SASDXF3

Multi-domain human O-GlcNAcase

数据类型:SASBDB 实验数据 状态:Published 曲线类型:Single concentration 最后更新:2025-11-26T16:04:08.969516+01:00

1. 样品、组分与实验条件 Sample & Experiment

样品 1 · Multi-domain human O-GlcNAcase

浓度— – 2.5 缓冲液 / pH25 mM Tris buffer, 150 mM NaCl, and 0.5 mM TCEP / 7.5
Experimental temperature20.0 设备 / 束线Department of Chemistry, iNANO building, Aarhus Uinversity / Bruker Nanostar w Excillum source
波长1.34 nm曝光1800.0 s × 1

分子组分

组分类型 / OrganismUniProt 与Construct寡聚状态Molecular weight
Protein O-GlcNAcase
查看序列
RFLCGVVEGFYGRPWVMEQRKELFRRLQKWELNTYLYAPKDDYKHRMFWREMYSVEEAEQLMTLISAAREYEIEFIYAISPGLDITFSNPKEVSTLKRKLDQVSQFGCRSFALLFDDIDHNMCAADKEVFSSFAHAQVSITNEIYQYLGEPETFLFCPTEYCGTFCYPNVSQSPYLRTVGEKLLPGIEVLWTGPKVVSKEIPVESIEEVSKIIKRAPVIWDNIHANDYDQKRLFLGPYKGRSTELIPRLKGVLTNPNCEFEANYVAIHTLATWYKNMNGVRKDVVMTDSEDSTVSIQIKLENEGSDEDIETDVLYSPQMALKLALTEWLQEFGVPHQYSSRGGGGSGGGGSVTLEDLQLLADLFYLPYEHGPKGAQMLREFQWLRANSSVVSVNCKGKDSEKIEEWRSRAAKFEEMCGLVMGMFTRLSNCANRTILYDMYSYVWDIKSIMSMVKSFVQWLGCRSHSSAQFLIGDQEPWAFRGGLAGEFQRLLPIDGANDLFFQPPPLTPTSKVYTIRPYFPKDEASVYKICREMYDDGVGLPFQSQPDLIGDKLVGGLLSLSLDYCFVLEDEDGICGYALGTVDVTPFIKKCKISWIPFMQEKYTKPNGDKELSEAEKIMLSFHEEQEVLPETFLANFPSLIKMDIHKKVTDPSVAKSMMACLLSSLKANGSRGAFCEVRPDDKRILEFYSKLGCFEIAKMEGFPKDVVILGRSL
proteinHomo sapiensO6050211–766dimer分子数 281.457 kDa

实验曲线

曲线点数 / 列q range误差质量负强度点来源文件
1105[4]0.00981300045–0.415697008 1/A含误差列缺失 00sasbdb/entries/f3/sasdxf3/source/SASDXF3.dat

2. SASBDB 报告的指标 Reported Results

指标方法数值误差单位
dmaxP(r)18.91Å
i0Guinier0.5272081/cm
i0P(r)0.52841/cm
mwExperimental278.0kDa
mwPorod278.0kDa
porod_volumePorod443.0ų
rgGuinier5.4350.301Å
rgP(r)5.52Å

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

拟合 1 · Other wlsq_symxv7XXLd

χ²:0.8276CorMap p:0.0单位:1/A
模型名称 / 类型软件Symmetry模型 MWPDB 声明来源文件
1atomicAlphaFold P1169.9模型 图片

