SASDCR7

TET12(1.10)SN-c6

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Single concentration 最后更新:2023-06-21T07:56:18.120449+02:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · TET12(1.10)SN-c6

浓度0.9 – 3.6 缓冲液 / pH20 mM Tris 150 mM NaCl 10% glycerol / 7.5
实验温度20.0 设备 / 束线PETRA III / EMBL P12
波长0.124 nm曝光0.045 s × 20

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
TET12(1.10)SN-c6
查看序列
MLEEELKQLEEELQAIEEQLAQLQWKAQARKEKLAQLKEKLGKGDGSPEDEIQQLEEEISQLEQKNSELKEKNQELKYGKGDGDIEQELERAKESIRRLEQEVNQERSRMQYLQTLLEKGKGDGQLEDKVEELLSKNYHLENEVERLKKLVGGKGDGLEEELKQLEEELQAIEEQLAQLQWKAQARKEKLAQLKEKLGKGDGSPEDEIQQLEEKNSQLKQEISQLEEKNQELKYGDGKGQLEDKVEELLSKNYHLENEVERLKKLVGGDGKGSPEDKISQLKEKIQQLKQENQQLEEENSQLEYGDGKGSPEDENSQLEEKISQLKQKNSELKEEIQQLEYGDGKGSPEDKISELKEENQQLEQKIQQLKEENSQLEYGKGDGDIEQELERAKESIRRLEQEVNQERSRMQYLQTLLEKGKGDGSPEDKNSELKEEIQQLEEENQQLEEKISELKYLEHHHHHHHH
proteinsynthetic construct——–—monomer分子数 154.345 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
11196[3]0.2035365–6.715565 1/nm含误差列缺失 0125sasbdb/entries/r7/sasdcr7/source/SASDCR7.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)11.52.0nm
i0Guinier5617.072.0—
i0P(r)5596.021.0—
mwExperimental42.0—kDa
mwGuinier I(0)42.04.0kDa
mwPorod84.0—kDa
porod_volumePorod145.0—nm³
rgGuinier3.560.05nm
rgP(r)3.570.01nm

