SASDG24

Subgenomic flavivirus RNAs from Dengue virus 2

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Extrapolated to infinite dilution 最后更新:2023-03-02T16:54:16.648202+01:00

The subtracted SAXS data series used to generate the final extrapolated to zero-concentration profile displayed in this entry are provided in the full entry zip archive. The ab initio dummy atom model represents the averaged spatial disposition of the RNA in solution (DAMFILT model), derived from several aligned individual models (corresponding fit).

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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Subgenomic flavivirus RNAs from Dengue virus 2

浓度0.75 – 3.0 缓冲液 / pH20mM Tris-HCl, 100mM NaCl, 5mM MgCl2 / 7.5
实验温度25.0 设备 / 束线Advanced Photon Source (APS), Argonne National Laboratory / 12-ID-B SAXS/WAXS
波长0.08857 nm曝光1.0 s × 30

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Subgenomic flavivirus RNAs from Dengue virus 2
查看序列
GGAGUCAGGUCGGAUUAAGCCAUAGUACGGAAAAAACUAUGCUACCUGUGAGCCCCGUCCAAGGACGUUAAAAGAAGUCAGGCCAUUACAAAUGCCAUAGCUUGAGUAAACUGUGCAGCCUGUAGCUCCACCUGAGAAGGUGUAAAAAAUCUGGGAGGCCACAAACCAUGGAAGCUGUACGCAUGGCGUAGUGGACUAGCGGUUAGAGGAGACCCCUCCCUUACAAAUCGCAGCAACAAUGGGGGCCCAAGGUGAGAUGAAGCUGUAGUCUCACUGGAAGGACUAGAGGUUAGAGGAGACCCCCCCAAAACAAAAAACAGCAUAUUGACGCUGGGAAAGACCAGAGAUCCUGCUGUCUCCUCAGCAUCAUUCCAGGCACAGAACGCCAGAAAAUGGAAUGGUGCUGUUGAAUCAACAGGUUCU
RNADengue virus 2——–—monomer分子数 1136.889 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
1151[3]0.0–0.3 1/A含误差列缺失 00sasbdb/entries/24/sasdg24/source/SASDG24.dat
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2. SASBDB 报告的指标 Reported Results

指标方法数值误差单位
dmaxP(r)30.5—Å
i0Guinier0.38—arbitrary
i0P(r)0.3931—arbitrary
mwExperimental132.3—kDa
mwPorod147.5—kDa
porod_volumePorod236.0—ų
rgGuinier7.9—Å
rgP(r)8.55—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 · DAMMIN 2.8.3

χ²:0.53CorMap p:0.129727单位:1/A
模型名称 / 类型软件对称性模型 MWPDB 声明来源文件
1—dummyDAMFILT 2.8.3———模型 图片
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4. 来源文件索引 Source Files

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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20mM Tris-HCl, 100mM NaCl, 5mM MgCl2缓冲液浓度—
pH7.5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2016-12-16储存 / 测量温度4.0 / 25.0
曝光时间1.0帧数30
波长0.08857样品-探测器距离2.0
光源X-ray synchrotron探测器Pilatus 2M
机构 / 束线Advanced Photon Source (APS), Argonne National Laboratory / 12-ID-B SAXS/WAXS · Lemont, IL, USA
q 范围0.0 – 3.0样品体积 / 流速— / —

SASBDB 原始图

实验 I(q)
实验 I(q)
实验 I(q) log-log
实验 I(q) log-log
Guinier 图
Guinier 图
Kratky 图
Kratky 图
P(r) 图
P(r) 图

