SASDVJ9

Human DNA methyltransferase 3 beta DNMT3B (215-853) and DNA methyltransferase 3-like DNMT3L (178-379) in complex with histone H3

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Single concentration 最后更新:2025-03-30T18:45:23.769847+02:00
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1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Human DNA methyltransferase 3 beta DNMT3B (215-853) and DNA methyltransferase 3-like DNMT3L (178-379) in complex with histone H3

浓度— – 5.0 缓冲液 / pH20 mM Tris, 300 mM NaCl, 1 mM TCEP, 5% glycerol / 8.0
实验温度10.0 设备 / 束线Taiwan Photon Source, NSRRC / 13A
波长0.0827 nm曝光0.2 s × 199

分子组分

组分类型 / 物种UniProt 与构建体寡聚状态分子量
Histone H3.3
查看序列
>MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPH
proteinHomo sapiensP842431–40dimer分子数 24.189 kDa
DNA methyltransferase 3 beta (215-853)
查看序列
SEYQDGKEFGIGDLVWGKIKGFSWWPAMVVSWKATSKRQAMSGMRWVQWFGDGKFSEVSADKLVALGLFSQHFNLATFNKLVSYRKAMYHALEKARVRAGKTFPSSPGDSLEDQLKPMLEWAHGGFKPTGIEGLKPNNTQPVVNKSKVRRAGSRKLESRKYENKTRRRTADDSATSDYCPAPKRLKTNCYNNGKDRGDEDQSREQMASDVANNKSSLEDGCLSCGRKNPVSFHPLFEGGLCQTCRDRFLELFYMYDDDGYQSYCTVCCEGRELLLCSNTSCCRCFCVECLEVLVGTGTAAEAKLQEPWSCYMCLPQRCHGVLRRRKDWNVRLQAFFTSDTGLEYEAPKLYPAIPAARRRPIRVLSLFDGIATGYLVLKELGIKVGKYVASEVCEESIAVGTVKHEGNIKYVNDVRNITKKNIEEWGPFDLVIGGSPCNDLSNVNPARKGLYEGTGRLFFEFYHLLNYSRPKEGDDRPFFWMFENVVAMKVGDKRDISRFLECNPVMIDAIKVSAAHRARYFWGNLPGMNRPVIASKNDKLELQDCLEYNRIAKLKKVQTITTKSNSIKQGKNQLFPVVMNGKEDVLWCTELERIFGFPVHYTDVSNMGRGARQKLLGRSWSVPVIRHLFAPLKDYFACE
proteinHomo sapiensQ9UBC3215–853dimer分子数 272.57 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
1355[3]0.0–0.54049 1/A含误差列缺失 00sasbdb/entries/j9/sasdvj9/source/SASDVJ9.dat
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2. SASBDB 报告的指标 Reported Results

指标方法数值误差单位
dmaxP(r)18.94—Å
i0Guinier0.168683——
i0P(r)0.1688——
mwExperimental200.798—kDa
mwPorod161.0—kDa
porod_volumePorod275.0—ų
rgGuinier5.1320.553Å
rgP(r)5.22—Å

