SASDBG3

Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)

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 · Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)

浓度1.1 – 5.5 缓冲液 / pH20 mM Tris 150 mM NaCl 3% glycerol / 7.4
实验温度— 设备 / 束线ESRF / ID14-3
波长0.09 nm曝光1.0 s × 10

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Mouse Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)
查看序列
GPMACPPKCRCEKLLFYCDSQGFHSVPNGLPSQLLGLSLRHNQLQSLPNGVFDKLTQLTWLHLDHNQLQSLPNGVFDKLTKLTELILSSNQLQSLPNGTFDKLTNLQNLDLSFNQLQSLPNGVFDKLTNLQTLHLRSNQLQSLPNGVFDKLTSLTFLDLSTNQLQSLPNGVFDKLTNLRELHLEHNQLQSLPNGVFDKLTSLTTLFLQWNQLQSLPNGVFDKLTNLEKLDLTGNQLQSLPNGVFDKLTNLKILLLDNNQLQSLPNGVFDKLKSLTTVGLSGNLWECSPRVCALASWLGSFQGRWEHSILCHSPDHTQGEDILDAVHGFQLCWNLSTTVTAMATTYRDPTTEKLVEKY
proteinMus musculusQ8BGA330–380monomer分子数 140.01 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
1991[3]0.0785365–4.71044 1/nm含误差列缺失 00sasbdb/entries/g3/sasdbg3/source/SASDBG3.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)13.1—nm
i0Guinier59.2——
i0P(r)59.3——
mwExperimental50.0—kDa
mwPorod40.0—kDa
rgGuinier3.31—nm
rgP(r)3.34—nm

