660919069aadf5d9dd70f0a6b034fd448e524327b4dd72715dd	下载查看原文件源站

curve：来源记录

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  "role": "curve",
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  "url": "https://www.sasbdb.org/media/intensities_files/SASDA88.dat"
}

full_entry_zip：来源记录与 ZIP 内部目录（6 项）

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  "url": "https://www.sasbdb.org/media/zip_directories/SASDA88.zip",
  "zip_member_count": 6,
  "zip_members": [
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    {
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      "name": "SASDA88/pddf/SASDA88.out",
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    {
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      "name": "SASDA88/SASDA88_fit1.fir",
      "size": 36290
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    {
      "crc32": "f850a2ae",
      "name": "SASDA88/SASDA88_fit1_model1.pdb",
      "size": 33019
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    {
      "crc32": "c7118b1d",
      "name": "SASDA88/SASDA88_fit2.fit",
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pddf：来源记录

{
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  "role": "pddf",
  "sha256": "817246eb823d5b523ee2d70e1ebbb0be53ee3004fbd0d86a9a44cea44570e63e",
  "size": 64964,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/p_of_R_files/SASDA88.out"
}

sascif：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/88/sasda88/source/SASDA88.sascif",
  "role": "sascif",
  "sha256": "50804da4054ef03195ab40a2720626eb618f8e66357e43b18f365b1b8a509053",
  "size": 448575,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDA88.sascif"
}

summary：来源记录

{
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  "size": 7455,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDA88/"
}

