SASDEA8

Full length of DnaG (DNA Primase) from Bacillus subtilis

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Merged 最后更新:2021-09-20T13:42:19.789088+02:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Full length of DnaG (DNA Primase) from Bacillus subtilis

浓度1.0 – 7.0 缓冲液 / pH25 mM Tris-HCl,100 mM NaCl / 8.0
实验温度10.0 设备 / 束线Shanghai Synchrotron Radiation Facility (SSRF) / BL19U2
波长0.154 nm曝光1.0 s × 20

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
DNA primase
查看序列
MGNRIPDEIVDQVQKSADIVEVIGDYVQLKKQGRNYFGLCPFHGESTPSFSVSPDKQIFHCFGCGAGGNVFSFLRQMEGYSFAESVSHLADKYQIDFPDDITVHSGARPESSGEQKMAEAHELLKKFYHHLLINTKEGQEALDYLLSRGFTKELINEFQIGYALDSWDFITKFLVKRGFSEAQMEKAGLLIRREDGSGYFDRFRNRVMFPIHDHHGAVVAFSGRALGSQQPKYMNSPETPLFHKSKLLYNFYKARLHIRKQERAVLFEGFADVISAVSSDVKESIATMGTSLTDDHVKILRRNVEEIILCYDSDKAGYEATLKASELLQKKGCKVRVAMIPDGLDPDDYIKKFGGEKFKNDIIDASVTVMAFKMQYFRKGKNLSDEGDRLAYIKDVLKEISTLSGSLEQEVYVKQLASEFSLSQESLTEQLSVFSKQNKPADNSGETKTRRAHLTTKARQKRLRPAYENAERLLLAHMLRDRSVIKKVIDRVGFQFNIDEHRALAAYLYAFYEEGAELTPQHLMARVTDDHISQLLSDILMLQVNQELSEAELSDYVKKVLNQRNWSMIKEKEAERAEAERQKDFLRAASLAQEIVTLNRSLK
proteinBacillus subtilisP05096—–—monomer分子数 168.735 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
1829[3]0.008425635–0.3953774 1/A含误差列缺失 00sasbdb/entries/a8/sasdea8/source/SASDEA8.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)14.5—Å
i0Guinier89.220.24arbitrary
i0P(r)90.9—arbitrary
mwExperimental70.0—kDa
mwGuinier I(0)70.02.0kDa
mwPorod74.0—kDa
porod_volumePorod119.0—ų
rgGuinier3.740.1Å
rgP(r)3.94—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25 mM Tris-HCl,100 mM NaCl缓冲液浓度—
pH8.0添加剂—
缓冲液说明25 mM Tris-HCl, pH 8.0, 100 mM NaCl, 1 mM DTT
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2018-10-01储存 / 测量温度10.0 / 10.0
曝光时间1.0帧数20
波长0.154样品-探测器距离2.0
光源X-ray synchrotron探测器Pilatus 1M
机构 / 束线Shanghai Synchrotron Radiation Facility (SSRF) / BL19U2 · Shanghai, China
q 范围0.084 – 3.954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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full_entry_zipsasbdb/entries/a8/sasdea8/source/SASDEA8.zipdownloaded1259253527ce060dd5d1fcdd8ae40acddfec437f28eaa1d914cf6f310c8209c0a4cd1d下载查看原文件源站
pddfsasbdb/entries/a8/sasdea8/source/SASDEA8.outdownloaded4397442121f610c46d2c1258a0fb354aec7d3b72ab60a2b958ba0892bcf0a8968fea7下载查看原文件源站
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summarysasbdb/entries/a8/sasdea8/source/summary.jsondownloaded9075ae89eb3b0a269455c4ac2e271a998890eb85cbe893010608a13fc79a4adacc31下载查看原文件源站
curve:来源记录
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full_entry_zip:来源记录与 ZIP 内部目录(6 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:174 个字段值
字段路径原始值
codeSASDEA8
statusPublished
type_of_curveMerged
angular_unit1/A
project.titleFull length of DnaG primase from Bacillus subtilis
project.publicationnull
project.statusreleased
project.submitted_date2018-11-21
project.released_date2021-09-20
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experiment.instrument.detector.typeDectris
experiment.instrument.detector.namePilatus 1M
experiment.instrument.detector.resolution172.0
experiment.instrument.nameShanghai Synchrotron Radiation Facility (SSRF)
experiment.instrument.cityShanghai
experiment.instrument.countryChina
experiment.instrument.beamline_nameBL19U2
experiment.instrument.beam_geometry
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_nameDNA primase
experiment.sample.molecule[0].short_namenull
experiment.sample.molecule[0].sequenceMGNRIPDEIVDQVQKSADIVEVIGDYVQLKKQGRNYFGLCPFHGESTPSFSVSPDKQIFH CFGCGAGGNVFSFLRQMEGYSFAESVSHLADKYQIDFPDDITVHSGARPESSGEQKMAE AHELLKKFYHHLLINTKEGQEALDYLLSRGFTKELINEFQIGYALDSWDFITKFLVKRGF SEAQMEKAGLLIRREDGSGYFDRFRNRVMFPIHDHHGAVVAFSGRALGSQQPKYMNSPET PLFHKSKLLYNFYKARLHIRKQERAVLFEGFADVISAVSSDVKESIATMGTSLTDDHVKI LRRNVEEIILCYDSDKAGYEATLKASELLQKKGCKVRVAMIPDGLDPDDYIKKFGGEKFK NDIIDASVTVMAFKMQYFRKGKNLSDEGDRLAYIKDVLKEISTLSGSLEQEVYVKQLASE FSLSQESLTEQLSVFSKQNKPADNSGETKTRRAHLTTKARQKRLRPAYENAERLLLAHML RDRSVIKKVIDRVGFQFNIDEHRALAAYLYAFYEEGAELTPQHLMARVTDDHISQLLSDI LMLQVNQELSEAELSDYVKKVLNQRNWSMIKEKEAERAEAERQKDFLRAASLAQEIVTLN RSLK
experiment.sample.molecule[0].organismBacillus subtilis
experiment.sample.molecule[0].uniprot_codeP05096
