SASDVT4

Endophilin B1 wild type (0.14 mg/ml)

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Single concentration 最后更新:2025-02-05T17:23:18.368460+01:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Endophilin B1 wild type (0.14 mg/ml)

浓度— – 0.69 缓冲液 / pH20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT / 8.1
实验温度4.0 设备 / 束线ESRF / BM29
波长0.09918 nm曝光1.0 s × 15

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Endophilin-B1
查看序列
MNIMDFNVKKLAADAGTFLSRAVQFTEEKLGQAEKTELDAHLENLLSKAECTKIWTEKIMKQTEVLLQPNPNARIEEFVYEKLDRKAPSRINNPELLGQYMIDAGTEFGPGTAYGNALIKCGETQKRIGTADRELIQTSALNFLTPLRNFIEGDYKTIAKERKLLQNKRLDLDAAKTRLKKAKAAETRNSSEQELRITQSEFDRQAEITRLLLEGISSTHAHHLRCLNDFVEAQMTYYAQCYQYMLDLQKQLGSFPSNYLSNNNQTSVTPVPSVLPNAIGSSAMASTSGLVITSPSNLSDLKECSGSRKARVLYDYDAANSTELSLLADEVITVFSVVGMDSDWLMGERGNQKGKVPITYLELLN
proteinHomo sapiensQ9Y3711–365monomer分子数 140.796 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
11000[3]0.008509853–0.4953721 1/A含误差列缺失 0238sasbdb/entries/t4/sasdvt4/source/SASDVT4.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)15.3—Å
i0Guinier43.0065—1/cm
i0P(r)45.16—1/cm
mwExperimental36.9—kDa
mwPorod29.0—kDa
porod_volumePorod47.0—ų
rgGuinier3.6880.956Å
rgP(r)4.27—Å

