SASDBZ5

Enzyme I-Ntr (residues 170-424) in complex with NPr (residues 1-85)

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 · Enzyme I-Ntr (residues 170-424) in complex with NPr (residues 1-85)

浓度— – 3.76 缓冲液 / pH10 mM Tris 150 mM NaCl 0.5 mM EDTA / 7.5
实验温度27.0 设备 / 束线NIDDK, NIH / Rigaku BioSAXS-1000
波长0.154 nm曝光1800.0 s × 8

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Phosphocarrier protein NPr
查看序列
MTVKQTVEITNKLGMHARPAMKLFELMQGFDAEVLLRNDEGTEAEANSVIALLMLDSAKGRQIEVEATGPQEEEALAAVIALFNS
proteinEscherichia coliP0A9N01–85monomer分子数 19.25 kDa
Phosphoenolpyruvate-protein phosphotransferase PtsP
查看序列
RIRALPAAPGVAIAEGWQDATLPLMEQVYQASTLDPALERERLTGALEEAANEFRRYSKRFAAGAQKETAAIFDLYSHLLSDTRLRRELFAEVDKGSVAEWAVKTVIEKFAEQFAALSDNYLKERAGDLRALGQRLLFHLDDANQGPNAWPERFILVADELSATTLAELPQDRLVGVVVRDGAANSHAAIMVRALGIPTVMGADIQPSVLHRRTLIVDGYRGELLVDPEPVLLQEYQRLISEEIELSRLAEDDVN
proteinEscherichia coliP37177170–424monomer分子数 128.35 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
1460[3]0.0181333–0.679675 1/A含误差列缺失 00sasbdb/entries/z5/sasdbz5/source/SASDBZ5.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)8.16—Å
i0Guinier2.83——
i0P(r)2.87——
mwExperimental37.6—kDa
mwGuinier I(0)22.0—kDa
mwPorod30.6—kDa
porod_volumePorod52.0—ų
rgGuinier2.319—Å
rgP(r)2.373—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10 mM Tris 150 mM NaCl 0.5 mM EDTA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2015-01-30储存 / 测量温度4.0 / 27.0
曝光时间1800.0帧数8
波长0.154样品-探测器距离—
光源X-ray in house探测器Pilatus 100K
机构 / 束线NIDDK, NIH / Rigaku BioSAXS-1000 · Bethesda, MD, USA
q 范围0.181 – 6.797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:176 个字段值
字段路径原始值
codeSASDBZ5
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titleStructure of the NPr:EIN<sup>Ntr</sup> Complex: Mechanism for Specificity in Paralogous Phosphotransferase Systems.
project.publication.titleStructure of the NPr:EIN<sup>Ntr</sup> Complex: Mechanism for Specificity in Paralogous Phosphotransferase Systems.
project.publication.author_listStrickland M, Stanley AM, Wang G, Botos I, Schwieters CD, Buchanan SK, Peterkofsky A, Tjandra N
project.publication.journalStructure
project.publication.doi10.1016/j.str.2016.10.007
project.publication.pmid27839951
project.publication.published_date2016 Dec 6
project.statusreleased
project.submitted_date2016-08-29
project.released_date2016-11-11
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experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus 100K
experiment.instrument.detector.resolution172.0
experiment.instrument.nameNIDDK, NIH
experiment.instrument.cityBethesda, MD
experiment.instrument.countryUSA
experiment.instrument.beamline_nameRigaku BioSAXS-1000
experiment.instrument.beam_geometry
experiment.instrument.type_of_sourceX-ray in house
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_namePhosphocarrier protein NPr
experiment.sample.molecule[0].short_nameNPr
experiment.sample.molecule[0].sequenceMTVKQTVEITNKLGMHARPAMKLFELMQGFDAEVLLRNDEGTEAEANSVIALLMLDSAKG RQIEVEATGPQEEEALAAVIALFNS
experiment.sample.molecule[0].organismEscherichia coli
experiment.sample.molecule[0].uniprot_codeP0A9N0
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last85
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMTVKQTVEITNKLGMHARPAMKLFELMQGFDAEVLLRNDEGTEAEANSVIALLMLDSAKG RQIEVEATGPQEEEALAAVIALFNSGFDED
experiment.sample.molecule[0].mw9.25
experiment.sample.molecule[0].total_mw9.25
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.molecule[1].long_namePhosphoenolpyruvate-protein phosphotransferase PtsP