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20.0 mM
pH7.4添加剂150 mM NaCl, 3% glycerol
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2015-09-27储存 / 测量温度20.0 / —
曝光时间1.0帧数10
波长0.09样品-探测器距离2.87
光源X-ray synchrotron探测器Pilatus 1M
机构 / 束线ESRF / ID14-3 · Grenoble, France
q 范围0.079 – 4.71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
curvesasbdb/entries/g3/sasdbg3/source/SASDBG3.datdownloaded46055dd60cb94786d777424562c751271b0951d5328fcbfdb10a55810038e8ccb2a95下载查看原文件源站
full_entry_zipsasbdb/entries/g3/sasdbg3/source/SASDBG3.zipdownloaded51433f039f5ba16e18aab7b7167f993d5e522a555370a6512fb313e3cdec5fde75ea8下载查看原文件源站
pddfsasbdb/entries/g3/sasdbg3/source/SASDBG3.outdownloaded863859178989c82b8ff90ca52a003c50c76c1078b81b916038102c848a70406490b9e下载查看原文件源站
sascifsasbdb/entries/g3/sasdbg3/source/SASDBG3.sascifdownloaded21798996e2a188dfcf137450f7f6b6e103404a47f4618c83a5d6c1076cdf2db42d9d68下载查看原文件源站
summarysasbdb/entries/g3/sasdbg3/source/summary.jsondownloaded8138889d4509f7d710d746a6e28853bccd08cb0d7e41d7f3ec1259bddf299a5f5ca0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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  "zip_member_count": 4,
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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
codeSASDBG3
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleCrystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding.
project.publication.titleCrystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding.
project.publication.author_listPaatero A, Rosti K, Shkumatov AV, Sele C, Brunello C, Kysenius K, Singha P, Jokinen V, Huttunen H, Kajander T
project.publication.journalBiochemistry
project.publication.doi10.1021/acs.biochem.5b00971
project.publication.pmid26785044
project.publication.published_date2016 Feb 16
project.statusreleased
project.submitted_date2016-01-25
project.released_date2016-01-26
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDBG3.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDBG3.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBG3_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBG3_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBG3_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBG3_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDBG3.sascif
experiment.instrument.detector.typeDectris
experiment.instrument.detector.namePilatus 1M
experiment.instrument.detector.resolution172.0
experiment.instrument.nameESRF
experiment.instrument.cityGrenoble
experiment.instrument.countryFrance
experiment.instrument.beamline_nameID14-3
experiment.instrument.beam_geometry
experiment.instrument.type_of_sourceX-ray synchrotron
experiment.instrument.point_sourceTrue
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_nameMouse Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)
experiment.sample.molecule[0].short_namecLRRTM2 30-380
experiment.sample.molecule[0].sequenceGPMACPPKCRCEKLLFYCDSQGFHSVPNGLPSQLLGLSLRHNQLQSLPNGVFDKLTQLTWLHLDHNQLQSLPNGVFDKLTKLTELILSSNQLQSLPNGTFDKLTNLQNLDLSFNQLQSLPNGVFDKLTNLQTLHLRSNQLQSLPNGVFDKLTSLTFLDLSTNQLQSLPNGVFDKLTNLRELHLEHNQL QSLPNGVFDKLTSLTTLFLQWNQLQSLPNGVFDKLTNLEKLDLTGNQLQSLPNGVFDKLTNLKILLLDNNQLQSLPNGVFDKLKSLTTVGLSGNLWECSPRVCALASWLGSFQGRWEHSILCHSPDHTQGEDILDAVHGFQLCWNLSTTVTAMATTYRDPTTEKLVEKY
experiment.sample.molecule[0].organismMus musculus
experiment.sample.molecule[0].uniprot_codeQ8BGA3
experiment.sample.molecule[0].uniprot_range_first30
experiment.sample.molecule[0].uniprot_range_last380
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMGLHFKWPLGAPMLAAIYAMSVVLKMLPALGMACPPKCRCEKLLFYCDSQGFHSVPNATD KGSLGLSLRHNHITALERDQFASFSQLTWLHLDHNQISTVKEDAFQGLYKLKELILSSNK IFYLPNTTFTQLINLQNLDLSFNQLSSLHPELFYGLRKLQTLHLRSNSLRTIPVRLFWDC RSLEFLDLSTNRLRSLARNGFAGLIKLRELHLEHNQLTKINFAHFLRLSSLHTLFLQWNK ISNLTCGMDWTWSTLEKLDLTGNEIKAIDLTVFETMPNLKILLMDNNKLNSLDSKILNSL KSLTTVGLSGNLWECSPRVCALASWLGSFQGRWEHSILCHSPDHTQGEDILDAVHGFQLC WNLSTTVTAMATTYRDPTTEYTKISSSSYHVGDKEIPTTAGIAVTTEEHFPEPDNAIFTQ RVITGTMALLFSFFFIIFIVFISRKCCPPTLRRIRQCSMIQNHRQLRSQTRLHMSNMSDQ GPYNEYEPTHEGPFIIINGYGQCKCQQLPYKECEV
experiment.sample.molecule[0].mw40.01
experiment.sample.molecule[0].total_mw40.01
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_unitmM
experiment.sample.buffer.commentnull
experiment.sample.buffer.additive150 mM NaCl, 3% glycerol
experiment.sample.buffer.concentration20.0
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.4
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameLeucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)
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_nameVUB
experiment.contributor[0].affiliation[0].addressPleinlaan 2 1050 Brussel
experiment.contributor[0].affiliation[0].full_nameVrije Universiteit Brussel
experiment.contributor[0].affiliation[0].webpagehttp://www.vub.ac.be/
experiment.contributor[0].contributor_nameAlexander
experiment.contributor[0].contributor_surnameShkumatov
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2015-09-27
experiment.storage_temperature20.0
experiment.cell_temperaturenull
experiment.exposure_time1.0
experiment.number_of_frames10
experiment.wavelength0.09
experiment.sample_detector_distance2.87
experiment.concentration_min1.1
experiment.concentration_max5.5
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.079
experiment.s_max4.71
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDBG3_fit1_model1_img.png
fits[0].models[0].softwareDAMMIN
