SASDFJ9

Poly-uridine rU30 in 20 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：2019-12-11T18:17:14.164307+01:00

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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Poly-uridine rU30 in 20 mM NaCl

浓度	0.4 – 1.2	缓冲液 / pH	1 mM Na-MOPS, 20 mM NaCl, 20 µM EDTA / 7.0
实验温度	25.0	设备 / 束线	Cornell High Energy Synchrotron Source (CHESS) / G1
波长	0.11 nm	曝光	10.0 s × 30

分子组分

组分	类型 / 物种	UniProt 与构建体	寡聚状态	分子量
Poly-uridine 查看序列 UUUUUUUUUUUUUUUUUUUUUUUUUUUUUU	RNA—	——–—	monomer分子数 1	9.203 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	261[3]	0.01–0.27 1/A	含误差列缺失 0	0	sasbdb/entries/j9/sasdfj9/source/SASDFJ9.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)	12.0	—	Å
i0	Guinier	29.5	0.48	—
i0	P(r)	29.35	—	—
mw	Experimental	14.0	—	kDa
porod_volume	Porod	29.0	—	Å³
rg	Guinier	3.03	0.08	Å
rg	P(r)	3.11	—	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

χ²：0.958441CorMap p：0.394932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	Custom in-house	—	8.789	—	模型图片
2	—atomic	Custom in-house	—	8.789	—	模型图片
3	—atomic	Custom in-house	—	8.789	—	模型图片
4	—atomic	Custom in-house	—	8.789	—	模型图片
5	—atomic	Custom in-house	—	8.789	—	模型图片
6	—atomic	Custom in-house	—	8.789	—	模型图片
7	—atomic	Custom in-house	—	8.789	—	模型图片
8	—atomic	Custom in-house	—	8.789	—	模型图片
9	—atomic	Custom in-house	—	8.789	—	模型图片
10	—atomic	Custom in-house	—	8.789	—	模型图片
11	—atomic	Custom in-house	—	8.789	—	模型图片
12	—atomic	Custom in-house	—	8.789	—	模型图片
13	—atomic	Custom in-house	—	8.789	—	模型图片
14	—atomic	Custom in-house	—	8.789	—	模型图片
15	—atomic	Custom in-house	—	8.789	—	模型图片
16	—atomic	Custom in-house	—	8.789	—	模型图片
17	—atomic	Custom in-house	—	8.789	—	模型图片
18	—atomic	Custom in-house	—	8.789	—	模型图片
19	—atomic	Custom in-house	—	8.789	—	模型图片
20	—atomic	Custom in-house	—	8.789	—	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/j9/sasdfj9/source/SASDFJ9.dat	downloaded	5502
full_entry_zip	sasbdb/entries/j9/sasdfj9/source/SASDFJ9.zip	downloaded	209461
pddf	sasbdb/entries/j9/sasdfj9/source/SASDFJ9.out	downloaded	21626
sascif	sasbdb/entries/j9/sasdfj9/source/SASDFJ9.sascif	downloaded	1172768
summary	sasbdb/entries/j9/sasdfj9/source/summary.json	downloaded	17348

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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	1 mM Na-MOPS, 20 mM NaCl, 20 µM EDTA	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	2015-10-25	储存 / 测量温度	4.0 / 25.0
曝光时间	10.0	帧数	30
波长	0.11	样品-探测器距离	2.04
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 范围	0.1 – 2.7	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/j9/sasdfj9/source/SASDFJ9.dat	downloaded	5502	50caceedac8f2bda3d78f03055ceb879829ee6762369209778402f3df9674d2e	下载查看原文件源站
full_entry_zip	sasbdb/entries/j9/sasdfj9/source/SASDFJ9.zip	downloaded	209461	604012884a45e6e46890fd4a5e1df9df9c6c51b5be32a023a206069cd98a3f7f	下载查看原文件源站
pddf	sasbdb/entries/j9/sasdfj9/source/SASDFJ9.out	downloaded	21626	c2d41762af699d0a0881a9d874420603c05f97dc3505288d8c27354ea3b096d2	下载查看原文件源站
sascif	sasbdb/entries/j9/sasdfj9/source/SASDFJ9.sascif	downloaded	1172768	661560e6a6ba5e8a2cb999f7cebad6f02a241415234f6d5e8f9d13f731d090a6	下载查看原文件源站
summary	sasbdb/entries/j9/sasdfj9/source/summary.json	downloaded	17348	c26647087c67c688797cfb539636d8503ab063b8ebdfe4f19b2d6997ad92e7a4	下载查看原文件源站

