SASDB52

Death associated protein kinase (wild-type)

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Single concentration 最后更新:2023-06-21T07:56:39.492710+02:00

Characterisation of the oligomeric equilibrium of human DAPK2 protein in solution.

1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Death associated protein kinase (wild-type)

浓度— – 2.0 mg/ml缓冲液 / pH50 mM HEPES 250 mM NaCl 5mM CaCl2 0.25 mM TCEP 5% (v/v) glycerol / 7.5
Experimental temperature10.0 设备 / 束线PETRA III / EMBL P12
波长0.12 nm曝光0.05 s × 20

分子组分

组分类型 / OrganismUniProt 与Construct寡聚状态Molecular weight
Death associated protein kinase wild-type
查看序列
GPMSEPFKQQKVEDFYDIGEELGSGQFAIVKKCREKSTGLEYAAKFIKKRQSRASRRGVSREEIEREVSILRQVLHHNVITLHDVYENRTDVVLILELVSGGELFDFLAQKESLSEEEATSFIKQILDGVNYLHTKKIAHFDLKPENIMLLDKNIPIPHIKLIDFGLAHEIEDGVEFKNIFGTPEFVAPEIVNYEPLGLEADMWSIGVITYILLSGASPFLGDTKQETLANITSVSYDFDEEFFSHTSELAKDFIRKLLVKETRKRLTIQEALRHPWITPVDNQQAMVRRESVVNLENFRKQYVRRRWKLSFSIVSLCNHLTR
proteinHomo sapiens—–—other分子数 —37.3 kDa

实验曲线

曲线点数 / 列q range误差质量负强度点来源文件
11682[3]0.027543–4.45043 1/nm含误差列缺失 0287sasbdb/entries/52/sasdb52/source/SASDB52.dat

2. SASBDB 报告的指标 Reported Results

指标方法数值误差单位
dmaxP(r)8.1nm
estimated_volumeReported45000.0nm³
i0Guinier795.0
i0P(r)795.0
mwExperimental41.0kDa
mwPorod59.0kDa
porod_volumePorod101.0nm³
rgGuinier2.7nm
rgP(r)2.6nm

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。

3. 来源拟合与模型 Source Fits & Models

4. 来源文件索引 Source Files

5. 实验说明与论文 Experiment & Publication

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“—”;Not declared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50 mM HEPES 250 mM NaCl 5mM CaCl2 0.25 mM TCEP 5% (v/v) glycerol缓冲液浓度50.0 mM
pH7.5添加剂250 mM NaCl, 5mM CaCl2, 0.25 mM TCEP, 5% [v/v] 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— / 45000混合物 / 氘代— / —

采集条件与仪器

测量日期2013-12-18储存 / 测量温度10.0 / 10.0
曝光时间0.05帧数20
波长0.12样品-探测器距离3.1
光源X-ray synchrotron探测器Pilatus 2M
机构 / 束线PETRA III / EMBL P12 · DESY; Hamburg, Germany
q range0.028 – 4.45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Download文件

