SASDXV7

N-Myc proto-oncogene protein, residues 1-100

数据类型:SASBDB 实验数据 状态:Published 曲线类型:SEC-SAS 最后更新:2026-02-25T14:53:47.648044+01:00

Synchrotron SAXS data from solutions of the N-Myc proto-oncogen protein (residues 1-100) was collected in 20mM HEPES, 150mM NaCl, 5mM MgCl2, 3% v/v glycerol, 2mM TCEP, pH 7.5 on the EMBL P12 beam line at PETRA III (DESY, Hamburg, Germany) using a Pilatus 6M detector at a sample-detector distance of 3 m and a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAXS was employed by injecting 75.00 μl sample of 7 mg/ml onto a GE Superdex 75 Increase 10/300 column with a flow rate of 0.70 ml/min at 20°C. 2100 successive 1 second frames were collected. The data was normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted. Buffer subtraction was done using CHROMIXS and data analysis was done using the ATSAS suite. The experimental molecular weight was also determined from SEC-MALLS run in parallel to SEC-SAXS.

1. 样品、组分与实验条件 Sample & Experiment

样品 1 · N-Myc proto-oncogene protein, residues 1-100

浓度— – — 缓冲液 / pH20mM HEPES, 150mM NaCl, 5mM MgCl2, 3% v/v glycerol, 2mM TCEP / 7.5
实验温度设备 / 束线PETRA III / EMBL P12
波长— nm曝光— s × —

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
N-myc proto-oncogene protein, residues 1-100
查看序列
SMPSCSTSTMPGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPPLSPSRGFAEHSSEPPSWVTEMLLENELWGSPAEEDAFGLG
proteinHomo sapiensP041981–100monomer分子数 111.163 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
12617[3]0.0223001–7.31442 1/nm含误差列缺失 014sasbdb/entries/v7/sasdxv7/source/SASDXV7.dat

2. SASBDB 报告的指标 Reported Results

指标方法数值误差单位
dmaxP(r)13.0nm
i0Guinier0.0112141/cm
i0P(r)0.011431/cm
mwExperimental15.3kDa
mwPorod13.0kDa
porod_volumePorod22.48nm³
rgGuinier2.960.018nm
rgP(r)3.209nm

