SASDAN8

mLBS1-2 DNA

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

Study of oligomeric states of mLANA and kLANA and their complexes with DNA

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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · mLBS1-2 DNA

浓度	— – 5.0 mg/ml	缓冲液 / pH	10 mM TRIS 150 mM NaCl / 7.6
Experimental temperature	10.0	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 / Organism	UniProt 与Construct	寡聚状态	Molecular weight
MHV-68 TR DNA	DNAunidentified herpesvirus	——–—	monomer分子数 1	30.0 kDa

实验曲线

曲线	点数 / 列	q range	误差质量	负强度点	来源文件
1	1667[3]	0.238035–4.60917 1/nm	含误差列缺失 0	276	sasbdb/entries/n8/sasdan8/source/SASDAN8.dat

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2. SASBDB 报告的指标 Reported Results

指标	方法	数值	误差	单位
dmax	P(r)	16.0	—	nm
i0	Guinier	1785.0	—	—
mw	Experimental	30.0	—	kDa
mw	Porod	30.0	—	kDa
porod_volume	Porod	50.0	—	nm³
rg	Guinier	4.0	—	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

拟合 1 · —

χ²：2.464CorMap p：0.0单位：1/A

拟合数据拟合图残差图

模型	名称 / 类型	软件	Symmetry	模型 MW	PDB 声明	来源文件
1	—atomic	CRYSOL	—	30.18	—	模型图片

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4. 来源文件索引 Source Files

类别	路径	Download状态	大小
curve	sasbdb/entries/n8/sasdan8/source/SASDAN8.dat	downloaded	76911
full_entry_zip	sasbdb/entries/n8/sasdan8/source/SASDAN8.zip	downloaded	82898
pddf	sasbdb/entries/n8/sasdan8/source/SASDAN8.out	downloaded	57818
sascif	sasbdb/entries/n8/sasdan8/source/SASDAN8.sascif	downloaded	411081
summary	sasbdb/entries/n8/sasdan8/source/summary.json	downloaded	6399

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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“—”；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	10 mM TRIS 150 mM NaCl	缓冲液浓度	10.0 mM
pH	7.6	添加剂	NaCl 150.000 mM
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	False / —

采集条件与仪器

测量日期	2013-04-27	储存 / 测量温度	— / 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 range	0.238 – 4.609	样品体积 / 流速	— / —

