SASDC65

Plasmodium falciparum p23B

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Merged 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 · Plasmodium falciparum p23B

浓度2.0 – 3.0 缓冲液 / pH25 mM Tris-HCl, 100 mM NaCl, 2 mM EDTA, 1 mM B-mercaptoethanol / 7.4
实验温度20.0 设备 / 束线Brazilian Synchrotron Light Laboratory / SAXS2 Beamline
波长0.1488 nm曝光180.0 s × 1

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Co-chaperone p23
查看序列
GSHMQKLYPIVLWAQKKECLYLTIELQDIENVKIDLKEDKLYFYGTKDKNEYEFTLNFLKPINVEESKYSTQRNIKFKIIKKEQERWKTLNNDGKKHWVKCDWNSWVDTDEEDKANDYDDMGMNSFGGMGGMPDMSQFGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGMGDLDFSKLGNMGGDMPNFAGLGGMDQFKNMPNMNNMNDDDSSSYGDDTSDEEDDDDEEDEDVEVDNKTLDSDKLKDEENKIPDAAVEVQEPVA
proteinPlasmodium falciparumQ8IKU1—–—monomer分子数 130.932 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
1238[3]0.1837921–3.180686 1/nm含误差列缺失 00sasbdb/entries/65/sasdc65/source/SASDC65.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)13.05.0nm
i0Guinier0.0197630.0011—
i0P(r)0.020.000479—
mwExperimental32.0—kDa
rgGuinier3.6920.3nm
rgP(r)3.970.08nm

