SASDAP8

kLBS1-2 DNA

数据类型：SASBDB 实验数据 状态：Published 曲线类型：Single concentration 最后更新：2019-12-06T13:07:15.624532+01:00

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 · kLBS1-2 DNA

浓度	— – 0.5 mg/ml	缓冲液 / pH	Tris / 7.6
实验温度	—	设备 / 束线	ESRF / BM29
波长	0.93 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
kLBS1-2 DNA	DNAunidentified herpesvirus	——–—	monomer分子数 1	24.0 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
1	1028[3]	0.103095–4.96744 1/nm	含误差列缺失 0	348	sasbdb/entries/p8/sasdap8/source/SASDAP8.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	0.5	nm
i0	Guinier	114.27	—	—
i0	P(r)	114.5	—	—
mw	Experimental	30.0	—	kDa
mw	Guinier I(0)	30.0	—	kDa
porod_volume	Porod	50.0	—	nm³
rg	Guinier	4.01	0.1	nm
rg	P(r)	4.13	—	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 · —

χ²：2.879CorMap 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	对称性	模型 MW	PDB 声明	来源文件
1	—atomic	CRYSOL	—	43.85	—	模型图片

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4. 来源文件索引 Source Files

类别	路径	下载状态	大小
curve	sasbdb/entries/p8/sasdap8/source/SASDAP8.dat	downloaded	47527
full_entry_zip	sasbdb/entries/p8/sasdap8/source/SASDAP8.zip	downloaded	76197
pddf	sasbdb/entries/p8/sasdap8/source/SASDAP8.out	downloaded	43477
sascif	sasbdb/entries/p8/sasdap8/source/SASDAP8.sascif	downloaded	401815
summary	sasbdb/entries/p8/sasdap8/source/summary.json	downloaded	6351

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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	Tris	缓冲液浓度	—
pH	7.6	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	2013-04-27	储存 / 测量温度	— / —
曝光时间	—	帧数	—
波长	0.93	样品-探测器距离	2.43
光源	X-ray synchrotron	探测器	Pilatus 1M
机构 / 束线	ESRF / BM29 · Grenoble, France
q 范围	0.103 – 4.967	样品体积 / 流速	— / —

SASBDB 原始图

可下载文件

类别	文件	状态	大小	校验值	下载与查看
curve	sasbdb/entries/p8/sasdap8/source/SASDAP8.dat	downloaded	47527	e2b0346312b333aa566b5949d8171bbc1dbb02fb5093b6522253fc98cb7f8d0c	下载查看原文件源站
full_entry_zip	sasbdb/entries/p8/sasdap8/source/SASDAP8.zip	downloaded	76197	2fdb68f18b76cbce1deaf83de69e4b9e258afea8583248d1f91db08df181651a	下载查看原文件源站
pddf	sasbdb/entries/p8/sasdap8/source/SASDAP8.out	downloaded	43477	d18147956751422b0d8e9d9a8c18538cbb6159e8ee160c0ebc19d21edb63b0b5	下载查看原文件源站
sascif	sasbdb/entries/p8/sasdap8/source/SASDAP8.sascif	downloaded	401815	bf261b6fde16d1fadbd68a5a3834ebf5626de723289272bea2be82d8891ce64d	下载查看原文件源站
summary	sasbdb/entries/p8/sasdap8/source/summary.json	downloaded	6351	053ee701a852742d59bd249d88a4c6fecb50ddbaa484206cce33fb8241fbdc35	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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  "url": "https://www.sasbdb.org/media/zip_directories/SASDAP8.zip",
  "zip_member_count": 4,
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      "name": "SASDAP8/pddf/SASDAP8.out",
      "size": 43477
    },
    {
      "crc32": "ac22d3f3",
      "name": "SASDAP8/SASDAP8_fit1.fit",
      "size": 45576
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      "name": "SASDAP8/SASDAP8_fit1_model1.pdb",
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pddf：来源记录

{
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  "status": "downloaded",
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sascif：来源记录

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  "role": "sascif",
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  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDAP8.sascif"
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summary：来源记录