SASBDB 原始图

可Download文件

类别	文件	状态	大小	校验值	Download与查看
curve	sasbdb/entries/n8/sasdan8/source/SASDAN8.dat	downloaded	76911	71070df6e0e9102af07bf9f1d377513f281605355e897c4b076bcd9730aeb7ab	Download查看原文件源站
full_entry_zip	sasbdb/entries/n8/sasdan8/source/SASDAN8.zip	downloaded	82898	5aee755bbebb387c454649cf32bea1906398a4d442601e6f82281bf4fe9a72da	Download查看原文件源站
pddf	sasbdb/entries/n8/sasdan8/source/SASDAN8.out	downloaded	57818	629d5561eaa2aac31654c6312f768bbcf215af34246e1479f4f57acd70b77625	Download查看原文件源站
sascif	sasbdb/entries/n8/sasdan8/source/SASDAN8.sascif	downloaded	411081	16c2ddfba57d443bb523554ff04dc3d28b231a25120bf25fe961647e6b7d5c83	Download查看原文件源站
summary	sasbdb/entries/n8/sasdan8/source/summary.json	downloaded	6399	36b9ec037e04f93ef0a1a978f9d2a7478b4d3780015c6d620b7ca6a3805a3388	Download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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      "size": 57818
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    {
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      "name": "SASDAN8/SASDAN8_fit1.fit",
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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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  "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDAN8/"
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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
code	SASDAN8
status	Published
type_of_curve	Single concentration
angular_unit	1/nm
project.title	KSHV but not MHV-68 LANA induces a strong bend upon binding to terminal repeat viral DNA.
project.publication.title	KSHV but not MHV-68 LANA induces a strong bend upon binding to terminal repeat viral DNA.
project.publication.author_list	Ponnusamy R, Petoukhov MV, Correia B, Custodio TF, Juillard F, Tan M, Pires de Miranda M, Carrondo MA, Simas JP, Kaye KM, Svergun DI, McVey CE
project.publication.journal	Nucleic Acids Res
project.publication.doi	10.1093/nar/gkv987
project.publication.pmid	26424851
project.publication.published_date	2015 Nov 16
project.status	released
project.submitted_date	2015-07-06
project.released_date	2016-03-17
pddf_data	https://www.sasbdb.org/media/p_of_R_files/SASDAN8.out
intensities_data	https://www.sasbdb.org/media/intensities_files/SASDAN8.dat
intensities_log_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAN8_dat_img.png
intensities_kratky_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAN8_kratky_img.png
pddf_plot	https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAN8_pofr_img.png
intensities_guinier_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAN8_guinier_img.png
sascif_data	https://www.sasbdb.org/media/sascif/sascif_files/SASDAN8.sascif
experiment.instrument.detector.type	null
experiment.instrument.detector.name	Pilatus 2M
experiment.instrument.detector.resolution	null
experiment.instrument.name	PETRA III
experiment.instrument.city	DESY; Hamburg
experiment.instrument.country	Germany
experiment.instrument.beamline_name	EMBL P12
experiment.instrument.beam_geometry	null
experiment.instrument.type_of_source	X-ray synchrotron
experiment.instrument.point_source	null
experiment.instrument.line_collimation	null
experiment.instrument.sample_path_length	null
experiment.instrument.line_collimation_slitlength	null
experiment.instrument.line_collimation_integrationwidth	null
experiment.instrument.xray_energy	null
experiment.instrument.beam_profile_ah	null
experiment.instrument.beam_profile_al	null
experiment.sample.molecule[0].long_name	MHV-68 TR DNA
experiment.sample.molecule[0].short_name	mLBS1-2
experiment.sample.molecule[0].sequence	null
experiment.sample.molecule[0].organism	unidentified herpesvirus
experiment.sample.molecule[0].uniprot_code	null
experiment.sample.molecule[0].uniprot_range_first	null
experiment.sample.molecule[0].uniprot_range_last	null
experiment.sample.molecule[0].oligomerization	monomer
experiment.sample.molecule[0].molecular_type	DNA
experiment.sample.molecule[0].uniprot_sequence	null
experiment.sample.molecule[0].mw	30.0
experiment.sample.molecule[0].total_mw	30.0
experiment.sample.molecule[0].number_molecules	1
experiment.sample.molecule[0].complex_state	False
experiment.sample.molecule[0].deuteration	null
experiment.sample.molecule[0].molecule_source	biological
experiment.sample.molecule[0].molecule_description	null
experiment.sample.buffer.name	10 mM TRIS 150 mM NaCl
experiment.sample.buffer.concentration_unit	mM
experiment.sample.buffer.comment	null
experiment.sample.buffer.additive	NaCl 150.000 mM
experiment.sample.buffer.concentration	10.0
experiment.sample.buffer.pka	null
experiment.sample.buffer.ph	7.6
experiment.sample.buffer.deuteration	null
experiment.sample.purity_method	null
experiment.sample.name	mLBS1-2 DNA
experiment.sample.ext_coefficient	null
experiment.sample.contrast	null
experiment.sample.specific_vol	null
experiment.sample.dry_vol	null
experiment.sample.absorbption	null
experiment.sample.deuteration	null
experiment.sample.mixture	False
experiment.contributor[0].affiliation[0].short_name	EMBL-Hamburg
experiment.contributor[0].affiliation[0].address	Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany
experiment.contributor[0].affiliation[0].full_name	European Molecular Biology Laboratory (EMBL) - Hamburg outstation
experiment.contributor[0].affiliation[0].webpage	http://www.embl-hamburg.de/index.php
experiment.contributor[0].contributor_name	Maxim
experiment.contributor[0].contributor_surname	Petoukhov
experiment.contributor[0].orcid	null
experiment.concentration_method	null
experiment.concentration_unit	mg/ml
experiment.date	2013-04-27
experiment.storage_temperature	null
experiment.cell_temperature	10.0
experiment.exposure_time	0.05
experiment.number_of_frames	20
experiment.wavelength	0.12
experiment.sample_detector_distance	3.1
experiment.concentration_min	null
experiment.concentration_max	5.0
experiment.sample_volume	null
experiment.flow_rate	null
experiment.s_min	0.238
experiment.s_max	4.609
experiment.total_exposure_time	null
experiment.seccolumn	null
fits[0].models[0].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDAN8_fit1_model1_img.png
fits[0].models[0].software	CRYSOL
fits[0].models[0].pdb_link	[]
fits[0].models[0].model_title	null
fits[0].models[0].type_of_model	atomic
fits[0].models[0].software_version
fits[0].models[0].model_data	https://www.sasbdb.org/media/pdb_file/SASDAN8_fit1_model1.pdb
fits[0].models[0].model_mw	30.18
fits[0].models[0].bead_radius	1.9
fits[0].models[0].log	null
fits[0].models[0].symmetry
fits[0].models[0].comment
fits[0].models[0].user	102
fits[0].fit_unit	1/A
fits[0].fit_plot	https://www.sasbdb.org/media/fitting_files/scattering_plots/SASDAN8_fit1_fit_img.png
fits[0].software	null
fits[0].chi_square_value	2.464
fits[0].p_value	0.0
fits[0].fit_residual_plot	fit4columns288_fitresiduals_img.png
fits[0].fit_data	https://www.sasbdb.org/media/fitting_files/SASDAN8_fit1.fit
fits[0].fit_log	null
fits[0].software_version	null
fits[0].description	null
estimated_volume_method	null
pddf_software	ATSAS GNOM
pddf_software_version	null
i0_calibration_standard	null
description	Study of oligomeric states of mLANA and kLANA and their complexes with DNA
experiment_description	null
tags	[]
intensity_unit	null
experimental_mw	30.0
experimental_mw_error	null
guinier_i0_mw	null
guinier_i0_mw_error	null
porod_mw	30.0
porod_mw_error	null
pddf_i0	null
pddf_i0_error	null
guinier_i0	1785.0
guinier_i0_error	null
pddf_rg	null
pddf_rg_error	null
guinier_rg	4.0
guinier_rg_error	null
pddf_dmax	16.0
pddf_dmax_error	null
porod_volume	50.0
porod_volume_error	null
estimated_volume	null
estimated_volume_error	null
guinier_point_first	null
guinier_point_last	null
pddf_point_first	null
pddf_point_last	null
i0_calibration_standard_data	null
intensities_log_log_plot	SASDAN8_datloglog_img.png
symmetry	null
last_modified	2023-06-21T07:56:39.492710+02:00
bragg_peak	[]

