SASDX67

Non Structural Protein 15 in complex with RNA 9mer

Data type: SASBDB experimental data Status: Published Curve type: Single concentration Last updated: 2025-09-17T14:35:36.817367+02:00

Small-angle X-ray scattering (SAXS) measurements were performed to characterize the solution structure of the SARS-CoV-2 Non-Structural Protein 15 (NSP15) in complex with a 9-mer RNA oligonucleotide (AAACGACAU) under catalytically relevant conditions. NSP15 is a uridine-specific endoribonuclease that functions as a hexamer. The SAXS sample was prepared in the presence of Mn²⁺ ions, which are essential for its enzymatic activity and RNA binding. The complex was modeled as a single scattering particle composed of six NSP15 monomers, each associated with a 9-mer RNA, and validated through molecular weight estimation from both I(0) and Porod analysis. The SAXS profile supports a monodisperse and compact hexameric assembly of NSP15 in solution. The data correlate well with the known crystallographic structure (e.g., PDB: 7N33), indicating the preservation of the oligomeric state and RNA interactions in solution under physiological ionic and metal conditions.

▼

1. Samples, Components and Experimental Conditions Sample & Experiment

Sample 1 · Non Structural Protein 15 in complex with RNA 9mer

Concentration— – 4.0 Buffer / pH20mM HEPES, 150mM Nacl / 7.5
Experimental temperature10.0 Facility / beamlineCSIR-Central Drug Research Institute / Anton Paar SAXSpace
Wavelength1.54 nmExposure900.0 s × 3

Molecular Components

ComponentType / organismUniProt and ConstructOligomeric StateMolecular weight
Non structural Protein 15
View sequence
MTIFAPQHKADFGIIDGHFNNFANNAQILAFNDFHKIIQQQINNAANTFAATGLCIGDKIVFHGAIHRNEILKFKRAFFKTFGQTNQQMQTTLAMAKITIHDMFKGIAFQFITFDKFIHGQFQKINFHLATRFKFLQITALGKIGFRQLLNNAIDFFVIVELGFNCFTNQGNTIQARLFRTNARLQTFNATFGNQNTITCITKQVNLTIHTAIKKNGQRCTNGFGRFFCNIGHATNTNGANMCRCITFIIPDNGIGCNINTQIIQNFHFRNRFDITFCPQFKRNINRQCGFILKQFNINTIHFGIHGIVNNANRNFTLLTIKMAFVHNIKGNIFQAGSMRP
proteinSevere acute respiratory syndrome coronavirus 2P0DTD16465–6798monomerMolecule count 1233.3 kDa

Experimental Curves

CurvePoints / columnsq rangeUncertainty qualityNegative-intensity pointsSource file
1761[3]0.1258699–5.00087 1/nmHas uncertainty columnMissing 00sasbdb/entries/67/sasdx67/source/SASDX67.dat
▼

2. Measurements Reported by SASBDB Reported Results

MetricMethodValueUncertaintyUnit
dmaxP(r)13.83—nm
i0Guinier52508.4842.17arbitrary
i0P(r)51800.0—arbitrary
mwExperimental244.1—kDa
mwGuinier I(0)208.0—kDa
mwPorod222.0—kDa
porod_volumePorod356.0—nm³
rgGuinier4.720.18nm
rgP(r)4.660.417nm

These values are reported by SASBDB; SAXSdb did not recalculate them from the experimental curve.

▼

3. Source Fits and Models Source Fits & Models

This entry has no source fit record.

▶

4. Source File Index Source Files

▶

5. Experiment Description and Publication Experiment & Publication

▼

6. Complete Source Record Complete Source Record

The following content comes directly from the SASBDB entry. Missing values are shown as “—”; SAXSdb does not infer undeclared units.

Open the original SASBDB entry

Buffer and Sample Properties

Buffer name20mM HEPES, 150mM NaclBuffer concentration—
pH7.5Additives—
Buffer description—
Purity measurement method—Extinction coefficient—
Absorbance—Scattering contrast—
Specific volume / dry volume— / —Mixture / deuteration— / —

Acquisition Conditions and Instrument

Measurement date2024-06-14Storage / measurement temperature10.0 / 10.0
Exposure time900.0Frames3
Wavelength1.54Sample-to-detector distance0.317
SourceX-ray in houseDetectorMythen2 R 1K
Facility / beamlineCSIR-Central Drug Research Institute / Anton Paar SAXSpace · Lucknow, India
q range0.126 – 5.001Sample volume / flow rate— / —

Original SASBDB Plots

Experimental I(q)
Experimental I(q)
Experimental I(q), log-log
Experimental I(q), log-log
Guinier plot
Guinier plot
Kratky plot
Kratky plot
P(r) plot
P(r) plot

