SASDBJ9

Geobacillus stearothermophilus DnaB1-300

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Merged 最后更新:2021-12-03T19:22:21.480997+01:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Geobacillus stearothermophilus DnaB1-300

浓度10.0 – 18.0 缓冲液 / pH20 mM Tris, 300 mM NaCl and 5 mM β-ME / 8.0
实验温度15.0 设备 / 束线Taiwan Photon Source, NSRRC / 23A
波长0.08285 nm曝光30.0 s × 13

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Geobacillus stearothermophilus DnaB1-300
查看序列
MQHHWKELIAVDRYTVQSRGVLQEVDRKVLTLLYQPLIGCRALALYMTLWGELELLDGQEATHHRLMALMQCGLPDIYSERLKLEGIGLLDTYVHAKEADEPKLFLYELRPPLAPDQFFRDEMLSVFLRRQVGRHLFIQLSNFFARPSIDETKFTQVTRSFSDVFSAVPAEQIVAGLSEEAGPELLEGKDHIRRDEASYVLDDGVFDFELFFAGLSKQLVPRRAVTAKVKEAIKKLAFLYGIPPLEMQKLVLGVIDPAYHIDIDALRRAAREWYELEHGGVEPRLVERVQPLAYRTMENI
proteinGeobacillus stearothermophilusA0A0K2H6I11–300tetramer分子数 434.508 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
1244[3]0.00751–0.3526 1/A含误差列缺失 00sasbdb/entries/j9/sasdbj9/source/SASDBJ9.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)11.0—Å
i0Guinier0.868——
i0P(r)0.868——
mwExperimental34.547—kDa
mwGuinier I(0)128.78—kDa
porod_volumePorod314.75—ų
rgGuinier3.542—Å
rgP(r)3.544—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

