SASDAW5

XMRV RT + DNA/RNA hybrid

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

1. 样品、组分与实验条件 Sample & Experiment

样品 1 · XMRV RT + DNA/RNA hybrid

浓度— – — 缓冲液 / pH10 mM HEPES 100 mM KCl 5% Glycerol / 6.5
Experimental temperature10.0 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 / OrganismUniProt 与Construct寡聚状态Molecular weight
apo XMRV RT
查看序列
MSHHHHHHSATLNIEDEYRLHETSKEPDVPLGSTWLSDFPQAWAETGGMGLAVRQAPLIIPLKATSTPVSIKQYPMSQEARLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLDLKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAATSEQDCQRGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVMGQPTPKTPRQLREFLGTAGFCRLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRRPVAYLSKKLDPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVILAPHAVEALVKQPPDRWLSNARMTHYQAMLLDTDRVQFGPVVALNPATLLPLPEKEAPHDCLEILAETHGTRPDLTDQPIPDADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWARALPAGTSAQRAELIALTQALKMAEGKKLNVYTDSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILALLKALFLPKRLSIIHCPGHQKGNSAEARGNRMADQAAREAAMKAVLETSTLL
proteinEscherichia coli—–—monomer分子数 175.0 kDa
RNA_DNA hybrid substrate
查看序列
5'-UAGUCUCCAGAAAAAGGGGGGAAUG-3'5'-ATTCCCCCCTTTTTCTGGAGAC-3'
other—–—monomer分子数 115.0 kDa

实验曲线

曲线点数 / 列q range误差质量负强度点来源文件
12170[3]0.0854979–6.03197 1/nm含误差列缺失 0278sasbdb/entries/w5/sasdaw5/source/SASDAW5.dat

2. SASBDB 报告的指标 Reported Results

指标方法数值误差单位
dmaxP(r)11.5nm
i0Guinier78.3
i0P(r)77.0
mwExperimental90.5kDa
porod_volumePorod155.0nm³
rgGuinier3.5nm
rgP(r)3.55nm

