SASDDF9

Synechocystis orange carotenoid-binding protein devoid of the NTE (OCP-ΔNTE, orange form)

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Merged 最后更新:2023-11-13T09:35:03.156077+01:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Synechocystis orange carotenoid-binding protein devoid of the NTE (OCP-ΔNTE, orange form)

浓度0.4 – 3.11 缓冲液 / pH20 mM Tris, 150 mM NaCl, 3% glycerol / 7.6
实验温度10.0 设备 / 束线PETRA III / EMBL P12
波长0.124 nm曝光0.05 s × 20

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Orange carotenoid-binding protein
查看序列
>DNTEMRGSHHHHHHTDPATVPATIARFSQLNAEDQLALIWFAYLEMGKTLTIAAPGAASMQLAENALKEIQAMGPLQQTQAMCDLANRADTPLCRTYASWSPNIKLGFWYRLGELMEQGFVAPIPAGYQLSANANAVLATIQGLESGQQITVLRNAVVDMGFTAGKDGKRIAEPVVPPQDTASRTKVSIEGVTNATVLNYMDNLNANDFDTLIELFTSDGALQPPFQRPIVGKENVLRFFREECQNLKLIPERGVTEPAEDGFTQIKVTGKVQTPWFGGNVGMNIAWRFLLNPEGKIFFVAIDLLASPKELLNFAR
proteinSynechocystis sp. PCC 6803P74102—–—monomer分子数 134.28 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
11463[3]0.127035–4.16162 1/nm含误差列缺失 0144sasbdb/entries/f9/sasddf9/source/SASDDF9.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)7.4—nm
i0Guinier0.0330.00016arbitrary
i0P(r)0.033210.0001arbitrary
mwExperimental35.5—kDa
mwPorod35.5—kDa
porod_volumePorod56.8—nm³
rgGuinier2.240.05nm
rgP(r)2.2680.007nm