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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20 mM Tris, 300 mM NaCl and 5 mM β-ME缓冲液浓度—
pH8.0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2015-10-18储存 / 测量温度— / 15.0
曝光时间30.0帧数13
波长0.08285样品-探测器距离—
光源X-ray synchrotron探测器Flat Panel sensor C10158DK-3957(X)
机构 / 束线Taiwan Photon Source, NSRRC / 23A · Hsinchu, Taiwan
q 范围0.075 – 3.526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(4 项)
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pddf:来源记录
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sascif:来源记录
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summary: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:156 个字段值
字段路径原始值
codeSASDBJ9
statusPublished
type_of_curveMerged
angular_unit1/A
project.titleStructural analyses of the bacterial primosomal protein DnaB reveal that it is a tetramer and forms a complex with a primosomal re-initiation protein.
project.publication.titleStructural analyses of the bacterial primosomal protein DnaB reveal that it is a tetramer and forms a complex with a primosomal re-initiation protein.
project.publication.author_listLi YC, Naveen V, Lin MG, Hsiao CD
project.publication.journalJ Biol Chem
project.publication.doi10.1074/jbc.M117.792002
project.publication.pmid28808061
project.publication.published_date2017 Sep 22
project.statusreleased
project.submitted_date2017-01-04
project.released_date2018-01-23
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experiment.instrument.detector.resolution50.0
experiment.instrument.nameTaiwan Photon Source, NSRRC
experiment.instrument.cityHsinchu
experiment.instrument.countryTaiwan
experiment.instrument.beamline_name23A
experiment.instrument.beam_geometrynull
experiment.instrument.type_of_sourceX-ray synchrotron
experiment.instrument.point_sourcenull
experiment.instrument.line_collimationnull
experiment.instrument.sample_path_lengthnull
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experiment.sample.molecule[0].short_nameGstDnaB1-300
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experiment.sample.molecule[0].organismGeobacillus stearothermophilus
experiment.sample.molecule[0].uniprot_codeA0A0K2H6I1
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last300
experiment.sample.molecule[0].oligomerizationtetramer
experiment.sample.molecule[0].molecular_typeprotein
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experiment.sample.molecule[0].mw34.508
experiment.sample.molecule[0].total_mw138.032
experiment.sample.molecule[0].number_molecules4
experiment.sample.molecule[0].complex_stateFalse
experiment.sample.molecule[0].deuterationnull
experiment.sample.molecule[0].molecule_sourcebiological
experiment.sample.molecule[0].molecule_descriptionnull
experiment.sample.buffer.name20 mM Tris, 300 mM NaCl and 5 mM β-ME
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
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experiment.sample.buffer.pkanull
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experiment.sample.purity_methodnull
experiment.sample.nameGeobacillus stearothermophilus DnaB1-300
experiment.sample.ext_coefficientnull
experiment.sample.contrastnull
experiment.sample.specific_volnull
experiment.sample.dry_volnull
experiment.sample.absorbptionnull
experiment.sample.deuterationnull
experiment.sample.mixturenull
experiment.contributor[0].affiliation[0].short_namenull
experiment.contributor[0].affiliation[0].addressTaipei, Taiwan
experiment.contributor[0].affiliation[0].full_nameAcademia Sinica
experiment.contributor[0].affiliation[0].webpagehttps://www.sinica.edu.tw
experiment.contributor[0].contributor_nameYiChing
experiment.contributor[0].contributor_surnameLi
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2015-10-18
experiment.storage_temperaturenull
experiment.cell_temperature15.0
experiment.exposure_time30.0
experiment.number_of_frames13
experiment.wavelength0.08285
experiment.sample_detector_distancenull
experiment.concentration_min10.0
experiment.concentration_max18.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.075
experiment.s_max3.526
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].p_value0.000215
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fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionATSAS 2.6.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of Geobacillus stearothermophilus DnaB1-300 in 20 mM Tris, 300 mM NaCl and 5 mM β-ME, pH 8 were collected on the 23A beam line at the Taiwan Photon Source storage ring (NSRRC, Hsinchu, Taiwan) using a Flat Panel sensor C10158DK-3957(X) detector at a wavelength of λ = 0.08285 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Solute concentrations ranging between 10 and 18 mg/ml were measured at 15°C. 13 successive 30 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 protein concentration. The low angle data collected at lower concentration were merged with the highest concentration high angle data to yield the final composite scattering curve.
tags[]
intensity_unitnull
experimental_mw34.547
experimental_mw_errornull
guinier_i0_mw128.78
guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i00.868
pddf_i0_errornull
guinier_i00.868
guinier_i0_errornull
pddf_rg3.544
pddf_rg_errornull
guinier_rg3.542
guinier_rg_errornull
pddf_dmax11.0
pddf_dmax_errornull
porod_volume314.75
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_firstnull
guinier_point_lastnull
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDBJ9_datloglog_img.png
symmetrynull
last_modified2021-12-03T19:22:21.480997+01:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDBJ9
statussuccess
started_at2026-08-11T16:15:34.032251+00:00
finished_at2026-08-11T16:15:42.214976+00:00
source_last_modified2021-12-03T19:22:21.480997+01:00
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查看完整 summary.json 原文
{
  "code": "SASDBJ9",
  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/A",
  "project": {
    "title": "Structural analyses of the bacterial primosomal protein DnaB reveal that it is a tetramer and forms a complex with a primosomal re-initiation protein.",
    "publication": {
      "title": "Structural analyses of the bacterial primosomal protein DnaB reveal that it is a tetramer and forms a complex with a primosomal re-initiation protein.",
      "author_list": "Li YC, Naveen V, Lin MG, Hsiao CD",
      "journal": "J Biol Chem",
      "doi": "10.1074/jbc.M117.792002",
      "pmid": "28808061",
      "published_date": "2017 Sep 22"
    },
    "status": "released",
    "submitted_date": "2017-01-04",
    "released_date": "2018-01-23"
  },
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            "address": "Taipei, Taiwan",
            "full_name": "Academia Sinica",
            "webpage": "https://www.sinica.edu.tw"
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        ],
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  "last_modified": "2021-12-03T19:22:21.480997+01:00",
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}
查看完整 manifest.json 原文
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