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 HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT缓冲液浓度—
pH8.1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2024-03-10储存 / 测量温度4.0 / 4.0
曝光时间1.0帧数15
波长0.09918样品-探测器距离2.827
光源X-ray synchrotron探测器Pilatus3 2M
机构 / 束线ESRF / BM29 · Grenoble, France
q 范围0.085 – 4.954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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pddfsasbdb/entries/t4/sasdvt4/source/SASDVT4.outdownloaded56558ec7d41a1c63bef90194c9187a4c45625541ac0b37c7a4c8b656b0055e6fc9525下载查看原文件源站
sascifsasbdb/entries/t4/sasdvt4/source/SASDVT4.sascifnot_available——下载查看原文件源站
summarysasbdb/entries/t4/sasdvt4/source/summary.jsondownloaded7524f67875c5c904407731cfe0bb8170b2765d8d979531748fbf59726002e699e76d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
codeSASDVT4
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titlePeripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers
project.publication.titlePeripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers
project.publication.author_listThorlacius A, Rulev M, Sundberg O, Sundborger-Lunna A
project.publication.journalCommunications Biology
project.publication.doi10.1038/s42003-025-07610-1
project.publication.pmidnull
project.publication.published_date2025 Feb 05
project.statusreleased
project.submitted_date2024-07-12
project.released_date2025-01-28
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experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus3 2M
experiment.instrument.detector.resolution0.172
experiment.instrument.nameESRF
experiment.instrument.cityGrenoble
experiment.instrument.countryFrance
experiment.instrument.beamline_nameBM29
experiment.instrument.beam_geometrypoint
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_nameEndophilin-B1
experiment.sample.molecule[0].short_namenull
experiment.sample.molecule[0].sequenceMNIMDFNVKKLAADAGTFLSRAVQFTEEKLGQAEKTELDAHLENLLSKAECTKIWTEKIM KQTEVLLQPNPNARIEEFVYEKLDRKAPSRINNPELLGQYMIDAGTEFGPGTAYGNALIK CGETQKRIGTADRELIQTSALNFLTPLRNFIEGDYKTIAKERKLLQNKRLDLDAAKTRLK KAKAAETRNSSEQELRITQSEFDRQAEITRLLLEGISSTHAHHLRCLNDFVEAQMTYYAQ CYQYMLDLQKQLGSFPSNYLSNNNQTSVTPVPSVLPNAIGSSAMASTSGLVITSPSNLSD LKECSGSRKARVLYDYDAANSTELSLLADEVITVFSVVGMDSDWLMGERGNQKGKVPITY LELLN
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeQ9Y371
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last365
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMNIMDFNVKKLAADAGTFLSRAVQFTEEKLGQAEKTELDAHLENLLSKAECTKIWTEKIM KQTEVLLQPNPNARIEEFVYEKLDRKAPSRINNPELLGQYMIDAGTEFGPGTAYGNALIK CGETQKRIGTADRELIQTSALNFLTPLRNFIEGDYKTIAKERKLLQNKRLDLDAAKTRLK KAKAAETRNSSEQELRITQSEFDRQAEITRLLLEGISSTHAHHLRCLNDFVEAQMTYYAQ CYQYMLDLQKQLGSFPSNYLSNNNQTSVTPVPSVLPNAIGSSAMASTSGLVITSPSNLSD LKECSGSRKARVLYDYDAANSTELSLLADEVITVFSVVGMDSDWLMGERGNQKGKVPITY LELLN
experiment.sample.molecule[0].mw40.796
experiment.sample.molecule[0].total_mw40.796
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_description
experiment.sample.buffer.name20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph8.1
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameEndophilin B1 wild type (0.14 mg/ml)
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_nameUppsala University
experiment.contributor[0].affiliation[0].webpagenull
experiment.contributor[0].contributor_nameMaksim
experiment.contributor[0].contributor_surnameRulev
experiment.contributor[0].orcidhttps://orcid.org/0000-0001-6103-320X
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2024-03-10
experiment.storage_temperature4.0
experiment.cell_temperature4.0
experiment.exposure_time1.0
experiment.number_of_frames15
experiment.wavelength0.09918
experiment.sample_detector_distance2.827
experiment.concentration_minnull
experiment.concentration_max0.69
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.085
experiment.s_max4.954
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plotnull
fits[0].models[0].softwareDENSS
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modeldensity
fits[0].models[0].software_versionnull
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fits[0].models[0].model_mwnull
fits[0].models[0].bead_radiusnull
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fits[0].models[0].symmetrynull
fits[0].models[0].commentnull
fits[0].models[0].user1101
fits[0].fit_unit1/A
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fits[0].softwareDENSS
fits[0].chi_square_value0.9955
fits[0].p_value0.1305
fits[0].fit_residual_plotSASDVT4_fit1_fitresiduals_img.png
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fits[0].software_versionnull
fits[0].description
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionSynchrotron SAXS data from solutions of endophilin B1 in 20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT, pH 8.1 were collected on the BM29 beam line at the ESRF (Grenoble, France) using a Pilatus3 2M detector at a sample-detector distance of 2.8 m and at a wavelength of λ = 0.09918 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 0.69 mg/ml was measured at 4°C. 15 successive 1 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.
tags[]
intensity_unit1/cm
experimental_mw36.9
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw29.0
porod_mw_errornull
pddf_i045.16
pddf_i0_errornull
guinier_i043.0065
guinier_i0_errornull
pddf_rg4.27
pddf_rg_errornull
guinier_rg3.688
guinier_rg_error0.956
pddf_dmax15.3
pddf_dmax_errornull
porod_volume47.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first8
guinier_point_last57
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDVT4_datloglog_img.png
symmetrynull
last_modified2025-02-05T17:23:18.368460+01:00
bragg_peak[]
manifest.json:34 个字段值
字段路径原始值
codeSASDVT4
statussuccess
started_at2026-08-11T14:31:13.667904+00:00
finished_at2026-08-11T14:31:22.292965+00:00
source_last_modified2025-02-05T17:23:18.368460+01:00
files[0].statusdownloaded
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查看完整 summary.json 原文
{
  "code": "SASDVT4",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "Peripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers",
    "publication": {
      "title": "Peripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers",
      "author_list": "Thorlacius A, Rulev M, Sundberg O, Sundborger-Lunna A",
      "journal": "Communications Biology",
      "doi": "10.1038/s42003-025-07610-1",
      "pmid": null,
      "published_date": "2025 Feb 05"
    },
    "status": "released",
    "submitted_date": "2024-07-12",
    "released_date": "2025-01-28"
  },
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          "long_name": "Endophilin-B1",
          "short_name": null,
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          "organism": "Homo sapiens",
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          "uniprot_range_first": 1,
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          "mw": 40.796,
          "total_mw": 40.796,
          "number_molecules": 1,
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查看完整 manifest.json 原文
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