类别文件状态大小校验值Download与查看
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pddfsasbdb/entries/52/sasdb52/source/SASDB52.outdownloaded10300523f310834630277d0ee881a99714d7ac64b31cd8f30173b78794fd74076f98daDownload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(5 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:172 个字段值
字段路径原始值
codeSASDB52
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleDeath-Associated Protein Kinase Activity Is Regulated by Coupled Calcium/Calmodulin Binding to Two Distinct Sites.
project.publication.titleDeath-Associated Protein Kinase Activity Is Regulated by Coupled Calcium/Calmodulin Binding to Two Distinct Sites.
project.publication.author_listSimon B, Huart AS, Temmerman K, Vahokoski J, Mertens HD, Komadina D, Hoffmann JE, Yumerefendi H, Svergun DI, Kursula P, Schultz C, McCarthy AA, Hart DJ, Wilmanns M
project.publication.journalStructure
project.publication.doi10.1016/j.str.2016.03.020
project.publication.pmid27133022
project.publication.published_date2016 Jun 7
project.statusreleased
project.submitted_date2015-09-24
project.released_date2015-09-24
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDB52.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDB52.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB52_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDB52_kratky_img.png
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experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus 2M
experiment.instrument.detector.resolutionnull
experiment.instrument.namePETRA III
experiment.instrument.cityDESY; Hamburg
experiment.instrument.countryGermany
experiment.instrument.beamline_nameEMBL P12
experiment.instrument.beam_geometrynull
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.xray_energynull
experiment.instrument.beam_profile_ahnull
experiment.instrument.beam_profile_alnull
experiment.sample.molecule[0].long_nameDeath associated protein kinase wild-type
experiment.sample.molecule[0].short_namehDAPK2 WT
experiment.sample.molecule[0].sequenceGPMSEPFKQQKVEDFYDIGEELGSGQFAIVKKCREKSTGLEYAAKFIKKRQSRASRRGVS REEIEREVSILRQVLHHNVITLHDVYENRTDVVLILELVSGGELFDFLAQKESLSEEEAT SFIKQILDGVNYLHTKKIAHFDLKPENIMLLDKNIPIPHIKLIDFGLAHEIEDGVEFKNI FGTPEFVAPEIVNYEPLGLEADMWSIGVITYILLSGASPFLGDTKQETLANITSVSYDFD EEFFSHTSELAKDFIRKLLVKETRKRLTIQEALRHPWITPVDNQQAMVRRESVVNLENFR KQYVRRRWKLSFSIVSLCNHLTR
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codenull
experiment.sample.molecule[0].uniprot_range_firstnull
experiment.sample.molecule[0].uniprot_range_lastnull
experiment.sample.molecule[0].oligomerizationother
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequencenull
experiment.sample.molecule[0].mw37.3
experiment.sample.molecule[0].total_mw37.3
experiment.sample.molecule[0].number_molecules0
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.name50 mM HEPES 250 mM NaCl 5mM CaCl2 0.25 mM TCEP 5% (v/v) glycerol
experiment.sample.buffer.concentration_unitmM
experiment.sample.buffer.commentnull
experiment.sample.buffer.additive250 mM NaCl, 5mM CaCl2, 0.25 mM TCEP, 5% [v/v] glycerol
experiment.sample.buffer.concentration50.0
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph7.5
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameDeath associated protein kinase (wild-type)
experiment.sample.ext_coefficientnull
experiment.sample.contrastnull
experiment.sample.specific_volnull
experiment.sample.dry_vol45000
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_nameHaydyn
experiment.contributor[0].contributor_surnameMertens
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitmg/ml
experiment.date2013-12-18
experiment.storage_temperature10.0
experiment.cell_temperature10.0
experiment.exposure_time0.05
experiment.number_of_frames20
experiment.wavelength0.12
experiment.sample_detector_distance3.1
experiment.concentration_minnull
experiment.concentration_max2.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.028
experiment.s_max4.45
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].softwareOLIGOMER
fits[0].models[0].pdb_link[0].pdb_code2a2a
fits[0].models[0].pdb_link[0].ext_code2A2A
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fits[0].models[0].model_mw69.98
fits[0].models[0].bead_radius1.9
fits[0].models[0].lognull
fits[0].models[0].symmetry
fits[0].models[0].commentDimer component PDB 2A2A:AB
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fits[0].softwarenull
fits[0].chi_square_value1.04
fits[0].p_value0.802596
fits[0].fit_residual_plotSASDB52_fit1_fitresiduals_img.png
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fits[0].fit_lognull
fits[0].software_versionnull
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionGNOM
i0_calibration_standardnull
descriptionCharacterisation of the oligomeric equilibrium of human DAPK2 protein in solution.
experiment_descriptionnull
tags[]
intensity_unitnull
experimental_mw41.0
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw59.0
porod_mw_errornull
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pddf_i0_errornull
guinier_i0795.0
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guinier_rg_errornull
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pddf_dmax_errornull
porod_volume101.0
porod_volume_errornull
estimated_volume45000.0
estimated_volume_errornull
guinier_point_first30
guinier_point_last158
pddf_point_first30
pddf_point_last1109
i0_calibration_standard_datanull
intensities_log_log_plotSASDB52_datloglog_img.png
symmetrynull
last_modified2023-06-21T07:56:39.492710+02:00
bragg_peak[]
manifest.json:36 个字段值
字段路径原始值
codeSASDB52
statussuccess
started_at2026-08-11T13:30:29.138308+00:00
finished_at2026-08-11T13:30:39.126096+00:00
source_last_modified2023-06-21T07:56:39.492710+02:00
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查看完整 summary.json 原文
{
  "code": "SASDB52",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Death-Associated Protein Kinase Activity Is Regulated by Coupled Calcium/Calmodulin Binding to Two Distinct Sites.",
    "publication": {
      "title": "Death-Associated Protein Kinase Activity Is Regulated by Coupled Calcium/Calmodulin Binding to Two Distinct Sites.",
      "author_list": "Simon B, Huart AS, Temmerman K, Vahokoski J, Mertens HD, Komadina D, Hoffmann JE, Yumerefendi H, Svergun DI, Kursula P, Schultz C, McCarthy AA, Hart DJ, Wilmanns M",
      "journal": "Structure",
      "doi": "10.1016/j.str.2016.03.020",
      "pmid": "27133022",
      "published_date": "2016 Jun 7"
    },
    "status": "released",
    "submitted_date": "2015-09-24",
    "released_date": "2015-09-24"
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查看完整 manifest.json 原文
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