experiment.sample.molecule[1].short_nameEnzyme I-Ntr
experiment.sample.molecule[1].sequenceRIRALPAAPGV AIAEGWQDATLPLMEQVYQASTLDPALERERLTGALEEAANEFRRYSKRFAAGAQKETAA IFDLYSHLLSDTRLRRELFAEVDKGSVAEWAVKTVIEKFAEQFAALSDNYLKERAGDLRA LGQRLLFHLDDANQGPNAWPERFILVADELSATTLAELPQDRLVGVVVRDGAANSHAAIM VRALGIPTVMGADIQPSVLHRRTLIVDGYRGELLVDPEPVLLQEYQRLISEEIELSRLAE DDVN
experiment.sample.molecule[1].organismEscherichia coli
experiment.sample.molecule[1].uniprot_codeP37177
experiment.sample.molecule[1].uniprot_range_first170
experiment.sample.molecule[1].uniprot_range_last424
experiment.sample.molecule[1].oligomerizationmonomer
experiment.sample.molecule[1].molecular_typeprotein
experiment.sample.molecule[1].uniprot_sequenceMLTRLREIVEKVASAPRLNEALNILVTDICLAMDTEVCSVYLADHDRRCYYLMATRGLKK PRGRTVTLAFDEGIVGLVGRLAEPINLADAQKHPSFKYIPSVKEERFRAFLGVPIIQRRQ LLGVLVVQQRELRQYDESEESFLVTLATQMAAILSQSQLTALFGQYRQTRIRALPAAPGV AIAEGWQDATLPLMEQVYQASTLDPALERERLTGALEEAANEFRRYSKRFAAGAQKETAA IFDLYSHLLSDTRLRRELFAEVDKGSVAEWAVKTVIEKFAEQFAALSDNYLKERAGDLRA LGQRLLFHLDDANQGPNAWPERFILVADELSATTLAELPQDRLVGVVVRDGAANSHAAIM VRALGIPTVMGADIQPSVLHRRTLIVDGYRGELLVDPEPVLLQEYQRLISEEIELSRLAE DDVNLPAQLKSGERIKVMLNAGLSPEHEEKLGSRIDGIGLYRTEIPFMLQSGFPSEEEQV AQYQGMLQMFNDKPVTLRTLDVGADKQLPYMPISEENPCLGWRGIRITLDQPEIFLIQVR AMLRANAATGNLNILLPMVTSLDEVDEARRLIERAGREVEEMIGYEIPKPRIGIMLEVPS MVFMLPHLAKRVDFISVGTNDLTQYILAVDRNNTRVANIYDSLHPAMLRALAMIAREAEI HGIDLRLCGEMAGDPMCVAILIGLGYRHLSMNGRSVARAKYLLRRIDYAEAENLAQRSLE AQLATEVRHQVAAFMERRGMGGLIRGGL
experiment.sample.molecule[1].mw28.35
experiment.sample.molecule[1].total_mw28.35
experiment.sample.molecule[1].number_molecules1
experiment.sample.molecule[1].complex_stateFalse
experiment.sample.molecule[1].deuterationnull
experiment.sample.molecule[1].molecule_sourcebiological
experiment.sample.molecule[1].molecule_descriptionnull
experiment.sample.buffer.name10 mM Tris 150 mM NaCl 0.5 mM EDTA
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.5
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameEnzyme I-Ntr (residues 170-424) in complex with NPr (residues 1-85)
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_nameNIH
experiment.contributor[0].affiliation[0].addressBethesda, Maryland, USA
experiment.contributor[0].affiliation[0].full_nameNational Institutes of Health, Bethesda, MD
experiment.contributor[0].affiliation[0].webpagehttps://www.nih.gov/
experiment.contributor[0].contributor_nameMadeleine
experiment.contributor[0].contributor_surnameStrickland
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2015-01-30
experiment.storage_temperature4.0
experiment.cell_temperature27.0
experiment.exposure_time1800.0
experiment.number_of_frames8
experiment.wavelength0.154
experiment.sample_detector_distancenull
experiment.concentration_minnull
experiment.concentration_max3.76
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.181
experiment.s_max6.797
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].softwarePDB (Protein Data Bank)
fits[0].models[0].pdb_link[0].pdb_code5t1o
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fits[0].models[0].pdb_link[0].difference_with_modelidentical
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fits[0].models[0].type_of_modelatomic
fits[0].models[0].software_version2.8.3
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fits[0].models[0].bead_radiusnull
fits[0].models[0].loghttps://www.sasbdb.org/media/log_files/5t1o-100.log
fits[0].models[0].symmetry