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：179 个字段值

字段路径	原始值
code	SASDA88
status	Published
type_of_curve	Single concentration
angular_unit	1/nm
project.title	RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity.
project.publication.title	RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity.
project.publication.author_list	Mittelberger F, Meyer C, Waetzig GH, Zacharias M, Valentini E, Svergun DI, Berg K, Lorenzen I, Grötzinger J, Rose-John S, Hahn U
project.publication.journal	RNA Biol
project.publication.doi	10.1080/15476286.2015.1079681
project.publication.pmid	26383776
project.publication.published_date	2015
project.status	released
project.submitted_date	2015-05-05
project.released_date	2015-09-23
pddf_data	https://www.sasbdb.org/media/p_of_R_files/SASDA88.out
intensities_data	https://www.sasbdb.org/media/intensities_files/SASDA88.dat
intensities_log_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA88_dat_img.png
intensities_kratky_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA88_kratky_img.png
pddf_plot	https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDA88_pofr_img.png
intensities_guinier_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA88_guinier_img.png
sascif_data	https://www.sasbdb.org/media/sascif/sascif_files/SASDA88.sascif
experiment.instrument.detector.type	null
experiment.instrument.detector.name	Pilatus 2M
experiment.instrument.detector.resolution	null
experiment.instrument.name	Diamond Light Source
experiment.instrument.city	Didcot
experiment.instrument.country	UK
experiment.instrument.beamline_name	B21
experiment.instrument.beam_geometry	1 x 5 mm
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	RAID3
experiment.sample.molecule[0].short_name	null
experiment.sample.molecule[0].sequence	GGGAGAACUGUGGGAGUGGAGGGUGGAUGGUUCU
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	dimer
experiment.sample.molecule[0].molecular_type	RNA
experiment.sample.molecule[0].uniprot_sequence	null
experiment.sample.molecule[0].mw	11.267
experiment.sample.molecule[0].total_mw	22.533
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	null
experiment.sample.buffer.name	PBS 137 mM NaCl 2,7 mM KCl 6,5 mM Na2HPO4 1,5 mM KH2PO4
experiment.sample.buffer.concentration_unit	null
experiment.sample.buffer.comment	null
experiment.sample.buffer.additive	137 mM NaCl; 2,7 mM KCl; 6,5 mM Na2HPO4; 1,5 mM KH2PO4
experiment.sample.buffer.concentration	null
experiment.sample.buffer.pka	null
experiment.sample.buffer.ph	7.4
experiment.sample.buffer.deuteration	null
experiment.sample.purity_method	null
experiment.sample.name	RAID3 in PBS
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	EMBL-Hamburg
experiment.contributor[0].affiliation[0].address	Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany
experiment.contributor[0].affiliation[0].full_name	European Molecular Biology Laboratory (EMBL) - Hamburg outstation
experiment.contributor[0].affiliation[0].webpage	http://www.embl-hamburg.de/index.php
experiment.contributor[0].contributor_name	Erica
experiment.contributor[0].contributor_surname	Valentini
experiment.contributor[0].orcid	null
experiment.concentration_method	null
experiment.concentration_unit	mg/ml
experiment.date	2013-10-31
experiment.storage_temperature	null
experiment.cell_temperature	null
experiment.exposure_time	null
experiment.number_of_frames	null
experiment.wavelength	null
experiment.sample_detector_distance	3.9
experiment.concentration_min	null
experiment.concentration_max	0.2
experiment.sample_volume	null
experiment.flow_rate	null
experiment.s_min	0.166
experiment.s_max	4.011
experiment.total_exposure_time	null
experiment.seccolumn	null
fits[0].models[0].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDA88_fit1_model1_img.png
fits[0].models[0].software	DAMMIN
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/SASDA88_fit1_model1.pdb
fits[0].models[0].model_mw	null
fits[0].models[0].bead_radius	2.4
fits[0].models[0].log	null
fits[0].models[0].symmetry	P2
fits[0].models[0].comment
fits[0].models[0].user	1
fits[0].fit_unit	1/A
fits[0].fit_plot	https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDA88_fit1_fit_img.png
fits[0].software	null
fits[0].chi_square_value	1.188
fits[0].p_value	0.2774
fits[0].fit_residual_plot	SASDA88_fit1_fitresiduals_img.png
fits[0].fit_data	https://www.sasbdb.org/media/fitting_files/SASDA88_fit1.fir
fits[0].fit_log	null
fits[0].software_version	null
fits[0].description	null
fits[1].models[0].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDA88_fit2_model1_img.png
fits[1].models[0].software	SASREF CV
fits[1].models[0].pdb_link	[]
fits[1].models[0].model_title	null
fits[1].models[0].type_of_model	atomic
fits[1].models[0].software_version
fits[1].models[0].model_data	https://www.sasbdb.org/media/pdb_file/SASDA88_fit2_model1.pdb
fits[1].models[0].model_mw	19.77
fits[1].models[0].bead_radius	1.9
fits[1].models[0].log	null
fits[1].models[0].symmetry	P2
fits[1].models[0].comment	Constraint of max 8 A among the quadruplex imposed
fits[1].models[0].user	1
fits[1].fit_unit	1/A
fits[1].fit_plot	https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDA88_fit2_fit_img.png
fits[1].software	null
fits[1].chi_square_value	1.04
fits[1].p_value	0.056437
fits[1].fit_residual_plot	SASDA88_fit2_fitresiduals_img.png
fits[1].fit_data	https://www.sasbdb.org/media/fitting_files/SASDA88_fit2.fit
fits[1].fit_log	null
fits[1].software_version	null
fits[1].description	null
estimated_volume_method	null
pddf_software	ATSAS GNOM
pddf_software_version	null
i0_calibration_standard	null
description	null
experiment_description	null
tags	[]
intensity_unit	null
experimental_mw	26.0
experimental_mw_error	null
guinier_i0_mw	null
guinier_i0_mw_error	null
porod_mw	26.0
porod_mw_error	null
pddf_i0	null
pddf_i0_error	null
guinier_i0	0.002
guinier_i0_error	null
pddf_rg	2.7
pddf_rg_error	null
guinier_rg	2.7
guinier_rg_error	null
pddf_dmax	10.0
pddf_dmax_error	null
porod_volume	26.0
porod_volume_error	null
estimated_volume	null
estimated_volume_error	null
guinier_point_first	21
guinier_point_last	92
pddf_point_first	null
pddf_point_last	null
i0_calibration_standard_data	null
intensities_log_log_plot	SASDA88_datloglog_img.png
symmetry	null
last_modified	2019-12-06T13:07:15.624532+01:00
bragg_peak	[]