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25 mM Tris buffer, 150 mM NaCl, and 0.5 mM 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2023-06-22储存 / 测量温度5.0 / 20.0
曝光时间1800.0帧数1
波长1.34样品-探测器距离0.9
光源X-ray in house探测器VÅNTEC-2000
机构 / 束线Department of Chemistry, iNANO building, Aarhus Uinversity / Bruker Nanostar w Excillum source · Aarhus C, Denmark
q range0.098 – 4.157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/f3/sasdxf3/source/SASDXF3.zipdownloaded194828d92d463a38e68791690e3dfa4b83946729b0c1c1c6245008e49cc958bcba4425Download查看原文件源站
pddfsasbdb/entries/f3/sasdxf3/source/SASDXF3.outdownloaded104570b4b4c6d1bdbb224aded5136a86d81e97ef4b9003db9b717bcc7a3b432123c52Download查看原文件源站
sascifsasbdb/entries/f3/sasdxf3/source/SASDXF3.sascifnot_availableDownload查看原文件源站
summarysasbdb/entries/f3/sasdxf3/source/summary.jsondownloaded7993233ed5deea4333c55cf5e80399e3d30c11dfeeb9b6bd506a1403f91156cc3f20Download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:156 个字段值
字段路径原始值
codeSASDXF3
statusPublished
type_of_curveSingle concentration
angular_unit1/A
project.titleMulti-domain O-GlcNAcase structures reveal allosteric regulatory mechanisms
project.publication.titleMulti-domain O-GlcNAcase structures reveal allosteric regulatory mechanisms
project.publication.author_listHansen S, Bartual S, Yuan H, Raimi O, Gorelik A, Ferenbach A, Lytje K, Pedersen J, Drace T, Boesen T, van Aalten D
project.publication.journalNature Communications
project.publication.doi10.1038/s41467-025-63893-2
project.publication.pmidnull
project.publication.published_date2025 Oct 03
project.statusreleased
project.submitted_date2025-07-14
project.released_date2025-09-11
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDXF3.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDXF3.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXF3_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXF3_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDXF3_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXF3_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDXF3.sascif
experiment.instrument.detector.typeMikroGap gas detector
experiment.instrument.detector.nameVÅNTEC-2000
experiment.instrument.detector.resolution200.0
experiment.instrument.nameDepartment of Chemistry, iNANO building, Aarhus Uinversity
experiment.instrument.cityAarhus C
experiment.instrument.countryDenmark
experiment.instrument.beamline_nameBruker Nanostar w Excillum source
experiment.instrument.beam_geometrynull
experiment.instrument.type_of_sourceX-ray in house
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_nameProtein O-GlcNAcase
experiment.sample.molecule[0].short_nameh-OGA
experiment.sample.molecule[0].sequenceRFLCGVVEGFYGRPWVMEQRKELFRRLQKWELNTYLYAPKDDYKHRMFWREMYSVEEAEQLMTLISAAREYEIEFIYAISPGLDITFSNPKEVSTLKRKLDQVSQFGCRSFALLFDDIDHNMCAADKEVFSSFAHAQVSITNEIYQYLGEPETFLFCPTEYCGTFCYPNVSQSPYLRTVGEKLLPGIEVLWTGPKVVSKEIPVESIEEVSKIIKRAPVIWDNIHANDYDQKRLFLGPYKGRSTELIPRLKGVLTNPNCEFEANYVAIHTLATWYKNMNGVRKDVVMTDSEDSTVSIQIKLENEGSDEDIETDVLYSPQMALKLALTEWLQEFGVPHQYSSRGGGGSGGGGSVTLEDLQLLADLFYLPYEHGPKGAQMLREFQWLRANSSVVSVNCKGKDSEKIEEWRSRAAKFEEMCGLVMGMFTRLSNCANRTILYDMYSYVWDIKSIMSMVKSFVQWLGCRSHSSAQFLIGDQEPWAFRGGLAGEFQRLLPIDGANDLFFQPPPLTPTSKVYTIRPYFPKDEASVYKICREMYDDGVGLPFQSQPDLIGDKLVGGLLSLSLDYCFVLEDEDGICGYALGTVDVTPFIKKCKISWIPFMQEKYTKPNGDKELSEAEKIMLSFHEEQEVLPETFLANFPSLIKMDIHKKVTDPSVAKSMMACLLSSLKANGSRGAFCEVRPDDKRILEFYSKLGCFEIAKMEGFPKDVVILGRSL
experiment.sample.molecule[0].organismHomo sapiens
experiment.sample.molecule[0].uniprot_codeO60502
experiment.sample.molecule[0].uniprot_range_first11
experiment.sample.molecule[0].uniprot_range_last766
experiment.sample.molecule[0].oligomerizationdimer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMVQKESQATLEERESELSSNPAASAGASLEPPAAPAPGEDNPAGAGGAAVAGAAGGARRF LCGVVEGFYGRPWVMEQRKELFRRLQKWELNTYLYAPKDDYKHRMFWREMYSVEEAEQLM TLISAAREYEIEFIYAISPGLDITFSNPKEVSTLKRKLDQVSQFGCRSFALLFDDIDHNM CAADKEVFSSFAHAQVSITNEIYQYLGEPETFLFCPTEYCGTFCYPNVSQSPYLRTVGEK LLPGIEVLWTGPKVVSKEIPVESIEEVSKIIKRAPVIWDNIHANDYDQKRLFLGPYKGRS TELIPRLKGVLTNPNCEFEANYVAIHTLATWYKSNMNGVRKDVVMTDSEDSTVSIQIKLE NEGSDEDIETDVLYSPQMALKLALTEWLQEFGVPHQYSSRQVAHSGAKASVVDGTPLVAA PSLNATTVVTTVYQEPIMSQGAALSGEPTTLTKEEEKKQPDEEPMDMVVEKQEETDHKND NQILSEIVEAKMAEELKPMDTDKESIAESKSPEMSMQEDCISDIAPMQTDEQTNKEQFVP GPNEKPLYTAEPVTLEDLQLLADLFYLPYEHGPKGAQMLREFQWLRANSSVVSVNCKGKD SEKIEEWRSRAAKFEEMCGLVMGMFTRLSNCANRTILYDMYSYVWDIKSIMSMVKSFVQW LGCRSHSSAQFLIGDQEPWAFRGGLAGEFQRLLPIDGANDLFFQPPPLTPTSKVYTIRPY FPKDEASVYKICREMYDDGVGLPFQSQPDLIGDKLVGGLLSLSLDYCFVLEDEDGICGYA LGTVDVTPFIKKCKISWIPFMQEKYTKPNGDKELSEAEKIMLSFHEEQEVLPETFLANFP SLIKMDIHKKVTDPSVAKSMMACLLSSLKANGSRGAFCEVRPDDKRILEFYSKLGCFEIA KMEGFPKDVVILGRSL