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10 mM HEPES 100 mM KCl 5% Glycerol缓冲液浓度
pH6.5添加剂KCl 100.000 mM, glycerol 5.000 %
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2011-12-08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 range0.085 – 6.032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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full_entry_zipsasbdb/entries/w5/sasdaw5/source/SASDAW5.zipdownloaded293206fcf624125363684482c9f12777dcb5b84a3fa3fd34bc91e40b988a6552085016Download查看原文件源站
pddfsasbdb/entries/w5/sasdaw5/source/SASDAW5.outdownloaded41943c32bb4ff9711afe61fca5d93a7ccb3aa4e15755580413f4c2ceac21e4c028c1dDownload查看原文件源站
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summarysasbdb/entries/w5/sasdaw5/source/summary.jsondownloaded77422b9a22d3929249728eca9a24f654c73e0c13b1dcc4491cc94441dc763842db32Download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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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:173 个字段值
字段路径原始值
codeSASDAW5
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleStructural analysis of monomeric retroviral reverse transcriptase in complex with an RNA/DNA hybrid.
project.publication.titleStructural analysis of monomeric retroviral reverse transcriptase in complex with an RNA/DNA hybrid.
project.publication.author_listNowak E, Potrzebowski W, Konarev PV, Rausch JW, Bona MK, Svergun DI, Bujnicki JM, Le Grice SF, Nowotny M
project.publication.journalNucleic Acids Res
project.publication.doi10.1093/nar/gkt053
project.publication.pmid23382176
project.publication.published_date2013 Apr 1
project.statusreleased
project.submitted_datenull
project.released_date2015-07-07
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDAW5.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDAW5.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAW5_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAW5_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDAW5_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDAW5_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDAW5.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_nameapo XMRV RT
experiment.sample.molecule[0].short_nameXM
experiment.sample.molecule[0].sequenceMSHHHHHHSATLNIEDEYRLHETSKEPDVPLGSTWLSDFPQAWAETGGMGLAVRQAPLIIPLKATSTPVSIKQYPMSQEA RLGIKPHIQRLLDQGILVPCQSPWNTPLLPVKKPGTNDYRPVQDLREVNKRVEDIHPTVPNPYNLLSGLPPSHQWYTVLD LKDAFFCLRLHPTSQPLFAFEWRDPEMGISGQLTWTRLPQGFKNSPTLFDEALHRDLADFRIQHPDLILLQYVDDLLLAA TSEQDCQRGTRALLQTLGNLGYRASAKKAQICQKQVKYLGYLLKEGQRWLTEARKETVMGQPTPKTPRQLREFLGTAGFC RLWIPGFAEMAAPLYPLTKTGTLFNWGPDQQKAYQEIKQALLTAPALGLPDLTKPFELFVDEKQGYAKGVLTQKLGPWRR PVAYLSKKLDPVAAGWPPCLRMVAAIAVLTKDAGKLTMGQPLVILAPHAVEALVKQPPDRWLSNARMTHYQAMLLDTDRV QFGPVVALNPATLLPLPEKEAPHDCLEILAETHGTRPDLTDQPIPDADYTWYTDGSSFLQEGQRRAGAAVTTETEVIWAR ALPAGTSAQRAELIALTQALKMAEGKKLNVYTDSRYAFATAHVHGEIYRRRGLLTSEGREIKNKNEILALLKALFLPKRL SIIHCPGHQKGNSAEARGNRMADQAAREAAMKAVLETSTLL
experiment.sample.molecule[0].organismEscherichia coli
experiment.sample.molecule[0].uniprot_codenull
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_sequencenull
experiment.sample.molecule[0].mw75.0
experiment.sample.molecule[0].total_mw75.0
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.molecule[1].long_nameRNA_DNA hybrid substrate
experiment.sample.molecule[1].short_namePPT18
experiment.sample.molecule[1].sequence5'-UAGUCUCCAGAAAAAGGGGGGAAUG-3' 5'-ATTCCCCCCTTTTTCTGGAGAC-3'
experiment.sample.molecule[1].organismnull
experiment.sample.molecule[1].uniprot_codenull
experiment.sample.molecule[1].uniprot_range_firstnull
experiment.sample.molecule[1].uniprot_range_lastnull
experiment.sample.molecule[1].oligomerizationmonomer
experiment.sample.molecule[1].molecular_typeother
experiment.sample.molecule[1].uniprot_sequencenull
experiment.sample.molecule[1].mw15.0
experiment.sample.molecule[1].total_mw15.0
experiment.sample.molecule[1].number_molecules1
experiment.sample.molecule[1].complex_statenull
experiment.sample.molecule[1].deuterationnull
experiment.sample.molecule[1].molecule_sourcebiological
experiment.sample.molecule[1].molecule_descriptionnull
experiment.sample.buffer.name10 mM HEPES 100 mM KCl 5% Glycerol
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additiveKCl 100.000 mM, glycerol 5.000 %
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph6.5
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameXMRV RT + DNA/RNA hybrid
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_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_namePetr
experiment.contributor[0].contributor_surnameKonarev
experiment.contributor[0].orcidnull
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2011-12-08
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_maxnull
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.085
experiment.s_max6.032
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDAW5_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
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fits[0].models[0].model_mw90.75
fits[0].models[0].bead_radius0.0
fits[0].models[0].lognull
fits[0].models[0].symmetry
fits[0].models[0].comment
fits[0].models[0].user88
fits[0].fit_unit1/A
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fits[0].softwarenull
fits[0].chi_square_value1.28875
fits[0].p_value0.003393
fits[0].fit_residual_plotfit4columns130_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDAW5_fit1.fit
fits[0].fit_lognull
fits[0].software_versionnull
fits[0].descriptionnull
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionGNOM
i0_calibration_standardnull
descriptionnull
experiment_descriptionnull
tags[0]X33
intensity_unitnull
experimental_mw90.5
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mwnull
porod_mw_errornull
pddf_i077.0
pddf_i0_errornull
guinier_i078.3
guinier_i0_errornull
pddf_rg3.55
pddf_rg_errornull
guinier_rg3.5
guinier_rg_errornull
pddf_dmax11.5
pddf_dmax_errornull
porod_volume155.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first8
guinier_point_last99
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDAW5_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
codeSASDAW5
statussuccess
started_at2026-08-11T14:57:33.122642+00:00
finished_at2026-08-11T14:57:44.358322+00:00
source_last_modified2023-05-25T11:21:52.654103+02:00
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查看完整 summary.json 原文
{
  "code": "SASDAW5",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Structural analysis of monomeric retroviral reverse transcriptase in complex with an RNA/DNA hybrid.",
    "publication": {
      "title": "Structural analysis of monomeric retroviral reverse transcriptase in complex with an RNA/DNA hybrid.",
      "author_list": "Nowak E, Potrzebowski W, Konarev PV, Rausch JW, Bona MK, Svergun DI, Bujnicki JM, Le Grice SF, Nowotny M",
      "journal": "Nucleic Acids Res",
      "doi": "10.1093/nar/gkt053",
      "pmid": "23382176",
      "published_date": "2013 Apr 1"
    },
    "status": "released",
    "submitted_date": null,
    "released_date": "2015-07-07"
  },
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      "city": "Hamburg",
      "country": "Germany",
      "beamline_name": "EMBL X33",
      "beam_geometry": "0.60",
      "type_of_source": "X-ray synchrotron",
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      "xray_energy": null,
      "beam_profile_ah": null,
      "beam_profile_al": null
    },
    "sample": {
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查看完整 manifest.json 原文
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