manifest.json：36 个字段值

字段路径	原始值
code	SASDA88
status	success
started_at	2026-08-11T15:47:36.263047+00:00
finished_at	2026-08-11T15:47:45.602870+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/SASDA88/
files[0].path	/data/saxsdb/sasbdb/entries/88/sasda88/source/summary.json
files[0].size	7455
files[0].sha256	04c5f5a839df8660919069aadf5d9dd70f0a6b034fd448e524327b4dd72715dd
files[1].status	downloaded
files[1].url	https://www.sasbdb.org/media/intensities_files/SASDA88.dat
files[1].path	/data/saxsdb/sasbdb/entries/88/sasda88/source/SASDA88.dat
files[1].size	63364
files[1].sha256	b2a645de7933b6950709578a1c676c3410a5fc9d0ba626903bed309349ec0f62
files[1].role	curve
files[2].status	downloaded
files[2].url	https://www.sasbdb.org/media/p_of_R_files/SASDA88.out
files[2].path	/data/saxsdb/sasbdb/entries/88/sasda88/source/SASDA88.out
files[2].size	64964
files[2].sha256	817246eb823d5b523ee2d70e1ebbb0be53ee3004fbd0d86a9a44cea44570e63e
files[2].role	pddf
files[3].status	downloaded
files[3].url	https://www.sasbdb.org/media/sascif/sascif_files/SASDA88.sascif
files[3].path	/data/saxsdb/sasbdb/entries/88/sasda88/source/SASDA88.sascif
files[3].size	448575
files[3].sha256	50804da4054ef03195ab40a2720626eb618f8e66357e43b18f365b1b8a509053
files[3].role	sascif
files[4].status	downloaded
files[4].url	https://www.sasbdb.org/media/zip_directories/SASDA88.zip
files[4].path	/data/saxsdb/sasbdb/entries/88/sasda88/source/SASDA88.zip
files[4].size	93019
files[4].sha256	b132437495642f215aefcda6a42c5e60c94ffbc1bcf11bbcc6cfb65941405173
files[4].role	full_entry_zip
files[4].zip_member_count	6
files[4].zip_validation	central_directory_readable

查看完整 summary.json 原文

{
  "code": "SASDA88",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity.",
    "publication": {
      "title": "RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity.",
      "author_list": "Mittelberger F, Meyer C, Waetzig GH, Zacharias M, Valentini E, Svergun DI, Berg K, Lorenzen I, Grötzinger J, Rose-John S, Hahn U",
      "journal": "RNA Biol",
      "doi": "10.1080/15476286.2015.1079681",
      "pmid": "26383776",
      "published_date": "2015"
    },
    "status": "released",
    "submitted_date": "2015-05-05",
    "released_date": "2015-09-23"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDA88.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDA88.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA88_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA88_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDA88_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDA88_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDA88.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": null,
        "name": "Pilatus 2M",
        "resolution": null
      },
      "name": "Diamond Light Source",
      "city": "Didcot",
      "country": "UK",
      "beamline_name": "B21",
      "beam_geometry": "1 x 5 mm",
      "type_of_source": "X-ray synchrotron",
      "point_source": null,
      "line_collimation": null,
      "sample_path_length": null,
      "line_collimation_slitlength": null,
      "line_collimation_integrationwidth": null,
      "xray_energy": null,
      "beam_profile_ah": null,
      "beam_profile_al": null
    },
    "sample": {
      "molecule": [
        {
          "long_name": "RAID3",
          "short_name": null,
          "sequence": "GGGAGAACUGUGGGAGUGGAGGGUGGAUGGUUCU",
          "organism": null,
          "uniprot_code": null,
          "uniprot_range_first": null,
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查看完整 manifest.json 原文

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标题	RAID3--An interleukin-6 receptor-binding aptamer with post-selective modification-resistant affinity.
作者	Mittelberger F, Meyer C, Waetzig GH, Zacharias M, Valentini E, Svergun DI, Berg K, Lorenzen I, Grötzinger J, Rose-John S, Hahn U
DOI / PMID	10.1080/15476286.2015.1079681 / 26383776