experiment.sample.molecule[0].mw81.457
experiment.sample.molecule[0].total_mw162.914
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.buffer.name25 mM Tris buffer, 150 mM NaCl, and 0.5 mM 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.nameMulti-domain human O-GlcNAcase
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].addressAarhus, Denmark
experiment.contributor[0].affiliation[0].full_nameAarhus University
experiment.contributor[0].affiliation[0].webpagehttp://www.au.dk
experiment.contributor[0].contributor_nameJan Skov
experiment.contributor[0].contributor_surnamePedersen
experiment.contributor[0].orcidhttp://orcid.org/0000-0002-7768-0206
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2023-06-22
experiment.storage_temperature5.0
experiment.cell_temperature20.0
experiment.exposure_time1800.0
experiment.number_of_frames1
experiment.wavelength1.34
experiment.sample_detector_distance0.9
experiment.concentration_minnull
experiment.concentration_max2.5
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.098
experiment.s_max4.157
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[0].models[0].model_plothttps://www.sasbdb.org/media/pdb_file/images/SASDXF3_fit1_model1_img.png
fits[0].models[0].softwareAlphaFold
fits[0].models[0].pdb_link[]
fits[0].models[0].model_titlenull
fits[0].models[0].type_of_modelatomic
fits[0].models[0].software_versionnull
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fits[0].models[0].model_mw169.9
fits[0].models[0].bead_radiusnull
fits[0].models[0].lognull
fits[0].models[0].symmetryP1
fits[0].models[0].commentnull
fits[0].models[0].user560
fits[0].fit_unit1/A
fits[0].fit_plothttps://www.sasbdb.org/media/fitting_files/scattering_plots/SASDXF3_fit1_fixed_fit_img.png
fits[0].softwareOther
fits[0].chi_square_value0.8276
fits[0].p_value0.0
fits[0].fit_residual_plotSASDXF3_fit1_fitresiduals_img.png
fits[0].fit_datahttps://www.sasbdb.org/media/fitting_files/SASDXF3_fit1.fit
fits[0].fit_lognull
fits[0].software_versionwlsq_symxv7XXLd
fits[0].description
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_versionnull
i0_calibration_standardnull
descriptionnull
experiment_descriptionnull
tags[]
intensity_unit1/cm
experimental_mw278.0
experimental_mw_errornull
guinier_i0_mwnull
guinier_i0_mw_errornull
porod_mw278.0
porod_mw_errornull
pddf_i00.5284
pddf_i0_errornull
guinier_i00.527208
guinier_i0_errornull
pddf_rg5.52
pddf_rg_errornull
guinier_rg5.435
guinier_rg_error0.301
pddf_dmax18.91
pddf_dmax_errornull
porod_volume443.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first5
guinier_point_last18
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDXF3_datloglog_img.png
symmetrynull
last_modified2025-11-26T16:04:08.969516+01:00
bragg_peak[]
manifest.json:34 个字段值
字段路径原始值
codeSASDXF3
statussuccess
started_at2026-08-11T15:09:20.529136+00:00
finished_at2026-08-11T15:09:27.815125+00:00
source_last_modified2025-11-26T16:04:08.969516+01:00
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查看完整 summary.json 原文
{
  "code": "SASDXF3",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/A",
  "project": {
    "title": "Multi-domain O-GlcNAcase structures reveal allosteric regulatory mechanisms",
    "publication": {
      "title": "Multi-domain O-GlcNAcase structures reveal allosteric regulatory mechanisms",
      "author_list": "Hansen S, Bartual S, Yuan H, Raimi O, Gorelik A, Ferenbach A, Lytje K, Pedersen J, Drace T, Boesen T, van Aalten D",
      "journal": "Nature Communications",
      "doi": "10.1038/s41467-025-63893-2",
      "pmid": null,
      "published_date": "2025 Oct 03"
    },
    "status": "released",
    "submitted_date": "2025-07-14",
    "released_date": "2025-09-11"
  },
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  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDXF3.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXF3_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXF3_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDXF3_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDXF3_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDXF3.sascif",
  "experiment": {
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      "detector": {
        "type": "MikroGap gas detector",
        "name": "VÅNTEC-2000",
        "resolution": 200.0
      },
      "name": "Department of Chemistry, iNANO building, Aarhus Uinversity",
      "city": "Aarhus C",
      "country": "Denmark",
      "beamline_name": "Bruker Nanostar w Excillum source",
      "beam_geometry": null,
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}
查看完整 manifest.json 原文
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