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMGNRIPDEIVDQVQKSADIVEVIGDYVQLKKQGRNYFGLCPFHGESTPSFSVSPDKQIFH CFGCGAGGNVFSFLRQMEGYSFAESVSHLADKYQIDFPDDITVHSGARPESSGEQKMAEA HELLKKFYHHLLINTKEGQEALDYLLSRGFTKELINEFQIGYALDSWDFITKFLVKRGFS EAQMEKAGLLIRREDGSGYFDRFRNRVMFPIHDHHGAVVAFSGRALGSQQPKYMNSPETP LFHKSKLLYNFYKARLHIRKQERAVLFEGFADVISAVSSDVKESIATMGTSLTDDHVKIL RRNVEEIILCYDSDKAGYEATLKASELLQKKGCKVRVAMIPDGLDPDDYIKKFGGEKFKN DIIDASVTVMAFKMQYFRKGKNLSDEGDRLAYIKDVLKEISTLSGSLEQEVYVKQLASEF SLSQESLTEQLSVFSKQNKPADNSGETKTRRAHLTTKARQKRLRPAYENAERLLLAHMLR DRSVIKKVIDRVGFQFNIDEHRALAAYLYAFYEEGAELTPQHLMARVTDDHISQLLSDIL MLQVNQELSEAELSDYVKKVLNQRNWSMIKEKEAERAEAERQKDFLRAASLAQEIVTLNR SLK
experiment.sample.molecule[0].mw68.735
experiment.sample.molecule[0].total_mw68.735
experiment.sample.molecule[0].number_molecules1
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.name25 mM Tris-HCl,100 mM NaCl
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.comment25 mM Tris-HCl, pH 8.0, 100 mM NaCl, 1 mM DTT
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph8.0
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameFull length of DnaG (DNA Primase) from Bacillus subtilis
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].addressChengdu, China
experiment.contributor[0].affiliation[0].full_nameChengdu Institute of Biology, Chinese academy of Sciences
experiment.contributor[0].affiliation[0].webpagehttp://english.cib.cas.cn/
experiment.contributor[0].contributor_nameZhongchuan
experiment.contributor[0].contributor_surnameLiu
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2018-10-01
experiment.storage_temperature10.0
experiment.cell_temperature10.0
experiment.exposure_time1.0
experiment.number_of_frames20
experiment.wavelength0.154
experiment.sample_detector_distance2.0
experiment.concentration_min1.0
experiment.concentration_max7.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.084
experiment.s_max3.954
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].p_value0.554373
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fits[1].chi_square_value1.176
fits[1].p_value0.050515
fits[1].fit_residual_plotSASDEA8_fit2_fitresiduals_img.png
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fits[1].fit_lognull
fits[1].software_versionnull
fits[1].description
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of full length of DnaG (DNA Primase) from Bacillus subtilis in 25 mM Tris-HCl,100 mM NaCl, pH 8 were collected on the NCPSS BL19U2 beam line at the Shanghai Synchrotron Radiation Facility (SSRF; Shanghai, China) using a Dectris Pilatus 1M detector at a sample-detector distance of 2 m and at a wavelength of λ = 0.154 nm in the momentum transfer range of 0.2 < s < 4 1/nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 1 and 7 mg/ml were measured at 10°C. 20 successive 1 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 concentration were merged with the highest concentration high angle data to yield the final composite scattering curve.
tags[]
intensity_unitarbitrary
experimental_mw70.0
experimental_mw_errornull
guinier_i0_mw70.0
guinier_i0_mw_error2.0
porod_mw74.0
porod_mw_errornull
pddf_i090.9
pddf_i0_errornull
guinier_i089.22
guinier_i0_error0.24
pddf_rg3.94
pddf_rg_errornull
guinier_rg3.74
guinier_rg_error0.1
pddf_dmax14.5
pddf_dmax_errornull
porod_volume119.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first7
guinier_point_last56
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDEA8_datloglog_img.png
symmetrynull
last_modified2021-09-20T13:42:19.789088+02:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDEA8
statussuccess
started_at2026-08-11T15:48:55.812994+00:00
finished_at2026-08-11T15:49:08.339581+00:00
source_last_modified2021-09-20T13:42:19.789088+02:00
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查看完整 summary.json 原文
{
  "code": "SASDEA8",
  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/A",
  "project": {
    "title": "Full length of DnaG primase from Bacillus subtilis",
    "publication": null,
    "status": "released",
    "submitted_date": "2018-11-21",
    "released_date": "2021-09-20"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDEA8.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDEA8.dat",
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查看完整 manifest.json 原文
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