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 10% glycerol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2016-06-10储存 / 测量温度10.0 / 20.0
曝光时间0.045帧数20
波长0.124样品-探测器距离2.0
光源X-ray synchrotron探测器Pilatus 1M-W
机构 / 束线PETRA III / EMBL P12 · DESY; Hamburg, Germany
q 范围0.204 – 6.716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/r7/sasdcr7/source/SASDCR7.zipdownloaded122818ecbdc394497c7e79d1a3d356c95948464209ce545855bf6d4577dc16eebba44c下载查看原文件源站
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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
codeSASDCR7
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleDesign of coiled-coil protein-origami cages that self-assemble in vitro and in vivo.
project.publication.titleDesign of coiled-coil protein-origami cages that self-assemble in vitro and in vivo.
project.publication.author_listLjubetič A, Lapenta F, Gradišar H, Drobnak I, Aupič J, Strmšek Ž, Lainšček D, Hafner-Bratkovič I, Majerle A, Krivec N, Benčina M, Pisanski T, Veličković TĆ, Round A, Carazo JM, Melero R, Jerala R
project.publication.journalNat Biotechnol
project.publication.doi10.1038/nbt.3994
project.publication.pmid29035374
project.publication.published_date2017 Nov
project.statusreleased
project.submitted_date2017-09-28
project.released_date2017-10-09
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experiment.instrument.detector.namePilatus 1M-W
experiment.instrument.detector.resolution0.172
experiment.instrument.namePETRA III
experiment.instrument.cityDESY; Hamburg
experiment.instrument.countryGermany
experiment.instrument.beamline_nameEMBL P12
experiment.instrument.beam_geometryPoint
experiment.instrument.type_of_sourceX-ray synchrotron
experiment.instrument.point_sourcenull
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experiment.instrument.sample_path_lengthnull
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experiment.instrument.beam_profile_ahnull
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experiment.sample.molecule[0].short_namenull
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experiment.sample.molecule[0].organismsynthetic construct
experiment.sample.molecule[0].uniprot_codenull
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_sequencenull
experiment.sample.molecule[0].mw54.345
experiment.sample.molecule[0].total_mw54.345
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 10% 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.ph7.5
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameTET12(1.10)SN-c6
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].addressnull
experiment.contributor[0].affiliation[0].full_nameNational Research Council
experiment.contributor[0].affiliation[0].webpagenull
experiment.contributor[0].contributor_nameJana
experiment.contributor[0].contributor_surnameAupič
experiment.contributor[0].orcid
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2016-06-10
experiment.storage_temperature10.0
experiment.cell_temperature20.0
experiment.exposure_time0.045
experiment.number_of_frames20
experiment.wavelength0.124
experiment.sample_detector_distance2.0
experiment.concentration_min0.9
experiment.concentration_max3.6
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.204
experiment.s_max6.716
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].softwareMODELLER
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modelatomic
fits[0].models[0].software_version9.16
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fits[0].models[0].model_mw54.3
fits[0].models[0].bead_radius1.9
fits[0].models[0].lognull
fits[0].models[0].symmetry
fits[0].models[0].comment
fits[0].models[0].user201
fits[0].fit_unit1/A
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fits[0].softwareOther
fits[0].chi_square_value1.88
fits[0].p_value0.0
fits[0].fit_residual_plotSASDCR7_fit1_fitresiduals_img.png
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fits[0].software_versionPepsiSAXS
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of TET12(1.10)SN-c6 in 20 mM Tris 150 mM NaCl 10% glycerol, pH 7.5 were collected on the P12 beam line at the PETRA III storage ring (Hamburg, Germany) using a Pilatus 1M detector at a sample-detector distance of 2 m and at a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ and 2θ is the scattering angle). Solute concentrations ranging between 0.9 and 3.6 mg/ml were measured at 20°C. 20 successive 0.045 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 different curves were scaled for protein concentration. To detect any potential concentration dependent effects a series consisting of 3 concentrations was measured. The highest concentration was 3.6 mg/ml, while the lowest concentrations was 0.9 mg/ml. For each sample data was collected over 20 frames lasting 0.05 s. Frames were carefully inspected for radiation damage and those not showing any radiation damage were then averaged. Before and after each sample scattering, matching buffer was measured and subtracted from sample scattering. The protein did not exhibit any concentration dependent effects, therefore the curve measured for the sample with the highest concentration was used for subsequent analysis. Scattering curves were analyzed using PRIMUS software.
tags[]
intensity_unitnull
experimental_mw42.0
experimental_mw_errornull
guinier_i0_mw42.0
guinier_i0_mw_error4.0
porod_mw84.0
porod_mw_errornull
pddf_i05596.0
pddf_i0_error21.0
guinier_i05617.0
guinier_i0_error72.0
pddf_rg3.57
pddf_rg_error0.01
guinier_rg3.56
guinier_rg_error0.05
pddf_dmax11.5
pddf_dmax_error2.0
porod_volume145.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first14
guinier_point_last30
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDCR7_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:56:18.120449+02:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDCR7
statussuccess
started_at2026-08-11T16:41:18.851002+00:00
finished_at2026-08-11T16:41:27.578145+00:00
source_last_modified2023-06-21T07:56:18.120449+02:00
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查看完整 summary.json 原文
{
  "code": "SASDCR7",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Design of coiled-coil protein-origami cages that self-assemble in vitro and in vivo.",
    "publication": {
      "title": "Design of coiled-coil protein-origami cages that self-assemble in vitro and in vivo.",
      "author_list": "Ljubetič A, Lapenta F, Gradišar H, Drobnak I, Aupič J, Strmšek Ž, Lainšček D, Hafner-Bratkovič I, Majerle A, Krivec N, Benčina M, Pisanski T, Veličković TĆ, Round A, Carazo JM, Melero R, Jerala R",
      "journal": "Nat Biotechnol",
      "doi": "10.1038/nbt.3994",
      "pmid": "29035374",
      "published_date": "2017 Nov"
    },
    "status": "released",
    "submitted_date": "2017-09-28",
    "released_date": "2017-10-09"
  },
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      },
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      "country": "Germany",
      "beamline_name": "EMBL P12",
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      "type_of_source": "X-ray synchrotron",
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    "sample": {
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          "uniprot_range_first": null,
          "uniprot_range_last": null,
          "oligomerization": "monomer",
          "molecular_type": "protein",
          "uniprot_sequence": null,
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          "total_mw": 54.345,
          "number_molecules": 1,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
      ],
      "buffer": {
        "name": "20 mM Tris 150 mM NaCl 10% glycerol",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 7.5,
        "deuteration": null
      },
      "purity_method": null,
      "name": "TET12(1.10)SN-c6",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": null,
            "address": null,
            "full_name": "National Research Council",
            "webpage": null
          }
        ],
        "contributor_name": "Jana",
        "contributor_surname": "Aupič",
        "orcid": ""
      }
    ],
    "concentration_method": null,
    "concentration_unit": null,
    "date": "2016-06-10",
    "storage_temperature": 10.0,
    "cell_temperature": 20.0,
    "exposure_time": 0.045,
    "number_of_frames": 20,
    "wavelength": 0.124,
    "sample_detector_distance": 2.0,
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    "concentration_max": 3.6,
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    "s_min": 0.204,
    "s_max": 6.716,
    "total_exposure_time": null,
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        {
          "model_plot": "https://www.sasbdb.org/media/pdb_file/images/SASDCR7_fit1_model1_img.png",
          "software": "MODELLER",
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          "model_title": null,
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          "symmetry": "",
          "comment": "",
          "user": 201
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      "fit_unit": "1/A",
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      "software": "Other",
      "chi_square_value": 1.88,
      "p_value": 0.0,
      "fit_residual_plot": "SASDCR7_fit1_fitresiduals_img.png",
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  "pddf_point_first": null,
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  "i0_calibration_standard_data": null,
  "intensities_log_log_plot": "SASDCR7_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2023-06-21T07:56:18.120449+02:00",
  "bragg_peak": []
}
查看完整 manifest.json 原文
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