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

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4. 来源文件索引 Source Files

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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20 mM Tris, 300 mM NaCl, 1 mM TCEP, 5% glycerol缓冲液浓度—
pH8.0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2021-04-16储存 / 测量温度4.0 / 10.0
曝光时间0.2帧数199
波长0.0827样品-探测器距离2.456
光源X-ray synchrotron探测器Eiger X 1M and Eiger X 9M
机构 / 束线Taiwan Photon Source, NSRRC / 13A · Hsinchu, Taiwan
q 范围0.0 – 5.405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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full_entry_zipsasbdb/entries/j9/sasdvj9/source/SASDVJ9.zipdownloaded54610e4daf2b6df4d1f4037d97f23a0efb26bafef4adb3413a47251c94e811fb2bbc6下载查看原文件源站
pddfsasbdb/entries/j9/sasdvj9/source/SASDVJ9.outdownloaded2368648c895b2aab41401cf9e652a39079c21647acc48cb319bf4e52255062a9d082e下载查看原文件源站
sascifsasbdb/entries/j9/sasdvj9/source/SASDVJ9.sascifnot_available——下载查看原文件源站
summarysasbdb/entries/j9/sasdvj9/source/summary.jsondownloaded860686485924c4b3be634eb6ef4a1b0990d85ee4a1fd2b4086ae4b0709ff799964e4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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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
codeSASDVJ9
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titleHistone modification-driven structural remodeling unleashes DNMT3B in DNA methylation.
project.publication.titleHistone modification-driven structural remodeling unleashes DNMT3B in DNA methylation.
project.publication.author_listCho CC, Huang HH, Jiang BC, Yang WZ, Chen YN, Yuan HS
project.publication.journalSci Adv
project.publication.doi10.1126/sciadv.adu8116
project.publication.pmid40138405
project.publication.published_date2025 Mar 28
project.statusreleased
project.submitted_date2024-11-09
project.released_date2025-01-25
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sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDVJ9.sascif
experiment.instrument.detector.typenull
experiment.instrument.detector.nameEiger X 1M and Eiger X 9M
experiment.instrument.detector.resolution75.0
experiment.instrument.nameTaiwan Photon Source, NSRRC
experiment.instrument.cityHsinchu
experiment.instrument.countryTaiwan
experiment.instrument.beamline_name13A
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_nameHistone H3.3
experiment.sample.molecule[0].short_nameH3.3
experiment.sample.molecule[0].sequence> MARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPH
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeP84243
experiment.sample.molecule[0].uniprot_range_first1
experiment.sample.molecule[0].uniprot_range_last40
experiment.sample.molecule[0].oligomerizationdimer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMARTKQTARKSTGGKAPRKQLATKAARKSAPSTGGVKKPHRYRPGTVALREIRRYQKSTE LLIRKLPFQRLVREIAQDFKTDLRFQSAAIGALQEASEAYLVGLFEDTNLCAIHAKRVTI MPKDIQLARRIRGERA
experiment.sample.molecule[0].mw4.189
experiment.sample.molecule[0].total_mw8.378
experiment.sample.molecule[0].number_molecules2
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.molecule[1].long_nameDNA methyltransferase 3 beta (215-853)
experiment.sample.molecule[1].short_nameDNMT3B (215-853)
experiment.sample.molecule[1].sequenceSEYQDGKEFGIGDLVWGKIKGFSWWPAMVVSWKATSKRQAMSGMRWVQWFGDGKFSEVSADKLVALGLFSQHFNLATFNKLVSYRKAMYHALEKARVRAGKTFPSSPGDSLEDQLKPMLEWAHGGFKPTGIEGLKPNNTQPVVNKSKVRRAGSRKLESRKYENKTRRRTADDSATSDYCPAPKRLKTNCYNNGKDRGDEDQSREQMASDVANNKSSLEDGCLSCGRKNPVSFHPLFEGGLCQTCRDRFLELFYMYDDDGYQSYCTVCCEGRELLLCSNTSCCRCFCVECLEVLVGTGTAAEAKLQEPWSCYMCLPQRCHGVLRRRKDWNVRLQAFFTSDTGLEYEAPKLYPAIPAARRRPIRVLSLFDGIATGYLVLKELGIKVGKYVASEVCEESIAVGTVKHEGNIKYVNDVRNITKKNIEEWGPFDLVIGGSPCNDLSNVNPARKGLYEGTGRLFFEFYHLLNYSRPKEGDDRPFFWMFENVVAMKVGDKRDISRFLECNPVMIDAIKVSAAHRARYFWGNLPGMNRPVIASKNDKLELQDCLEYNRIAKLKKVQTITTKSNSIKQGKNQLFPVVMNGKEDVLWCTELERIFGFPVHYTDVSNMGRGARQKLLGRSWSVPVIRHLFAPLKDYFACE
experiment.sample.molecule[1].organismHomo sapiens
experiment.sample.molecule[1].uniprot_codeQ9UBC3
experiment.sample.molecule[1].uniprot_range_first215
experiment.sample.molecule[1].uniprot_range_last853
experiment.sample.molecule[1].oligomerizationdimer
experiment.sample.molecule[1].molecular_typeprotein