curve：来源记录

{
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  "role": "curve",
  "sha256": "50caceedac8f2bda3d78f03055ceb879829ee6762369209778402f3df9674d2e",
  "size": 5502,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/intensities_files/SASDFJ9.dat"
}

full_entry_zip：来源记录与 ZIP 内部目录（23 项）

{
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  "role": "full_entry_zip",
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  "size": 209461,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/zip_directories/SASDFJ9.zip",
  "zip_member_count": 23,
  "zip_members": [
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    {
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    {
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      "size": 47163
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    {
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      "name": "SASDFJ9/SASDFJ9_fit1_model14.pdb",
      "size": 47163
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    {
      "crc32": "a71f2183",
      "name": "SASDFJ9/SASDFJ9_fit1_model15.pdb",
      "size": 47163
    },
    {
      "crc32": "641b588e",
      "name": "SASDFJ9/SASDFJ9_fit1_model16.pdb",
      "size": 47163
    },
    {
      "crc32": "14d0b982",
      "name": "SASDFJ9/SASDFJ9_fit1_model17.pdb",
      "size": 47163
    },
    {
      "crc32": "2d03aec5",
      "name": "SASDFJ9/SASDFJ9_fit1_model18.pdb",
      "size": 47163
    },
    {
      "crc32": "5149837d",
      "name": "SASDFJ9/SASDFJ9_fit1_model19.pdb",
      "size": 47163
    },
    {
      "crc32": "e7702ea9",
      "name": "SASDFJ9/SASDFJ9_fit1_model20.pdb",
      "size": 47163
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  ],
  "zip_validation": "central_directory_readable"
}

pddf：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/j9/sasdfj9/source/SASDFJ9.out",
  "role": "pddf",
  "sha256": "c2d41762af699d0a0881a9d874420603c05f97dc3505288d8c27354ea3b096d2",
  "size": 21626,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/p_of_R_files/SASDFJ9.out"
}

sascif：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/j9/sasdfj9/source/SASDFJ9.sascif",
  "role": "sascif",
  "sha256": "661560e6a6ba5e8a2cb999f7cebad6f02a241415234f6d5e8f9d13f731d090a6",
  "size": 1172768,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDFJ9.sascif"
}

summary：来源记录

{
  "path": "/data/saxsdb/sasbdb/entries/j9/sasdfj9/source/summary.json",
  "sha256": "c26647087c67c688797cfb539636d8503ab063b8ebdfe4f19b2d6997ad92e7a4",
  "size": 17348,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDFJ9/"
}