可下载文件

类别文件状态大小校验值下载与查看
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curve:来源记录
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full_entry_zip:来源记录与 ZIP 内部目录(11 项)
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pddf:来源记录
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sascif:来源记录
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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:205 个字段值
字段路径原始值
codeSASDG24
statusPublished
type_of_curveExtrapolated to infinite dilution
angular_unit1/A
project.titleLong non-coding subgenomic flavivirus RNAs have extended 3D structures and are flexible in solution.
project.publication.titleLong non-coding subgenomic flavivirus RNAs have extended 3D structures and are flexible in solution.
project.publication.author_listZhang Y, Zhang Y, Liu ZY, Cheng ML, Ma J, Wang Y, Qin CF, Fang X
project.publication.journalEMBO Rep
project.publication.doi10.15252/embr.201847016
project.publication.pmid31502753
project.publication.published_date2019 Nov 5
project.statusreleased
project.submitted_date2019-08-10
project.released_date2019-09-05
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experiment.instrument.detector.namePilatus 2M
experiment.instrument.detector.resolutionnull
experiment.instrument.nameAdvanced Photon Source (APS), Argonne National Laboratory
experiment.instrument.cityLemont, IL
experiment.instrument.countryUSA
experiment.instrument.beamline_name12-ID-B SAXS/WAXS
experiment.instrument.beam_geometrynull
experiment.instrument.type_of_sourceX-ray synchrotron
experiment.instrument.point_sourcenull
experiment.instrument.line_collimationnull
experiment.instrument.sample_path_lengthnull
experiment.instrument.line_collimation_slitlengthnull
experiment.instrument.line_collimation_integrationwidthnull
experiment.instrument.xray_energynull
experiment.instrument.beam_profile_ahnull
experiment.instrument.beam_profile_alnull
experiment.sample.molecule[0].long_nameSubgenomic flavivirus RNAs from Dengue virus 2
experiment.sample.molecule[0].short_nameDENV2-sfRNA
experiment.sample.molecule[0].sequenceGGAGUCAGGUCGGAUUAAGCCAUAGUACGGAAAAAACUAUGCUACCUGUGAGCCCCGUCCAAGGACGUUAAAAGAAGUCAGGCCAUUACAAAUGCCAUAGCUUGAGUAAACUGUGCAGCCUGUAGCUCCACCUGAGAAGGUGUAAAAAAUCUGGGAGGCCACAAACCAUGGAAGCUGUACGCAUGGCGUAGUGGACUAGCGGUUAGAGGAGACCCCUCCCUUACAAAUCGCAGCAACAAUGGGGGCCCAAGGUGAGAUGAAGCUGUAGUCUCACUGGAAGGACUAGAGGUUAGAGGAGACCCCCCCAAAACAAAAAACAGCAUAUUGACGCUGGGAAAGACCAGAGAUCCUGCUGUCUCCUCAGCAUCAUUCCAGGCACAGAACGCCAGAAAAUGGAAUGGUGCUGUUGAAUCAACAGGUUCU
experiment.sample.molecule[0].organismDengue virus 2
experiment.sample.molecule[0].uniprot_codenull
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeRNA
experiment.sample.molecule[0].uniprot_sequencenull
experiment.sample.molecule[0].mw136.889
experiment.sample.molecule[0].total_mw136.889
experiment.sample.molecule[0].number_molecules1
experiment.sample.molecule[0].complex_stateFalse
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experiment.sample.molecule[0].molecule_sourcebiological
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experiment.sample.buffer.additivenull
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experiment.sample.nameSubgenomic flavivirus RNAs from Dengue virus 2
experiment.sample.ext_coefficientnull
experiment.sample.contrastnull
experiment.sample.specific_volnull
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experiment.sample.absorbptionnull
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experiment.sample.mixturenull
experiment.contributor[0].affiliation[0].short_namenull
experiment.contributor[0].affiliation[0].addressnull
experiment.contributor[0].affiliation[0].full_nameTsinghua University
experiment.contributor[0].affiliation[0].webpagenull
experiment.contributor[0].contributor_nameZhang
experiment.contributor[0].contributor_surnameYikan
experiment.contributor[0].orcid
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experiment.concentration_unitnull
experiment.date2016-12-16
experiment.storage_temperature4.0
experiment.cell_temperature25.0
experiment.exposure_time1.0
experiment.number_of_frames30
experiment.wavelength0.08857
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fits[1].p_value6e-05
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pddf_softwareATSAS GNOM
pddf_software_version4.6
i0_calibration_standardnull
descriptionThe subtracted SAXS data series used to generate the final extrapolated to zero-concentration profile displayed in this entry are provided in the full entry zip archive. The ab initio dummy atom model represents the averaged spatial disposition of the RNA in solution (DAMFILT model), derived from several aligned individual models (corresponding fit).
experiment_descriptionnull
tags[]
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experimental_mw132.3
experimental_mw_errornull
guinier_i0_mwnull
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estimated_volume_errornull
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pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
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symmetrynull
last_modified2023-03-02T16:54:16.648202+01:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDG24
statussuccess
started_at2026-08-11T14:12:15.028228+00:00
finished_at2026-08-11T14:12:26.925441+00:00
source_last_modified2023-03-02T16:54:16.648202+01:00
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查看完整 summary.json 原文
{
  "code": "SASDG24",
  "status": "Published",
  "type_of_curve": "Extrapolated to infinite dilution",
  "angular_unit": "1/A",
  "project": {
    "title": "Long non-coding subgenomic flavivirus RNAs have extended 3D structures and are flexible in solution.",
    "publication": {
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      "author_list": "Zhang Y, Zhang Y, Liu ZY, Cheng ML, Ma J, Wang Y, Qin CF, Fang X",
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      "doi": "10.15252/embr.201847016",
      "pmid": "31502753",
      "published_date": "2019 Nov 5"
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}
查看完整 manifest.json 原文
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