SASDAC2

Lysozyme in sodium acetate

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Single concentration 最后更新:2023-05-25T11:21:52.654103+02:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Lysozyme in sodium acetate

浓度— – 8.09 mg/ml缓冲液 / pH40 mM Sodium Acetate / 3.8
实验温度10.0 设备 / 束线DORIS III, DESY / EMBL X33
波长0.15 nm曝光15.0 s × 8

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Lysozyme C
查看序列
>SP|P00698|LYSC_CHICKLYSOZYMECOS=GALLUSGALLUSGN=LYZPE=1SV=1MRSLLILVLCFLPLAALGKVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQATNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVSDGNGMNAWVAWRNRCKGTDVQAWIRGCRL
proteinGallus gallusP00698—–—monomer分子数 116.24 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
12168[3]0.0871252–6.01453 1/nm含误差列缺失 05sasbdb/entries/c2/sasdac2/source/SASDAC2.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)4.0—nm
i0Guinier12.4——
i0P(r)12.0——
mwExperimental11.0—kDa
mwGuinier I(0)11.0—kDa
porod_volumePorod17.2—nm³
rgGuinier1.47—nm
rgP(r)1.43—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40 mM Sodium Acetate缓冲液浓度40.0 mM
pH3.8添加剂—
缓冲液说明—
纯度测定方法gel filtration消光系数26.53
吸收值—散射对比度3.047
比体积 / 干体积0.7402 / 19648混合物 / 氘代— / —