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	SASDFJ9
status	Published
type_of_curve	Extrapolated to infinite dilution
angular_unit	1/A
project.title	Visualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.
project.publication.title	Visualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.
project.publication.author_list	Plumridge A, Andresen K, Pollack L
project.publication.journal	J Am Chem Soc
project.publication.doi	10.1021/jacs.9b04461
project.publication.pmid	31804813
project.publication.published_date	2019 Dec 5
project.status	released
project.submitted_date	2019-07-09
project.released_date	2019-12-11
pddf_data	https://www.sasbdb.org/media/p_of_R_files/SASDFJ9.out
intensities_data	https://www.sasbdb.org/media/intensities_files/SASDFJ9.dat
intensities_log_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFJ9_dat_img.png
intensities_kratky_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFJ9_kratky_img.png
pddf_plot	https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDFJ9_pofr_img.png
intensities_guinier_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDFJ9_guinier_img.png
sascif_data	https://www.sasbdb.org/media/sascif/sascif_files/SASDFJ9.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-uridine
experiment.sample.molecule[0].short_name	rU30
experiment.sample.molecule[0].sequence	UUUUUUUUUUUUUUUUUUUUUUUUUUUUUU
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	RNA
experiment.sample.molecule[0].uniprot_sequence	null
experiment.sample.molecule[0].mw	9.203
experiment.sample.molecule[0].total_mw	9.203
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	1 mM Na-MOPS, 20 mM NaCl, 20 µM EDTA
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	Poly-uridine rU30 in 20 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	2015-10-25
experiment.storage_temperature	4.0
experiment.cell_temperature	25.0
experiment.exposure_time	10.0
experiment.number_of_frames	30
experiment.wavelength	0.11
experiment.sample_detector_distance	2.04
experiment.concentration_min	0.4
experiment.concentration_max	1.2
experiment.sample_volume	null
experiment.flow_rate	null
experiment.s_min	0.1
experiment.s_max	2.7
experiment.total_exposure_time	null
experiment.seccolumn	null
fits[0].models[0].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDFJ9_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	atomic
fits[0].models[0].software_version	null
fits[0].models[0].model_data	https://www.sasbdb.org/media/pdb_file/SASDFJ9_fit1_model1.pdb
fits[0].models[0].model_mw	8.789
fits[0].models[0].bead_radius	null
fits[0].models[0].log	null
fits[0].models[0].symmetry	null
fits[0].models[0].comment	null
fits[0].models[0].user	156
fits[0].models[1].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDFJ9_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	atomic
fits[0].models[1].software_version	null
fits[0].models[1].model_data	https://www.sasbdb.org/media/pdb_file/SASDFJ9_fit1_model2.pdb
fits[0].models[1].model_mw	8.789
fits[0].models[1].bead_radius	null
fits[0].models[1].log	null
fits[0].models[1].symmetry	null
fits[0].models[1].comment	null
fits[0].models[1].user	156
fits[0].models[2].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDFJ9_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	atomic
fits[0].models[2].software_version	null
fits[0].models[2].model_data	https://www.sasbdb.org/media/pdb_file/SASDFJ9_fit1_model3.pdb
fits[0].models[2].model_mw	8.789
fits[0].models[2].bead_radius	null
fits[0].models[2].log	null
fits[0].models[2].symmetry	null
fits[0].models[2].comment	null
fits[0].models[2].user	156
fits[0].models[3].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDFJ9_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	atomic
fits[0].models[3].software_version	null
fits[0].models[3].model_data	https://www.sasbdb.org/media/pdb_file/SASDFJ9_fit1_model4.pdb
fits[0].models[3].model_mw	8.789
fits[0].models[3].bead_radius	null
fits[0].models[3].log	null
fits[0].models[3].symmetry	null
fits[0].models[3].comment	null
fits[0].models[3].user	156
fits[0].models[4].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDFJ9_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	atomic
fits[0].models[4].software_version	null
fits[0].models[4].model_data	https://www.sasbdb.org/media/pdb_file/SASDFJ9_fit1_model5.pdb
fits[0].models[4].model_mw	8.789
fits[0].models[4].bead_radius	null
fits[0].models[4].log	null
fits[0].models[4].symmetry	null
fits[0].models[4].comment	null
fits[0].models[4].user	156
fits[0].models[5].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDFJ9_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	atomic
fits[0].models[5].software_version	null
fits[0].models[5].model_data	https://www.sasbdb.org/media/pdb_file/SASDFJ9_fit1_model6.pdb
fits[0].models[5].model_mw	8.789
fits[0].models[5].bead_radius	null
fits[0].models[5].log	null
fits[0].models[5].symmetry	null
fits[0].models[5].comment	null
fits[0].models[5].user	156
fits[0].models[6].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDFJ9_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	atomic
fits[0].models[6].software_version	null
fits[0].models[6].model_data	https://www.sasbdb.org/media/pdb_file/SASDFJ9_fit1_model7.pdb
fits[0].models[6].model_mw	8.789
fits[0].models[6].bead_radius	null
fits[0].models[6].log	null
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experiment_description	Synchrotron SAXS data from solutions of rU30 in 1 mM Na-MOPS, 20 mM NaCl, 20 µM EDTA, pH 7 were collected on the G1 beam line at the Cornell High Energy Synchrotron Source (CHESS) storage ring (Ithaca, NY, USA) using a Finger Lakes CCD detector at a sample-detector distance of 2.0 m and at a wavelength of λ = 0.11 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 0.4 and 1.2 mg/ml were measured at 25°C. 30 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. 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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bragg_peak	[]

manifest.json：36 个字段值

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code	SASDFJ9
status	success
started_at	2026-08-11T16:15:42.215756+00:00
finished_at	2026-08-11T16:15:51.179710+00:00
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查看完整 summary.json 原文

{
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  "status": "Published",
  "type_of_curve": "Extrapolated to infinite dilution",
  "angular_unit": "1/A",
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    "title": "Visualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.",
    "publication": {
      "title": "Visualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.",
      "author_list": "Plumridge A, Andresen K, Pollack L",
      "journal": "J Am Chem Soc",
      "doi": "10.1021/jacs.9b04461",
      "pmid": "31804813",
      "published_date": "2019 Dec 5"
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    "submitted_date": "2019-07-09",
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查看完整 manifest.json 原文

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标题	Visualizing disordered single-stranded RNA: connecting sequence, structure and electrostatics.
作者	Plumridge A, Andresen K, Pollack L
DOI / PMID	10.1021/jacs.9b04461 / 31804813