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  "status": "downloaded",
  "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDAP8/"
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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	SASDAP8
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/SASDAP8.out
intensities_data	https://www.sasbdb.org/media/intensities_files/SASDAP8.dat
intensities_log_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAP8_dat_img.png
intensities_kratky_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAP8_kratky_img.png
pddf_plot	https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAP8_pofr_img.png
intensities_guinier_plot	https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAP8_guinier_img.png
sascif_data	https://www.sasbdb.org/media/sascif/sascif_files/SASDAP8.sascif
experiment.instrument.detector.type	Dectris
experiment.instrument.detector.name	Pilatus 1M
experiment.instrument.detector.resolution	172.0
experiment.instrument.name	ESRF
experiment.instrument.city	Grenoble
experiment.instrument.country	France
experiment.instrument.beamline_name	BM29
experiment.instrument.beam_geometry
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	kLBS1-2 DNA
experiment.sample.molecule[0].short_name	null
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	24.0
experiment.sample.molecule[0].total_mw	24.0
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	Tris
experiment.sample.buffer.concentration_unit	null
experiment.sample.buffer.comment	null
experiment.sample.buffer.additive	null
experiment.sample.buffer.concentration	null
experiment.sample.buffer.pka	null
experiment.sample.buffer.ph	7.6
experiment.sample.buffer.deuteration	null
experiment.sample.purity_method	null
experiment.sample.name	kLBS1-2 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	null
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	null
experiment.exposure_time	null
experiment.number_of_frames	null
experiment.wavelength	0.93
experiment.sample_detector_distance	2.43
experiment.concentration_min	null
experiment.concentration_max	0.5
experiment.sample_volume	null
experiment.flow_rate	null
experiment.s_min	0.103
experiment.s_max	4.967
experiment.total_exposure_time	null
experiment.seccolumn	null
fits[0].models[0].model_plot	https://www.sasbdb.org/media/pdb_file/images/SASDAP8_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/SASDAP8_fit1_model1.pdb
fits[0].models[0].model_mw	43.85
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/SASDAP8_fit1_fit_img.png
fits[0].software	null
fits[0].chi_square_value	2.879
fits[0].p_value	0.0
fits[0].fit_residual_plot	fit4columns289_fitresiduals_img.png
fits[0].fit_data	https://www.sasbdb.org/media/fitting_files/SASDAP8_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	30.0
guinier_i0_mw_error	null
porod_mw	null
porod_mw_error	null
pddf_i0	114.5
pddf_i0_error	null
guinier_i0	114.27
guinier_i0_error	null
pddf_rg	4.13
pddf_rg_error	null
guinier_rg	4.01
guinier_rg_error	0.1
pddf_dmax	16.0
pddf_dmax_error	0.5
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	SASDAP8_datloglog_img.png
symmetry	null
last_modified	2019-12-06T13:07:15.624532+01:00
bragg_peak	[]

manifest.json：36 个字段值

字段路径	原始值
code	SASDAP8
status	success
started_at	2026-08-11T15:57:40.148340+00:00
finished_at	2026-08-11T15:57:48.719823+00:00
source_last_modified	2019-12-06T13:07:15.624532+01:00
files[0].status	downloaded
files[0].url	https://www.sasbdb.org/rest-api/entry/summary/SASDAP8/
files[0].path	/data/saxsdb/sasbdb/entries/p8/sasdap8/source/summary.json
files[0].size	6351
files[0].sha256	053ee701a852742d59bd249d88a4c6fecb50ddbaa484206cce33fb8241fbdc35
files[1].status	downloaded
files[1].url	https://www.sasbdb.org/media/intensities_files/SASDAP8.dat
files[1].path	/data/saxsdb/sasbdb/entries/p8/sasdap8/source/SASDAP8.dat
files[1].size	47527
files[1].sha256	e2b0346312b333aa566b5949d8171bbc1dbb02fb5093b6522253fc98cb7f8d0c
files[1].role	curve
files[2].status	downloaded
files[2].url	https://www.sasbdb.org/media/p_of_R_files/SASDAP8.out
files[2].path	/data/saxsdb/sasbdb/entries/p8/sasdap8/source/SASDAP8.out
files[2].size	43477
files[2].sha256	d18147956751422b0d8e9d9a8c18538cbb6159e8ee160c0ebc19d21edb63b0b5
files[2].role	pddf
files[3].status	downloaded
files[3].url	https://www.sasbdb.org/media/sascif/sascif_files/SASDAP8.sascif
files[3].path	/data/saxsdb/sasbdb/entries/p8/sasdap8/source/SASDAP8.sascif
files[3].size	401815
files[3].sha256	bf261b6fde16d1fadbd68a5a3834ebf5626de723289272bea2be82d8891ce64d
files[3].role	sascif
files[4].status	downloaded
files[4].url	https://www.sasbdb.org/media/zip_directories/SASDAP8.zip
files[4].path	/data/saxsdb/sasbdb/entries/p8/sasdap8/source/SASDAP8.zip
files[4].size	76197
files[4].sha256	2fdb68f18b76cbce1deaf83de69e4b9e258afea8583248d1f91db08df181651a
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": "SASDAP8",
  "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/SASDAP8.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDAP8.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAP8_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAP8_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAP8_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAP8_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDAP8.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": "Dectris",
        "name": "Pilatus 1M",
        "resolution": 172.0
      },
      "name": "ESRF",
      "city": "Grenoble",
      "country": "France",
      "beamline_name": "BM29",
      "beam_geometry": "",
      "type_of_source": "X-ray synchrotron",
      "point_source": null,
      "line_collimation": null,
      "sample_path_length": null,
      "line_collimation_slitlength": null,
      "line_collimation_integrationwidth": null,
      "xray_energy": null,
      "beam_profile_ah": null,
      "beam_profile_al": null
    },
    "sample": {
      "molecule": [
        {
          "long_name": "kLBS1-2 DNA",
          "short_name": null,
          "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": 24.0,
          "total_mw": 24.0,
          "number_molecules": 1,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": null
        }
      ],
      "buffer": {
        "name": "Tris",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 7.6,
        "deuteration": null
      },
      "purity_method": null,
      "name": "kLBS1-2 DNA",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "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": null,
    "exposure_time": null,
    "number_of_frames": null,
    "wavelength": 0.93,
    "sample_detector_distance": 2.43,
    "concentration_min": null,
    "concentration_max": 0.5,
    "sample_volume": null,
    "flow_rate": null,
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查看完整 manifest.json 原文

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标题	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