采集条件与仪器

测量日期2012-09-21储存 / 测量温度10.0 / 10.0
曝光时间15.0帧数8
波长0.15样品-探测器距离2.7
光源X-ray synchrotron探测器Pilatus 1M-W
机构 / 束线DORIS III, DESY / EMBL X33 · Hamburg, Germany
q 范围0.087 – 6.015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/c2/sasdac2/source/SASDAC2.datdownloaded98752c2b2f92ba07d108c16b43f64fa1ca30e18ed63fc2aa3efc12beb179d93976d9d下载查看原文件源站
full_entry_zipsasbdb/entries/c2/sasdac2/source/SASDAC2.zipdownloaded120768e4ea2b946848bd3de600faaf5fa279a2afc82e4ddadd1e2a40a47e294fc0d214下载查看原文件源站
pddfsasbdb/entries/c2/sasdac2/source/SASDAC2.outdownloaded36896b745335a59d67647f9cb8f4a5c64f8a051dbbb0bf19fc435761de0260c4cc082下载查看原文件源站
sascifsasbdb/entries/c2/sasdac2/source/SASDAC2.sascifdownloaded690378d0c1059b442c32ae1d5b3255a9d0fcdfa4b8bc790a0a709633becc60483feb1f下载查看原文件源站
summarysasbdb/entries/c2/sasdac2/source/summary.jsondownloaded7359a51e69dc30e8634159b55cafb7ff9371af11c2adf56ba7fda4cd3411b707fc57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(6 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:174 个字段值
字段路径原始值
codeSASDAC2
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleStandard proteins
project.publicationnull
project.statusreleased
project.submitted_datenull
project.released_date2015-07-07
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDAC2.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDAC2.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAC2_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAC2_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAC2_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAC2_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDAC2.sascif
experiment.instrument.detector.typeCustom-built
experiment.instrument.detector.namePilatus 1M-W
experiment.instrument.detector.resolution0.172
experiment.instrument.nameDORIS III, DESY
experiment.instrument.cityHamburg
experiment.instrument.countryGermany
experiment.instrument.beamline_nameEMBL X33
experiment.instrument.beam_geometry0.60
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_nameLysozyme C
experiment.sample.molecule[0].short_nameLys
experiment.sample.molecule[0].sequence>sp|P00698|LYSC_CHICK Lysozyme C OS=Gallus gallus GN=LYZ PE=1 SV=1 MRSLLILVLCFLPLAALGKVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQA TNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVSDG NGMNAWVAWRNRCKGTDVQAWIRGCRL
experiment.sample.molecule[0].organismGallus gallus
experiment.sample.molecule[0].uniprot_codeP00698
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_sequenceMRSLLILVLCFLPLAALGKVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQA TNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVSDG NGMNAWVAWRNRCKGTDVQAWIRGCRL
experiment.sample.molecule[0].mw16.24
experiment.sample.molecule[0].total_mw14.313
experiment.sample.molecule[0].number_molecules1
experiment.sample.molecule[0].complex_statenull
experiment.sample.molecule[0].deuterationnull
experiment.sample.molecule[0].molecule_sourcebiological
experiment.sample.molecule[0].molecule_descriptionnull
experiment.sample.buffer.name40 mM Sodium Acetate
experiment.sample.buffer.concentration_unitmM
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentration40.0
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph3.8
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodgel filtration
experiment.sample.nameLysozyme in sodium acetate
experiment.sample.ext_coefficient26.53
experiment.sample.contrast3.047
experiment.sample.specific_vol0.7402
experiment.sample.dry_vol19648
experiment.sample.absorbptionnull
experiment.sample.deuterationnull
experiment.sample.mixturenull
experiment.contributor[0].affiliation[0].short_nameEMBL-Hamburg
experiment.contributor[0].affiliation[0].addressNotkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany
experiment.contributor[0].affiliation[0].full_nameEuropean Molecular Biology Laboratory (EMBL) - Hamburg outstation
experiment.contributor[0].affiliation[0].webpagehttp://www.embl-hamburg.de/index.php
experiment.contributor[0].contributor_nameDarja
experiment.contributor[0].contributor_surnameRuskule
experiment.contributor[0].orcidnull
experiment.concentration_methodnanodrop
experiment.concentration_unitmg/ml
experiment.date2012-09-21
experiment.storage_temperature10.0
experiment.cell_temperature10.0
experiment.exposure_time15.0
experiment.number_of_frames8
experiment.wavelength0.15
experiment.sample_detector_distance2.7
experiment.concentration_minnull
experiment.concentration_max8.09
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.087
experiment.s_max6.015
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDAC2_fit1_model1_img.png
fits[0].models[0].softwareCRYSOL
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modelatomic
fits[0].models[0].software_version
fits[0].models[0].model_datahttps://www.sasbdb.org/media/pdb_file/SASDAC2_fit1_model1.pdb
fits[0].models[0].model_mw14.32
fits[0].models[0].bead_radiusnull
fits[0].models[0].lognull
fits[0].models[0].symmetry
fits[0].models[0].comment
fits[0].models[0].user1
fits[0].fit_unit1/A
fits[0].fit_plothttps://www.sasbdb.org/media/fitting_files/scattering_plots/SASDAC2_fit1_fixed_fit_img.png
fits[0].softwarenull
fits[0].chi_square_value1.452025
fits[0].p_value0.0
fits[0].fit_residual_plotSASDAC2_fit1_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDAC2_fit1.fit
fits[0].fit_lognull
fits[0].software_versionnull
fits[0].descriptionnull
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fits[1].models[0].softwareDAMMIF
fits[1].models[0].pdb_link[]
fits[1].models[0].model_titlenull
fits[1].models[0].type_of_modeldummy
fits[1].models[0].software_version
fits[1].models[0].model_datahttps://www.sasbdb.org/media/pdb_file/SASDAC2_fit2_model1.pdb
fits[1].models[0].model_mw10.35
fits[1].models[0].bead_radius1.0
fits[1].models[0].loghttps://www.sasbdb.org/media/log_files/lys_orig_2.log
fits[1].models[0].symmetry
fits[1].models[0].comment
fits[1].models[0].user1
fits[1].fit_unit1/A
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fits[1].softwarenull
fits[1].chi_square_value2.873025
fits[1].p_value0.0
fits[1].fit_residual_plotSASDAC2_fit2_fitresiduals_img.png
fits[1].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDAC2_fit2.fir
fits[1].fit_lognull
fits[1].software_versionnull
fits[1].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionGNOM
i0_calibration_standardBSA
descriptionnull
experiment_descriptionnull
tags[0]X33
intensity_unitnull
experimental_mw11.0
experimental_mw_errornull
guinier_i0_mw11.0
guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i012.0
pddf_i0_errornull
guinier_i012.4
guinier_i0_errornull
pddf_rg1.43
pddf_rg_errornull
guinier_rg1.47
guinier_rg_errornull
pddf_dmax4.0
pddf_dmax_errornull
porod_volume17.2
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first189
guinier_point_last294
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datahttps://www.sasbdb.org/media/standard_curves/bsa_203_1.dat
intensities_log_log_plotSASDAC2_datloglog_img.png
symmetrynull
last_modified2023-05-25T11:21:52.654103+02:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDAC2
statussuccess
started_at2026-08-11T13:35:10.197188+00:00
finished_at2026-08-11T13:35:24.261435+00:00
source_last_modified2023-05-25T11:21:52.654103+02:00
files[0].statusdownloaded
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files[4].zip_validationcentral_directory_readable
查看完整 summary.json 原文
{
  "code": "SASDAC2",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Standard proteins",
    "publication": null,
    "status": "released",
    "submitted_date": null,
    "released_date": "2015-07-07"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDAC2.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDAC2.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAC2_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAC2_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAC2_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAC2_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDAC2.sascif",
  "experiment": {
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        "name": "Pilatus 1M-W",
        "resolution": 0.172
      },
      "name": "DORIS III, DESY",
      "city": "Hamburg",
      "country": "Germany",
      "beamline_name": "EMBL X33",
      "beam_geometry": "0.60",
      "type_of_source": "X-ray synchrotron",
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      "line_collimation_integrationwidth": null,
      "xray_energy": null,
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      "beam_profile_al": null
    },
    "sample": {
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          "long_name": "Lysozyme C",
          "short_name": "Lys",
          "sequence": ">sp|P00698|LYSC_CHICK Lysozyme C OS=Gallus gallus GN=LYZ PE=1 SV=1\nMRSLLILVLCFLPLAALGKVFGRCELAAAMKRHGLDNYRGYSLGNWVCAAKFESNFNTQA\nTNRNTDGSTDYGILQINSRWWCNDGRTPGSRNLCNIPCSALLSSDITASVNCAKKIVSDG\nNGMNAWVAWRNRCKGTDVQAWIRGCRL\n\n",
          "organism": "Gallus gallus",
          "uniprot_code": "P00698",
          "uniprot_range_first": null,
          "uniprot_range_last": null,
          "oligomerization": "monomer",
          "molecular_type": "protein",
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          "mw": 16.24,
          "total_mw": 14.313,
          "number_molecules": 1,
          "complex_state": null,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
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        "concentration_unit": "mM",
        "comment": null,
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        "concentration": 40.0,
        "pka": null,
        "ph": 3.8,
        "deuteration": null
      },
      "purity_method": "gel filtration",
      "name": "Lysozyme in sodium acetate",
      "ext_coefficient": 26.53,
      "contrast": 3.047,
      "specific_vol": 0.7402,
      "dry_vol": 19648,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
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查看完整 manifest.json 原文
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