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modeldummy
fits[0].models[0].software_version
fits[0].models[0].model_datahttps://www.sasbdb.org/media/pdb_file/SASDBG3_fit1_model1.pdb
fits[0].models[0].model_mw48.915
fits[0].models[0].bead_radius2.75
fits[0].models[0].lognull
fits[0].models[0].symmetry
fits[0].models[0].comment
fits[0].models[0].user104
fits[0].fit_unit1/A
fits[0].fit_plothttps://www.sasbdb.org/media/fitting_files/scattering_plots/SASDBG3_fit1_fit_img.png
fits[0].softwarenull
fits[0].chi_square_value0.7
fits[0].p_value0.0
fits[0].fit_residual_plotSASDBG3_fit1_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDBG3_fit1.fir
fits[0].fit_lognull
fits[0].software_versionnull
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionnull
i0_calibration_standardnull
descriptionnull
experiment_descriptionX-ray synchrotron radiation scattering data from solutions of Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct) in 20 mM Tris 150 mM NaCl, 3% glycerol were collected on the ID14-3 beam line at the ESRF storage ring (Grenoble, France) using a 2D Photon counting Pilatus 1M pixel detector (s = 4π sin θ/λ, where 2θ is the scattering angle). Different solute concentrations in the range 1.10-5.50 mg/ml were measured. 10 successive 1 second frames were collected at a sample temperature of 20 degrees centigrade. SAXS data from the samples and corresponding matched solvent blank 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 merged concentration scattering curve.
tags[]
intensity_unitnull
experimental_mw50.0
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw40.0
porod_mw_errornull
pddf_i059.3
pddf_i0_errornull
guinier_i059.2
guinier_i0_errornull
pddf_rg3.34
pddf_rg_errornull
guinier_rg3.31
guinier_rg_errornull
pddf_dmax13.1
pddf_dmax_errornull
porod_volumenull
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_firstnull
guinier_point_lastnull
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDBG3_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
codeSASDBG3
statussuccess
started_at2026-08-11T13:59:38.378061+00:00
finished_at2026-08-11T13:59:47.069983+00:00
source_last_modified2019-12-06T13:07:15.624532+01:00
files[0].statusdownloaded
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files[1].statusdownloaded
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files[4].zip_validationcentral_directory_readable
查看完整 summary.json 原文
{
  "code": "SASDBG3",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Crystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding.",
    "publication": {
      "title": "Crystal Structure of an Engineered LRRTM2 Synaptic Adhesion Molecule and a Model for Neurexin Binding.",
      "author_list": "Paatero A, Rosti K, Shkumatov AV, Sele C, Brunello C, Kysenius K, Singha P, Jokinen V, Huttunen H, Kajander T",
      "journal": "Biochemistry",
      "doi": "10.1021/acs.biochem.5b00971",
      "pmid": "26785044",
      "published_date": "2016 Feb 16"
    },
    "status": "released",
    "submitted_date": "2016-01-25",
    "released_date": "2016-01-26"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDBG3.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDBG3.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBG3_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBG3_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDBG3_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDBG3_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDBG3.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": "Dectris",
        "name": "Pilatus 1M",
        "resolution": 172.0
      },
      "name": "ESRF",
      "city": "Grenoble",
      "country": "France",
      "beamline_name": "ID14-3",
      "beam_geometry": "",
      "type_of_source": "X-ray synchrotron",
      "point_source": true,
      "line_collimation": null,
      "sample_path_length": null,
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      "line_collimation_integrationwidth": null,
      "xray_energy": null,
      "beam_profile_ah": null,
      "beam_profile_al": null
    },
    "sample": {
      "molecule": [
        {
          "long_name": "Mouse Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)",
          "short_name": "cLRRTM2 30-380",
          "sequence": "GPMACPPKCRCEKLLFYCDSQGFHSVPNGLPSQLLGLSLRHNQLQSLPNGVFDKLTQLTWLHLDHNQLQSLPNGVFDKLTKLTELILSSNQLQSLPNGTFDKLTNLQNLDLSFNQLQSLPNGVFDKLTNLQTLHLRSNQLQSLPNGVFDKLTSLTFLDLSTNQLQSLPNGVFDKLTNLRELHLEHNQL QSLPNGVFDKLTSLTTLFLQWNQLQSLPNGVFDKLTNLEKLDLTGNQLQSLPNGVFDKLTNLKILLLDNNQLQSLPNGVFDKLKSLTTVGLSGNLWECSPRVCALASWLGSFQGRWEHSILCHSPDHTQGEDILDAVHGFQLCWNLSTTVTAMATTYRDPTTEKLVEKY\r\n",
          "organism": "Mus musculus",
          "uniprot_code": "Q8BGA3",
          "uniprot_range_first": 30,
          "uniprot_range_last": 380,
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      "name": "Leucine-rich repeat transmembrane neuronal protein 2, cLRRTM2 (stability engineered construct)",
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    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": "VUB",
            "address": "Pleinlaan 2 1050 Brussel ",
            "full_name": "Vrije Universiteit Brussel",
            "webpage": "http://www.vub.ac.be/"
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  "symmetry": null,
  "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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