fits[0].models[0].commentFig. 5J
fits[0].models[0].user154
fits[0].fit_unit1/A
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fits[0].softwarenull
fits[0].chi_square_value1.25
fits[0].p_value7.8e-05
fits[0].fit_residual_plotSASDBZ5_fit1_fitresiduals_img.png
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fits[0].fit_lognull
fits[0].software_versionnull
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionATSAS Primus
i0_calibration_standardnull
descriptionnull
experiment_descriptionSAXS data from solutions of Enzyme I-Ntr (residues 170-424) complexed with NPr (residues 1-85) in 10 mM Tris 150 mM NaCl 0.5 mM EDTA, pH 7.5 were collected using an in house X-ray source at the NIDDK, National Institutes of Health, Bethesda, MD using a wavelength of λ = 0.154 nm (I(s) vs s, where s = 4π sin θ/λ, and 2θ is the scattering angle). One solute concentration of 3.76 mg/ml was measured. Eight successive 1800 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged and the scattering of the solvent-blank was subtracted. The low angle data collected were obtained from a single concentration scattering curve.
tags[]
intensity_unitnull
experimental_mw37.6
experimental_mw_errornull
guinier_i0_mw22.0
guinier_i0_mw_errornull
porod_mw30.6
porod_mw_errornull
pddf_i02.87
pddf_i0_errornull
guinier_i02.83
guinier_i0_errornull
pddf_rg2.373
pddf_rg_errornull
guinier_rg2.319
guinier_rg_errornull
pddf_dmax8.16
pddf_dmax_errornull
porod_volume52.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first7
guinier_point_last25
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDBZ5_datloglog_img.png
symmetrynull
last_modified2019-12-06T13:07:15.624532+01:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDBZ5
statussuccess
started_at2026-08-11T14:59:29.698725+00:00
finished_at2026-08-11T14:59:38.007132+00:00
source_last_modified2019-12-06T13:07:15.624532+01:00
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查看完整 summary.json 原文
{
  "code": "SASDBZ5",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "Structure of the NPr:EIN<sup>Ntr</sup> Complex: Mechanism for Specificity in Paralogous Phosphotransferase Systems.",
    "publication": {
      "title": "Structure of the NPr:EIN<sup>Ntr</sup> Complex: Mechanism for Specificity in Paralogous Phosphotransferase Systems.",
      "author_list": "Strickland M, Stanley AM, Wang G, Botos I, Schwieters CD, Buchanan SK, Peterkofsky A, Tjandra N",
      "journal": "Structure",
      "doi": "10.1016/j.str.2016.10.007",
      "pmid": "27839951",
      "published_date": "2016 Dec 6"
    },
    "status": "released",
    "submitted_date": "2016-08-29",
    "released_date": "2016-11-11"
  },
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            "short_name": "NIH",
            "address": "Bethesda, Maryland, USA",
            "full_name": "National Institutes of Health, Bethesda, MD",
            "webpage": "https://www.nih.gov/"
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        "contributor_name": "Madeleine",
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    "concentration_method": null,
    "concentration_unit": null,
    "date": "2015-01-30",
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          "comment": "Fig. 5J",
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  "last_modified": "2019-12-06T13:07:15.624532+01:00",
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}
查看完整 manifest.json 原文
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