manifest.json：36 个字段值

字段路径	原始值
code	SASDAN8
status	success
started_at	2026-08-11T15:56:55.529117+00:00
finished_at	2026-08-11T15:57:04.124101+00:00
source_last_modified	2023-06-21T07:56:39.492710+02:00
files[0].status	downloaded
files[0].url	https://www.sasbdb.org/rest-api/entry/summary/SASDAN8/
files[0].path	/data/saxsdb/sasbdb/entries/n8/sasdan8/source/summary.json
files[0].size	6399
files[0].sha256	36b9ec037e04f93ef0a1a978f9d2a7478b4d3780015c6d620b7ca6a3805a3388
files[1].status	downloaded
files[1].url	https://www.sasbdb.org/media/intensities_files/SASDAN8.dat
files[1].path	/data/saxsdb/sasbdb/entries/n8/sasdan8/source/SASDAN8.dat
files[1].size	76911
files[1].sha256	71070df6e0e9102af07bf9f1d377513f281605355e897c4b076bcd9730aeb7ab
files[1].role	curve
files[2].status	downloaded
files[2].url	https://www.sasbdb.org/media/p_of_R_files/SASDAN8.out
files[2].path	/data/saxsdb/sasbdb/entries/n8/sasdan8/source/SASDAN8.out
files[2].size	57818
files[2].sha256	629d5561eaa2aac31654c6312f768bbcf215af34246e1479f4f57acd70b77625
files[2].role	pddf
files[3].status	downloaded
files[3].url	https://www.sasbdb.org/media/sascif/sascif_files/SASDAN8.sascif
files[3].path	/data/saxsdb/sasbdb/entries/n8/sasdan8/source/SASDAN8.sascif
files[3].size	411081
files[3].sha256	16c2ddfba57d443bb523554ff04dc3d28b231a25120bf25fe961647e6b7d5c83
files[3].role	sascif
files[4].status	downloaded
files[4].url	https://www.sasbdb.org/media/zip_directories/SASDAN8.zip
files[4].path	/data/saxsdb/sasbdb/entries/n8/sasdan8/source/SASDAN8.zip
files[4].size	82898
files[4].sha256	5aee755bbebb387c454649cf32bea1906398a4d442601e6f82281bf4fe9a72da
files[4].role	full_entry_zip
files[4].zip_member_count	4
files[4].zip_validation	central_directory_readable