Downloadable Files

CategoryFileStatusSizeChecksumDownload and View
curvesasbdb/entries/67/sasdx67/source/SASDX67.datdownloaded35069653e975548e551e66f42e7c5b42e3f6f1b6251af6ec6c13846868b849c12ef4bDownloadView source fileSource site
full_entry_zipsasbdb/entries/67/sasdx67/source/SASDX67.zipdownloaded186469d3b8f12ea604cb6de59c52b8cad7491e432d8f1114bd8636b29e2abe63a099cDownloadView source fileSource site
pddfsasbdb/entries/67/sasdx67/source/SASDX67.outdownloaded2756287c09fb18d317972b9541c4418a3c308e305b47c890082eac86bf8870afcc9f1DownloadView source fileSource site
sascifsasbdb/entries/67/sasdx67/source/SASDX67.sascifnot_available——DownloadView source fileSource site
summarysasbdb/entries/67/sasdx67/source/summary.jsondownloaded14073ea9eef9b4331649d366a18fd4387f4d1c599a24e5e5dbb79e9140e391bee1dffDownloadView source fileSource site
curve:source record
{
  "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.dat",
  "role": "curve",
  "sha256": "653e975548e551e66f42e7c5b42e3f6f1b6251af6ec6c13846868b849c12ef4b",
  "size": 35069,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/intensities_files/SASDX67.dat"
}
full_entry_zip:source record and ZIP contents (2 items)
{
  "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.zip",
  "role": "full_entry_zip",
  "sha256": "9d3b8f12ea604cb6de59c52b8cad7491e432d8f1114bd8636b29e2abe63a099c",
  "size": 18646,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/zip_directories/SASDX67.zip",
  "zip_member_count": 2,
  "zip_members": [
    {
      "crc32": "143195f2",
      "name": "SASDX67/experimental_data/SASDX67.dat",
      "size": 35069
    },
    {
      "crc32": "6509622f",
      "name": "SASDX67/pddf/SASDX67.out",
      "size": 27562
    }
  ],
  "zip_validation": "central_directory_readable"
}
pddf:source record
{
  "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.out",
  "role": "pddf",
  "sha256": "87c09fb18d317972b9541c4418a3c308e305b47c890082eac86bf8870afcc9f1",
  "size": 27562,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/media/p_of_R_files/SASDX67.out"
}
sascif:source record
{
  "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.sascif",
  "role": "sascif",
  "status": "not_available",
  "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDX67.sascif"
}
summary:source record
{
  "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/summary.json",
  "sha256": "ea9eef9b4331649d366a18fd4387f4d1c599a24e5e5dbb79e9140e391bee1dff",
  "size": 14073,
  "status": "downloaded",
  "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDX67/"
}

All source fields (unfiltered)

Every source field is expanded here, including empty values, list members and fields already shown above.