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, 150 mM NaCl, 3% glycerol缓冲液浓度—
pH7.6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2017-09-01储存 / 测量温度20.0 / 10.0
曝光时间0.05帧数20
波长0.124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0.127 – 4.162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
codeSASDDF9
statusPublished
type_of_curveMerged
angular_unit1/nm
project.titleOCP-FRP protein complex topologies suggest a mechanism for controlling high light tolerance in cyanobacteria.
project.publication.titleOCP-FRP protein complex topologies suggest a mechanism for controlling high light tolerance in cyanobacteria.
project.publication.author_listSluchanko NN, Slonimskiy YB, Shirshin EA, Moldenhauer M, Friedrich T, Maksimov EG
project.publication.journalNat Commun
project.publication.doi10.1038/s41467-018-06195-0
project.publication.pmid30250028
project.publication.published_date2018 Sep 24
project.statusreleased
project.submitted_date2018-07-04
project.released_date2018-08-07
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experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus 2M
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_nameOrange carotenoid-binding protein
experiment.sample.molecule[0].short_nameOCP
experiment.sample.molecule[0].sequence>dNTE MRGSHHHHHHTDPATVPATIARFSQLNAEDQLALIWFAYLEMGKTLTIAAPGAASMQLAENALKEIQAMGPLQQTQAMCDLANRADTPLCRTYASWSPNIKLGFWYRLGELMEQG FVAPIPAGYQLSANANAVLATIQGLESGQQITVLRNAVVDMGFTAGKDGKRIAEPVVPPQ DTASRTKVSIEGVTNATVLNYMDNLNANDFDTLIELFTSDGALQPPFQRPIVGKENVLRF FREECQNLKLIPERGVTEPAEDGFTQIKVTGKVQTPWFGGNVGMNIAWRFLLNPEGKIFF VAIDLLASPKELLNFAR
experiment.sample.molecule[0].organismSynechocystis sp. PCC 6803
experiment.sample.molecule[0].uniprot_codeP74102
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_sequenceMPFTIDSARGIFPNTLAADVVPATIARFSQLNAEDQLALIWFAYLEMGKTLTIAAPGAAS MQLAENALKEIQAMGPLQQTQAMCDLANRADTPLCRTYASWSPNIKLGFWYRLGELMEQG FVAPIPAGYQLSANANAVLATIQGLESGQQITVLRNAVVDMGFTAGKDGKRIAEPVVPPQ DTASRTKVSIEGVTNATVLNYMDNLNANDFDTLIELFTSDGALQPPFQRPIVGKENVLRF FREECQNLKLIPERGVTEPAEDGFTQIKVTGKVQTPWFGGNVGMNIAWRFLLNPEGKIFF VAIDLLASPKELLNFAR
experiment.sample.molecule[0].mw34.28
experiment.sample.molecule[0].total_mw34.28
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.name20 mM Tris, 150 mM NaCl, 3% glycerol
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.6
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameSynechocystis orange carotenoid-binding protein devoid of the NTE (OCP-ΔNTE, orange form)
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].addressMoscow, Russia
experiment.contributor[0].affiliation[0].full_nameA.N. Bach Institute of Biochemistry
experiment.contributor[0].affiliation[0].webpagehttp://www.fbras.ru/en/
experiment.contributor[0].contributor_nameNikolai
experiment.contributor[0].contributor_surnameSluchanko
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2017-09-01
experiment.storage_temperature20.0
experiment.cell_temperature10.0
experiment.exposure_time0.05
experiment.number_of_frames20
experiment.wavelength0.124
experiment.sample_detector_distancenull
experiment.concentration_min0.4
experiment.concentration_max3.11
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.127
experiment.s_max4.162
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].softwareCORAL
fits[0].chi_square_value1.153
fits[0].p_value0.021977
fits[0].fit_residual_plotSASDDF9_fit1_fitresiduals_img.png
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fits[0].software_versionnull
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of Synechocystis OCP-ΔNTE (orange form) in 20 mM Tris-HCl, 150 mM NaCl, 0.1 mM EDTA, 3 % v/v glycerol, pH 7.6 were collected at the EMBL-P12 bioSAXS beam line at the PETRA III storage ring (Hamburg, Germany) using a Pilatus 2M detector at a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). One solute concentration of 1.75 mg/ml was measured at 10°C. 20 successive 0.050 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 data scaled for protein concentration.
tags[]
intensity_unitarbitrary
experimental_mw35.5
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw35.5
porod_mw_errornull
pddf_i00.03321
pddf_i0_error0.0001
guinier_i00.033
guinier_i0_error0.00016
pddf_rg2.268
pddf_rg_error0.007
guinier_rg2.24
guinier_rg_error0.05
pddf_dmax7.4
pddf_dmax_errornull
porod_volume56.8
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first1
guinier_point_last165
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDDF9_datloglog_img.png
symmetrynull
last_modified2023-11-13T09:35:03.156077+01:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDDF9
statussuccess
started_at2026-08-11T16:13:29.696646+00:00
finished_at2026-08-11T16:13:40.404812+00:00
source_last_modified2023-11-13T09:35:03.156077+01:00
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查看完整 summary.json 原文
{
  "code": "SASDDF9",
  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/nm",
  "project": {
    "title": "OCP-FRP protein complex topologies suggest a mechanism for controlling high light tolerance in cyanobacteria.",
    "publication": {
      "title": "OCP-FRP protein complex topologies suggest a mechanism for controlling high light tolerance in cyanobacteria.",
      "author_list": "Sluchanko NN, Slonimskiy YB, Shirshin EA, Moldenhauer M, Friedrich T, Maksimov EG",
      "journal": "Nat Commun",
      "doi": "10.1038/s41467-018-06195-0",
      "pmid": "30250028",
      "published_date": "2018 Sep 24"
    },
    "status": "released",
    "submitted_date": "2018-07-04",
    "released_date": "2018-08-07"
  },
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          "long_name": "Orange carotenoid-binding protein",
          "short_name": "OCP",
          "sequence": ">dNTE\r\nMRGSHHHHHHTDPATVPATIARFSQLNAEDQLALIWFAYLEMGKTLTIAAPGAASMQLAENALKEIQAMGPLQQTQAMCDLANRADTPLCRTYASWSPNIKLGFWYRLGELMEQG FVAPIPAGYQLSANANAVLATIQGLESGQQITVLRNAVVDMGFTAGKDGKRIAEPVVPPQ DTASRTKVSIEGVTNATVLNYMDNLNANDFDTLIELFTSDGALQPPFQRPIVGKENVLRF FREECQNLKLIPERGVTEPAEDGFTQIKVTGKVQTPWFGGNVGMNIAWRFLLNPEGKIFF VAIDLLASPKELLNFAR",
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            "address": "Moscow, Russia",
            "full_name": "A.N. Bach Institute of Biochemistry",
            "webpage": "http://www.fbras.ru/en/"
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  "last_modified": "2023-11-13T09:35:03.156077+01:00",
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}
查看完整 manifest.json 原文
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