SASDCJ8

Glucose isomerase (WAXS)

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Merged 最后更新:2023-06-21T07:56:39.492710+02:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Glucose isomerase (WAXS)

浓度3.6 – 14.5 缓冲液 / pH100 mM tris pH 8.0, 100 mM NaCl, 1 mM MgCl2 / 8.0
实验温度10.0 设备 / 束线PETRA III / EMBL P12
波长0.062 nm曝光0.2 s × —

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Xylose isomerase
查看序列
NYQPTPEDRFTFGLWTVGWEGRDPFGDATRRALDPVESVRRLAELGAHGVTFHDDDLIPFGSSDSEREEHVKRFRQALDDTGMKVPMATTNLFTHPVFKDGGFTANDRDVRRYALRKTIRNIDLAVELGAETYVAWGGREGAESGGAKDVRDALDRMKEAFDLLGEYVTSQGYDIRFAIEPKPNEPRGDILLPTVGHALAFIERLERPELYGVNPEVGHEQMAGLNFPHGIAQALWAGKLFHIDLNGQNGIKYDQDLRFGAGDLRAAFWLVDLLESAGYSGPRHFDFKPPRTEDFDGVWASAAGCMRNYLILKERAAAFRADPEVQEALRASRLDELARPTAADGLQALLDDRSAFEEFDVDAAAARGMAFERLDQLAMDHLLGARG
proteinStreptomyces rubiginosusP24300—–—tetramer分子数 443.097 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
11706[3]0.0994177–18.0049 1/nm含误差列缺失 00sasbdb/entries/j8/sasdcj8/source/SASDCJ8.dat
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2. SASBDB 报告的指标 Reported Results

指标方法数值误差单位
i0Guinier7954.0812.5arbitrary
mwExperimental151.0—kDa
rgGuinier3.230.05nm

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100 mM tris pH 8.0, 100 mM NaCl, 1 mM MgCl2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2016-10-17储存 / 测量温度10.0 / 10.0
曝光时间0.2帧数—
波长0.062样品-探测器距离—
光源X-ray synchrotron探测器Pilatus 2M
机构 / 束线PETRA III / EMBL P12 · DESY; Hamburg, Germany
q 范围0.099 – 18.005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

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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pddfsasbdb/entries/j8/sasdcj8/source/SASDCJ8.outnot_listed——下载查看原文件
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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(3 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:154 个字段值
字段路径原始值
codeSASDCJ8
statusPublished
type_of_curveMerged
angular_unit1/nm
project.titleWAXS benchmark on standard proteins
project.publicationnull
project.statusreleased
project.submitted_date2017-10-17
project.released_date2021-09-13
pddf_datanull
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pddf_plotnull
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experiment.instrument.detector.resolutionnull
experiment.instrument.namePETRA III
experiment.instrument.cityDESY; Hamburg
experiment.instrument.countryGermany
experiment.instrument.beamline_nameEMBL P12
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_nameXylose isomerase
experiment.sample.molecule[0].short_nameGI
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experiment.sample.molecule[0].organismStreptomyces rubiginosus
experiment.sample.molecule[0].uniprot_codeP24300
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationtetramer
experiment.sample.molecule[0].molecular_typeprotein
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experiment.sample.molecule[0].total_mw172.388
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.name100 mM tris pH 8.0, 100 mM NaCl, 1 mM MgCl2
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
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.nameGlucose isomerase (WAXS)
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_nameEMBL-Hamburg
experiment.contributor[0].affiliation[0].addressNotkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany
experiment.contributor[0].affiliation[0].full_nameEuropean Molecular Biology Laboratory (EMBL) - Hamburg outstation
experiment.contributor[0].affiliation[0].webpagehttp://www.embl-hamburg.de/index.php
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experiment.contributor[0].contributor_surnamePetoukhov
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2016-10-17
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experiment.cell_temperature10.0
experiment.exposure_time0.2
experiment.number_of_framesnull
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experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].softwarePDB (Protein Data Bank)
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fits[0].models[0].bead_radius1.9
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fits[0].models[0].comment
fits[0].models[0].user102
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fits[0].chi_square_value29.49
fits[0].p_value0.0
fits[0].fit_residual_plotSASDCJ8_fit1_fitresiduals_img.png
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pddf_softwarenull
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i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of glucose isomerase (a.k.a. xylose isomerase) in 100 mM Tris, 100 mM NaCl, 1 mM MgCl2, pH 8 were collected on the EMBL-P12 beam line at the PETRA III storage ring (Hamburg, Germany) using a Pilatus 2M detector at a wavelength of λ = 0.062 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Solute concentrations ranging between 3.6 and 14.5 mg/ml were measured at 10°C. 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[0]benchmark
intensity_unitarbitrary
experimental_mw151.0
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i0null
pddf_i0_errornull
guinier_i07954.08
guinier_i0_error12.5
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pddf_rg_errornull
guinier_rg3.23
guinier_rg_error0.05
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pddf_dmax_errornull
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guinier_point_last25
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDCJ8_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:56:39.492710+02:00
bragg_peak[]
manifest.json:33 个字段值
字段路径原始值
codeSASDCJ8
statussuccess
started_at2026-08-11T15:54:15.763099+00:00
finished_at2026-08-11T15:54:24.049528+00:00
source_last_modified2023-06-21T07:56:39.492710+02:00
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查看完整 summary.json 原文
{
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  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/nm",
  "project": {
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    "publication": null,
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查看完整 manifest.json 原文
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