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

该条目没有来源拟合记录。

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“—”;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20mM HEPES, 150mM NaCl, 5mM MgCl2, 3% v/v glycerol, 2mM TCEP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2023-11-28储存 / 测量温度— / —
曝光时间帧数
波长样品-探测器距离
光源X-ray synchrotron探测器Pilatus 6M
机构 / 束线PETRA III / EMBL P12 · DESY; Hamburg, Germany
q 范围0.022 – 7.314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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sascifsasbdb/entries/v7/sasdxv7/source/SASDXV7.sascifnot_available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(2 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:134 个字段值
字段路径原始值
codeSASDXV7
statusPublished
type_of_curveSEC-SAS
angular_unit1/nm
project.titleThe N-Myc MB0-MBI region interacts specifically and dynamically with the N-lobe of Aurora kinase A.
project.publication.titleThe N-Myc MB0-MBI region interacts specifically and dynamically with the N-lobe of Aurora kinase A.
project.publication.author_listHultman J, Morad V, Tanner E, Kenney TMG, Pietras Z, Khare LP, Derbyshire D, Resetca D, Arrowsmith CH, Aili D, Ekström S, Penn LZ, Wallner B, Ahlner A, Sunnerhagen M
project.publication.journalNat Commun
project.publication.doi10.1038/s41467-026-69725-1
project.publication.pmid41735282
project.publication.published_date2026 Feb 24
project.statusreleased
project.submitted_date2025-08-19
project.released_date2026-01-30
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intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDXV7.dat
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pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDXV7_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXV7_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDXV7.sascif
experiment.instrument.detector.typenull
experiment.instrument.detector.namePilatus 6M
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
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_nameN-myc proto-oncogene protein, residues 1-100
experiment.sample.molecule[0].short_nameN-Myc1-100
experiment.sample.molecule[0].sequenceSMPSCSTSTMP GMICKNPDLE FDSLQPCFYP DEDDFYFGGP DSTPPGEDIW KKFELLPTPP LSPSRGFAEH SSEPPSWVTE MLLENELWGS PAEEDAFGLG
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeP04198
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last100
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMPSCSTSTMPGMICKNPDLEFDSLQPCFYPDEDDFYFGGPDSTPPGEDIWKKFELLPTPP LSPSRGFAEHSSEPPSWVTEMLLENELWGSPAEEDAFGLGGLGGLTPNPVILQDCMWSGF SAREKLERAVSEKLQHGRGPPTAGSTAQSPGAGAASPAGRGHGGAAGAGRAGAALPAELA HPAAECVDPAVVFPFPVNKREPAPVPAAPASAPAAGPAVASGAGIAAPAGAPGVAPPRPG GRQTSGGDHKALSTSGEDTLSDSDDEDDEEEDEEEEIDVVTVEKRRSSSNTKAVTTFTIT VRPKNAALGPGRAQSSELILKRCLPIHQQHNYAAPSPYVESEDAPPQKKIKSEASPRPLK SVIPPKAKSLSPRNSDSEDSERRRNHNILERQRRNDLRSSFLTLRDHVPELVKNEKAAKV VILKKATEYVHSLQAEEHQLLLEKEKLQARQQQLLKKIEHARTC
experiment.sample.molecule[0].mw11.163
experiment.sample.molecule[0].total_mw11.163
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.name20mM HEPES, 150mM NaCl, 5mM MgCl2, 3% v/v glycerol, 2mM TCEP
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.nameN-Myc proto-oncogene protein, residues 1-100
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_nameLinköping University
experiment.contributor[0].affiliation[0].webpagenull
experiment.contributor[0].contributor_nameJohanna
experiment.contributor[0].contributor_surnameHultman
experiment.contributor[0].orcidhttps://orcid.org/0009-0000-8066-228X
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2023-11-28
experiment.storage_temperaturenull
experiment.cell_temperaturenull
experiment.exposure_timenull
experiment.number_of_framesnull
experiment.wavelengthnull
experiment.sample_detector_distancenull
experiment.concentration_minnull
experiment.concentration_maxnull
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.022
experiment.s_max7.314
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[]
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionSynchrotron SAXS data from solutions of the N-Myc proto-oncogen protein (residues 1-100) was collected in 20mM HEPES, 150mM NaCl, 5mM MgCl2, 3% v/v glycerol, 2mM TCEP, pH 7.5 on the EMBL P12 beam line at PETRA III (DESY, Hamburg, Germany) using a Pilatus 6M detector at a sample-detector distance of 3 m and a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAXS was employed by injecting 75.00 μl sample of 7 mg/ml onto a GE Superdex 75 Increase 10/300 column with a flow rate of 0.70 ml/min at 20°C. 2100 successive 1 second frames were collected. The data was normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted. Buffer subtraction was done using CHROMIXS and data analysis was done using the ATSAS suite. The experimental molecular weight was also determined from SEC-MALLS run in parallel to SEC-SAXS.
experiment_descriptionnull
tags[]
intensity_unit1/cm
experimental_mw15.3
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw13.0
porod_mw_errornull
pddf_i00.01143
pddf_i0_errornull
guinier_i00.011214
guinier_i0_errornull
pddf_rg3.209
pddf_rg_errornull
guinier_rg2.96
guinier_rg_error0.018
pddf_dmax13.0
pddf_dmax_errornull
porod_volume22.48
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first44
guinier_point_last150
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDXV7_datloglog_img.png
symmetrynull
last_modified2026-02-25T14:53:47.648044+01:00
bragg_peak[]
manifest.json:34 个字段值
字段路径原始值
codeSASDXV7
statussuccess
started_at2026-08-11T15:41:05.483321+00:00
finished_at2026-08-11T15:41:14.757521+00:00
source_last_modified2026-02-25T14:53:47.648044+01:00
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查看完整 summary.json 原文
{
  "code": "SASDXV7",
  "status": "Published",
  "type_of_curve": "SEC-SAS",
  "angular_unit": "1/nm",
  "project": {
    "title": "The N-Myc MB0-MBI region interacts specifically and dynamically with the N-lobe of Aurora kinase A.",
    "publication": {
      "title": "The N-Myc MB0-MBI region interacts specifically and dynamically with the N-lobe of Aurora kinase A.",
      "author_list": "Hultman J, Morad V, Tanner E, Kenney TMG, Pietras Z, Khare LP, Derbyshire D, Resetca D, Arrowsmith CH, Aili D, Ekström S, Penn LZ, Wallner B, Ahlner A, Sunnerhagen M",
      "journal": "Nat Commun",
      "doi": "10.1038/s41467-026-69725-1",
      "pmid": "41735282",
      "published_date": "2026 Feb 24"
    },
    "status": "released",
    "submitted_date": "2025-08-19",
    "released_date": "2026-01-30"
  },
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  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDXV7.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXV7_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXV7_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDXV7_pofr_img.png",
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  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDXV7.sascif",
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      "country": "Germany",
      "beamline_name": "EMBL P12",
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      "xray_energy": null,
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          "short_name": "N-Myc1-100",
          "sequence": "SMPSCSTSTMP GMICKNPDLE FDSLQPCFYP DEDDFYFGGP DSTPPGEDIW KKFELLPTPP\r\nLSPSRGFAEH SSEPPSWVTE MLLENELWGS PAEEDAFGLG",
          "organism": "Homo sapiens",
          "uniprot_code": "P04198",
          "uniprot_range_first": 1,
          "uniprot_range_last": 100,
          "oligomerization": "monomer",
          "molecular_type": "protein",
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          "mw": 11.163,
          "total_mw": 11.163,
          "number_molecules": 1,
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          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": ""
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        "concentration_unit": null,
        "comment": null,
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        "concentration": null,
        "pka": null,
        "ph": 7.5,
        "deuteration": null
      },
      "purity_method": null,
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      "ext_coefficient": null,
      "contrast": null,
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      "absorbption": null,
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    },
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            "address": null,
            "full_name": "Linköping University ",
            "webpage": null
          }
        ],
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  "tags": [],
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  "i0_calibration_standard_data": null,
  "intensities_log_log_plot": "SASDXV7_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2026-02-25T14:53:47.648044+01:00",
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}
查看完整 manifest.json 原文
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