experiment.sample.molecule[1].uniprot_sequenceMKGDTRHLNGEEDAGGREDSILVNGACSDQSSDSPPILEAIRTPEIRGRRSSSRLSKREV SSLLSYTQDLTGDGDGEDGDGSDTPVMPKLFRETRTRSESPAVRTRNNNSVSSRERHRPS PRSTRGRQGRNHVDESPVEFPATRSLRRRATASAGTPWPSPPSSYLTIDLTDDTEDTHGT PQSSSTPYARLAQDSQQGGMESPQVEADSGDGDSSEYQDGKEFGIGDLVWGKIKGFSWWP AMVVSWKATSKRQAMSGMRWVQWFGDGKFSEVSADKLVALGLFSQHFNLATFNKLVSYRK AMYHALEKARVRAGKTFPSSPGDSLEDQLKPMLEWAHGGFKPTGIEGLKPNNTQPVVNKS KVRRAGSRKLESRKYENKTRRRTADDSATSDYCPAPKRLKTNCYNNGKDRGDEDQSREQM ASDVANNKSSLEDGCLSCGRKNPVSFHPLFEGGLCQTCRDRFLELFYMYDDDGYQSYCTV CCEGRELLLCSNTSCCRCFCVECLEVLVGTGTAAEAKLQEPWSCYMCLPQRCHGVLRRRK DWNVRLQAFFTSDTGLEYEAPKLYPAIPAARRRPIRVLSLFDGIATGYLVLKELGIKVGK YVASEVCEESIAVGTVKHEGNIKYVNDVRNITKKNIEEWGPFDLVIGGSPCNDLSNVNPA RKGLYEGTGRLFFEFYHLLNYSRPKEGDDRPFFWMFENVVAMKVGDKRDISRFLECNPVM IDAIKVSAAHRARYFWGNLPGMNRPVIASKNDKLELQDCLEYNRIAKLKKVQTITTKSNS IKQGKNQLFPVVMNGKEDVLWCTELERIFGFPVHYTDVSNMGRGARQKLLGRSWSVPVIR HLFAPLKDYFACE
experiment.sample.molecule[1].mw72.57
experiment.sample.molecule[1].total_mw145.14
experiment.sample.molecule[1].number_molecules2
experiment.sample.molecule[1].complex_stateFalse
experiment.sample.molecule[1].deuterationnull
experiment.sample.molecule[1].molecule_sourcebiological
experiment.sample.molecule[1].molecule_description
experiment.sample.buffer.name20 mM Tris, 300 mM NaCl, 1 mM TCEP, 5% glycerol
experiment.sample.buffer.concentration_unitnull
experiment.sample.buffer.commentnull
experiment.sample.buffer.additivenull
experiment.sample.buffer.concentrationnull
experiment.sample.buffer.pkanull
experiment.sample.buffer.ph8.0
experiment.sample.buffer.deuterationnull
experiment.sample.purity_methodnull
experiment.sample.nameHuman DNA methyltransferase 3 beta DNMT3B (215-853) and DNA methyltransferase 3-like DNMT3L (178-379) in complex with histone H3
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].addressTaipei, Taiwan
experiment.contributor[0].affiliation[0].full_nameAcademia Sinica
experiment.contributor[0].affiliation[0].webpagehttps://www.sinica.edu.tw
experiment.contributor[0].contributor_nameCHAO-CHENG
experiment.contributor[0].contributor_surnameCHO
experiment.contributor[0].orcid
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2021-04-16
experiment.storage_temperature4.0
experiment.cell_temperature10.0
experiment.exposure_time0.2
experiment.number_of_frames199
experiment.wavelength0.0827
experiment.sample_detector_distance2.456
experiment.concentration_minnull
experiment.concentration_max5.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.0
experiment.s_max5.405
experiment.total_exposure_timenull
experiment.seccolumnnull
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fits[0].models[0].softwareGASBOR
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fits[0].models[0].model_titlenull
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fits[0].models[0].user1113
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fits[0].softwareGASBOR
fits[0].chi_square_value1.05
fits[0].p_value0.3129
fits[0].fit_residual_plotSASDVJ9_fit1_fitresiduals_img.png
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fits[0].fit_lognull
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fits[0].description
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionnull
experiment_descriptionnull
tags[]
intensity_unitnull
experimental_mw200.798
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw161.0
porod_mw_errornull
pddf_i00.1688
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guinier_i0_errornull
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pddf_rg_errornull
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guinier_rg_error0.553
pddf_dmax18.94
pddf_dmax_errornull
porod_volume275.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first34
guinier_point_last63
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDVJ9_datloglog_img.png
symmetrynull
last_modified2025-03-30T18:45:23.769847+02:00
bragg_peak[]
manifest.json:34 个字段值
字段路径原始值
codeSASDVJ9
statussuccess
started_at2026-08-11T16:46:08.255666+00:00
finished_at2026-08-11T16:46:15.367864+00:00
source_last_modified2025-03-30T18:45:23.769847+02:00
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查看完整 summary.json 原文
{
  "code": "SASDVJ9",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "Histone modification-driven structural remodeling unleashes DNMT3B in DNA methylation.",
    "publication": {
      "title": "Histone modification-driven structural remodeling unleashes DNMT3B in DNA methylation.",
      "author_list": "Cho CC, Huang HH, Jiang BC, Yang WZ, Chen YN, Yuan HS",
      "journal": "Sci Adv",
      "doi": "10.1126/sciadv.adu8116",
      "pmid": "40138405",
      "published_date": "2025 Mar 28"
    },
    "status": "released",
    "submitted_date": "2024-11-09",
    "released_date": "2025-01-25"
  },
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  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDVJ9.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDVJ9_dat_img.png",
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查看完整 manifest.json 原文
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