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

拟合 1 · DAMMIN 5.3

χ²:0.681CorMap p:0.000835单位:1/A
模型名称 / 类型软件对称性模型 MWPDB 声明来源文件
1—dummyDAMFILT 5.0P145.468—模型 图片
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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, 2 mM EDTA, 1 mM B-mercaptoethanol缓冲液浓度—
pH7.4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2015-05-26储存 / 测量温度4.0 / 20.0
曝光时间180.0帧数1
波长0.1488样品-探测器距离1.0
光源X-ray synchrotron探测器MAR 165 CCD
机构 / 束线Brazilian Synchrotron Light Laboratory / SAXS2 Beamline · Campinas, Brazil
q 范围0.184 – 3.181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/65/sasdc65/source/SASDC65.zipdownloaded2109967301b51961899df0395708630782cbab414740ba9718c037a2f4b99240b5bd1下载查看原文件源站
pddfsasbdb/entries/65/sasdc65/source/SASDC65.outdownloaded24243a5ad4194bba71a0877eddbbf3cc43518f2ea71374f3dc2cfcb6c1bc466a2e5f3下载查看原文件源站
sascifsasbdb/entries/65/sasdc65/source/SASDC65.sascifdownloaded106445a26e13faab0acef066377aab7b556d73e1e0c4f3716e1a413310834d588fa787下载查看原文件源站
summarysasbdb/entries/65/sasdc65/source/summary.jsondownloaded7925db22eea10c69bbbd1b75bdb03f82fd4c154b9ff688dcd7f241af07c264f4aad7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(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
codeSASDC65
statusPublished
type_of_curveMerged
angular_unit1/nm
project.titleComparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome.
project.publication.titleComparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome.
project.publication.author_listSilva NSM, Seraphim TV, Minari K, Barbosa LRS, Borges JC
project.publication.journalInt J Biol Macromol
project.publication.doi10.1016/j.ijbiomac.2017.11.161
project.publication.pmid29191421
project.publication.published_date2018 Mar
project.statusreleased
project.submitted_date2017-06-17
project.released_date2017-12-05
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDC65.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDC65.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC65_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC65_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDC65_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDC65_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDC65.sascif
experiment.instrument.detector.typenull
experiment.instrument.detector.nameMAR 165 CCD
experiment.instrument.detector.resolutionnull
experiment.instrument.nameBrazilian Synchrotron Light Laboratory
experiment.instrument.cityCampinas
experiment.instrument.countryBrazil
experiment.instrument.beamline_nameSAXS2 Beamline
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_nameCo-chaperone p23
experiment.sample.molecule[0].short_namePfp23B
experiment.sample.molecule[0].sequenceGSHMQKLYPIVLWAQKKECLYLTIELQDIENVKIDLKEDKLYFYGTKDKNEYEFTLNFLKPINVEESKYSTQR NIKFKIIKKEQERWKTLNNDGKKHWVKCDWNSWVDTDEEDKANDYDDMGMNSFGGMGGMPDMSQFGNMGG LGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGMGDLDFSKLGNMGGDMPNFAGLGGMDQF KNMPNMNNMNDDDSSSYGDDTSDEEDDDDEEDEDVEVDNKTLDSDKLKDEENKIPDAAVEVQEPVA
experiment.sample.molecule[0].organismPlasmodium falciparum
experiment.sample.molecule[0].uniprot_codeQ8IKU1
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_sequenceMPLYPIVLWAQKKECLYLTIELQDIENVKIDLKEDKLYFYGTKDKNEYEFTLNFLKPINV EESKYSTQRNIKFKIIKKEQERWKTLNNDGKKHWVKCDWNSWVDTDEEDKANDYDDMGMN SFGGMGGMPDMSQFGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMG GMGDLDFSKLGNMGGDMPNFAGLGGMDQFKNMPNMNNMNDDDSSSYGDDTSDEEDDDDEE DEDVEVDNKTLDSDKLKDEENKIPDAAVEVQEPVA
experiment.sample.molecule[0].mw30.932
experiment.sample.molecule[0].total_mw30.932
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, 2 mM EDTA, 1 mM B-mercaptoethanol
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.4
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.namePlasmodium falciparum p23B
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].addressSão Carlos - SP - Brasil
experiment.contributor[0].affiliation[0].full_nameInstituto de Química de São Carlos
experiment.contributor[0].affiliation[0].webpage
experiment.contributor[0].contributor_nameJúlio
experiment.contributor[0].contributor_surnameBorges
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2015-05-26
experiment.storage_temperature4.0
experiment.cell_temperature20.0
experiment.exposure_time180.0
experiment.number_of_frames1
experiment.wavelength0.1488
experiment.sample_detector_distance1.0
experiment.concentration_min2.0
experiment.concentration_max3.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.184
experiment.s_max3.181
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDC65_fit1_model1_img.png
fits[0].models[0].softwareDAMFILT
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modeldummy
fits[0].models[0].software_version5.0
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fits[0].models[0].model_mw45.468
fits[0].models[0].bead_radius3.0
fits[0].models[0].lognull
fits[0].models[0].symmetryP1
fits[0].models[0].commentAverage of 10 models generated by DAMMIN
fits[0].models[0].user161
fits[0].fit_unit1/A
fits[0].fit_plothttps://www.sasbdb.org/media/fitting_files/scattering_plots/SASDC65_fit1_fit_img.png
fits[0].softwareDAMMIN
fits[0].chi_square_value0.681
fits[0].p_value0.000835
fits[0].fit_residual_plotSASDC65_fit1_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDC65_fit1.fir
fits[0].fit_lognull
fits[0].software_version5.3
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version4.6
i0_calibration_standardnull
descriptionnull
experiment_descriptionSmall angle X-ray scattering measurements (SAXS) were performed at the SAXS2 beamline located at the Brazilian Synchrotron Light Laboratory (LNLS), Campinas, São Paulo, Brazil. The X-ray scattering data (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle; λ = 0.1488 nm) were acquired using a two-dimension position-sensitive MARR-CCD detector and a sample-to-detector distance of ~1000 mm, corresponding to the q-range 0 < q < 0.35. In order to checking for protein aggregation or concentration-dependent effects, samples were prepared at various protein concentrations (2 mg/mL and 3 mg/mL) in 25 mM Tris-HCl (pH 7.5) buffer, containing 150 mM NaCl, 2 mM EDTA and 1 mM β-mercaptoethanol. Samples were exposed to X-ray at different time frames (5 x 30 seconds, and 180 seconds) to investigate for X-ray damage. No effects of protein concentration or X-ray damage were detected. The model depicts the averaged spatial representation of the protein (DAMFILT occupancy and volume-corrected bead model).
tags[]
intensity_unitnull
experimental_mw32.0
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i00.02
pddf_i0_error0.000479
guinier_i00.019763
guinier_i0_error0.0011
pddf_rg3.97
pddf_rg_error0.08
guinier_rg3.692
guinier_rg_error0.3
pddf_dmax13.0
pddf_dmax_error5.0
porod_volumenull
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first4
guinier_point_last15
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDC65_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
codeSASDC65
statussuccess
started_at2026-08-11T14:39:43.565164+00:00
finished_at2026-08-11T14:39:51.967651+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": "SASDC65",
  "status": "Published",
  "type_of_curve": "Merged",
  "angular_unit": "1/nm",
  "project": {
    "title": "Comparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome.",
    "publication": {
      "title": "Comparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome.",
      "author_list": "Silva NSM, Seraphim TV, Minari K, Barbosa LRS, Borges JC",
      "journal": "Int J Biol Macromol",
      "doi": "10.1016/j.ijbiomac.2017.11.161",
      "pmid": "29191421",
      "published_date": "2018 Mar"
    },
    "status": "released",
    "submitted_date": "2017-06-17",
    "released_date": "2017-12-05"
  },
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  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDC65.dat",
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  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDC65_pofr_img.png",
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  "experiment": {
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        "name": "MAR 165 CCD",
        "resolution": null
      },
      "name": "Brazilian Synchrotron Light Laboratory",
      "city": "Campinas",
      "country": "Brazil",
      "beamline_name": "SAXS2 Beamline",
      "beam_geometry": "",
      "type_of_source": "X-ray synchrotron",
      "point_source": null,
      "line_collimation": null,
      "sample_path_length": null,
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      "line_collimation_integrationwidth": null,
      "xray_energy": null,
      "beam_profile_ah": null,
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    },
    "sample": {
      "molecule": [
        {
          "long_name": "Co-chaperone p23",
          "short_name": "Pfp23B",
          "sequence": "GSHMQKLYPIVLWAQKKECLYLTIELQDIENVKIDLKEDKLYFYGTKDKNEYEFTLNFLKPINVEESKYSTQR\r\nNIKFKIIKKEQERWKTLNNDGKKHWVKCDWNSWVDTDEEDKANDYDDMGMNSFGGMGGMPDMSQFGNMGG\r\nLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGLGNMGGMGDLDFSKLGNMGGDMPNFAGLGGMDQF\r\nKNMPNMNNMNDDDSSSYGDDTSDEEDDDDEEDEDVEVDNKTLDSDKLKDEENKIPDAAVEVQEPVA",
          "organism": "Plasmodium falciparum",
          "uniprot_code": "Q8IKU1",
          "uniprot_range_first": null,
          "uniprot_range_last": null,
          "oligomerization": "monomer",
          "molecular_type": "protein",
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      "name": "Plasmodium falciparum p23B",
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            "address": "São Carlos - SP - Brasil",
            "full_name": "Instituto de Química de São Carlos",
            "webpage": ""
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        "contributor_name": "Júlio",
        "contributor_surname": "Borges",
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    "concentration_unit": null,
    "date": "2015-05-26",
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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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