查看完整 summary.json 原文

{
  "code": "SASDAN8",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "KSHV but not MHV-68 LANA induces a strong bend upon binding to terminal repeat viral DNA.",
    "publication": {
      "title": "KSHV but not MHV-68 LANA induces a strong bend upon binding to terminal repeat viral DNA.",
      "author_list": "Ponnusamy R, Petoukhov MV, Correia B, Custodio TF, Juillard F, Tan M, Pires de Miranda M, Carrondo MA, Simas JP, Kaye KM, Svergun DI, McVey CE",
      "journal": "Nucleic Acids Res",
      "doi": "10.1093/nar/gkv987",
      "pmid": "26424851",
      "published_date": "2015 Nov 16"
    },
    "status": "released",
    "submitted_date": "2015-07-06",
    "released_date": "2016-03-17"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDAN8.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDAN8.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAN8_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAN8_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAN8_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAN8_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDAN8.sascif",
  "experiment": {
    "instrument": {
      "detector": {
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        "name": "Pilatus 2M",
        "resolution": null
      },
      "name": "PETRA III",
      "city": "DESY; Hamburg",
      "country": "Germany",
      "beamline_name": "EMBL P12",
      "beam_geometry": null,
      "type_of_source": "X-ray synchrotron",
      "point_source": null,
      "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": "MHV-68 TR DNA",
          "short_name": "mLBS1-2 ",
          "sequence": null,
          "organism": "unidentified herpesvirus",
          "uniprot_code": null,
          "uniprot_range_first": null,
          "uniprot_range_last": null,
          "oligomerization": "monomer",
          "molecular_type": "DNA",
          "uniprot_sequence": null,
          "mw": 30.0,
          "total_mw": 30.0,
          "number_molecules": 1,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
      ],
      "buffer": {
        "name": "10 mM TRIS 150 mM NaCl",
        "concentration_unit": "mM",
        "comment": null,
        "additive": "NaCl 150.000 mM",
        "concentration": 10.0,
        "pka": null,
        "ph": 7.6,
        "deuteration": null
      },
      "purity_method": null,
      "name": "mLBS1-2 DNA",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": false
    },
    "contributor": [
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        "affiliation": [
          {
            "short_name": "EMBL-Hamburg",
            "address": "Notkestraße 85, Geb. 25A, 22607 Hamburg, Deutschland, Germany",
            "full_name": "European Molecular Biology Laboratory (EMBL) - Hamburg outstation",
            "webpage": "http://www.embl-hamburg.de/index.php"
          }
        ],
        "contributor_name": "Maxim",
        "contributor_surname": "Petoukhov",
        "orcid": null
      }
    ],
    "concentration_method": null,
    "concentration_unit": "mg/ml",
    "date": "2013-04-27",
    "storage_temperature": null,
    "cell_temperature": 10.0,
    "exposure_time": 0.05,
    "number_of_frames": 20,
    "wavelength": 0.12,
    "sample_detector_distance": 3.1,
    "concentration_min": null,
    "concentration_max": 5.0,
    "sample_volume": null,
    "flow_rate": null,
    "s_min": 0.238,
    "s_max": 4.609,
    "total_exposure_time": null,
    "seccolumn": null
  },
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查看完整 manifest.json 原文

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Title	KSHV but not MHV-68 LANA induces a strong bend upon binding to terminal repeat viral DNA.
作者	Ponnusamy R, Petoukhov MV, Correia B, Custodio TF, Juillard F, Tan M, Pires de Miranda M, Carrondo MA, Simas JP, Kaye KM, Svergun DI, McVey CE
DOI / PMID	10.1093/nar/gkv987 / 26424851