summary.json:129 field values
Field pathRaw value
codeSASDX67
statusPublished
type_of_curveSingle concentration
angular_unit1/nm
project.titleNon Structural Protein 15 in Complex with RNA 9mer Oligo of SARS CoV 2
project.publicationnull
project.statusreleased
project.submitted_date2025-07-30
project.released_date2025-08-05
pddf_datahttps://www.sasbdb.org/media/p_of_R_files/SASDX67.out
intensities_datahttps://www.sasbdb.org/media/intensities_files/SASDX67.dat
intensities_log_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX67_dat_img.png
intensities_kratky_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX67_kratky_img.png
pddf_plothttps://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDX67_pofr_img.png
intensities_guinier_plothttps://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX67_guinier_img.png
sascif_datahttps://www.sasbdb.org/media/sascif/sascif_files/SASDX67.sascif
experiment.instrument.detector.typeHybrid Photon Counting (HPC)
experiment.instrument.detector.nameMythen2 R 1K
experiment.instrument.detector.resolutionnull
experiment.instrument.nameCSIR-Central Drug Research Institute
experiment.instrument.cityLucknow
experiment.instrument.countryIndia
experiment.instrument.beamline_nameAnton Paar SAXSpace
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_nameNon structural Protein 15
experiment.sample.molecule[0].short_nameNSP15
experiment.sample.molecule[0].sequenceMTIFAPQHKADFGIIDGHFNNFANNAQILAFNDFHKIIQQQINNAANTFAATGLCIGDKIVFHGAIHRNEILKFKRAFFKTFGQTNQQMQTTLAMAKITIHDMFKGIAFQFITFDKFIHGQFQKINFHLATRFKFLQITALGKIGFRQLLNNAIDFFVIVELGFNCFTNQGNTIQARLFRTNARLQTFNATFGNQNTITCITKQVNLTIHTAIKKNGQRCTNGFGRFFCNIGHATNTNGANMCRCITFIIPDNGIGCNINTQIIQNFHFRNRFDITFCPQFKRNINRQCGFILKQFNINTIHFGIHGIVNNANRNFTLLTIKMAFVHNIKGNIFQAGSMRP
experiment.sample.molecule[0].organismSevere acute respiratory syndrome coronavirus 2
experiment.sample.molecule[0].uniprot_codeP0DTD1
experiment.sample.molecule[0].uniprot_range_first6465
experiment.sample.molecule[0].uniprot_range_last6798
experiment.sample.molecule[0].oligomerizationmonomer
experiment.sample.molecule[0].molecular_typeprotein
experiment.sample.molecule[0].uniprot_sequenceMESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQHLKDGTCGLVEVEKGV LPQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETLGVLVPHVGEIPVAYRK VLLRKNGNKGAGGHSYGADLKSFDLGDELGTDPYEDFQENWNTKHSSGVTRELMRELNGG AYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW YTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI RSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL PQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC AYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF SASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA ARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY ITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV GGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC VKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG TPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGGAPTKVTFGDDTVIEVQGYKSVN ITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVSELLTPLGIDLDEW SMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPL EFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV QTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN NAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQ HEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVE QKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDIN GNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTAVVIPTKKAGGTTEMLAKALRKV PTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLA HAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLND LNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEH FIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLL SLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYV LPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATAL LTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHAN LDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQ ESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYK GPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY PNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK KGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA CEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV DNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRC LNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKS PNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIAT YCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYV LGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHV VDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCA GSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSH FVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDV GDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQG FVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHIN AQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIAL KGGKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDI ASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGD FLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLE GSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVST SGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCL AYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDV SFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAAL CTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALND FSNSGSDVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDVVY CPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCVLKLKVDTANPK TPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNFTIKGSFLNGSCGSVGFNIDYDCV SFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNVLAWLYAAVINGDR WFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCASLKELLQNGMN GRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLLTILTSLLVLVQSTQW SLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSLATVAYFNMVYMPASWV MRIMTWLDMVDTSLSGFKLKDCVMYASAVVLLILMTARTVYDDGARRVWTLMNVLTLVYK VYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEYCPIFFITGNTLQCIM LVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKNSIDAFKL NIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILL AKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIASEFSSLPSYAAFATA QEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQARSED KRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLNIIPLTTAAKLMVVIPDYNTY KNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNLAWPLIVTALRANSAVKLQ NNELSPVALRQMSCAAGTTQTACTDDNALAYYNTTKGGRFVLALLSDLQDLKWARFPKSD GTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEV PANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQES FGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLKNTVCTVCGMWKGYG CSCDQLREPMLQSADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKF LKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDG DMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVEN PDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPG SGVPVVDSYYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFK YWDQTYHPNCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHF RELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQ TVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQ LLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALF AYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVV IGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSL SHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALL STDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNS TYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVY LPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYI RKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRC GACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHK PPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAE TLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIG EYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTL NISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDA LCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEI SMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDM FLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVV REFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSC NVNRFNVAITRAKVGILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKVI TGLHPTQAPTHLSVDTKFKTEGLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFIT REEAIRHVRAWIGFDVEGCHATREAVGTNLPLQLGFSTGVNLVAVPTGYVDTPNNTDFSR VSAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKNLSDRVVFVLWAHGFELTSM KYFVKIGPERTCCLCDRRATCFSTASDTYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQS NHDLYCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHM VVKAALLADKFPVLHDIGNPKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATHSD KFTDGVCLFWNCNVDRYPANSIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSA FVNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRLYL DAYNMMISAGFSLWVYKQFDTYNLWNTFTRLQSLENVAFNVVNKGHFDGQQGEVPVSIIN NTVYTKVDGVDVELFENKTTLPVNVAFELWAKRNIKPVPEVKILNNLGVDIAANTVIWDY KRDAPAHISTIGVCSMTDIAKKPTETICAPLTVFFDGRVDGQVDLFRNARNGVLITEGSV KGLQPSVGPKQASLNGVTLIGEAVKTQFNYYKKVDGVVQQLPETYFTQSRNLQEFKPRSQ MEIDFLELAMDEFIERYKLEGYAFEHIVYGDFSHSQLGGLHLLIGLAKRFKESPFELEDF IPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVVSKVVKVTIDYTEIS FMLWCKDGHVETFYPKLQSSQAWQPGVAMPNLYKMQRMLLEKCDLQNYGDSATLPKGIMM NVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLND FVSDADSTLIGDCATVHTANKWDLIISDMYDPKTKNVTKENDSKEGFFTYICGFIQQKLA LGGSVAIKITEHSWNADLYKLMGHFAWWTAFVTNVNASSSEAFLIGCNYLGKPREQIDGY VMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKEGQINDMILSLLSKGRLII RENNRVVISSDVLVNN
experiment.sample.molecule[0].mw233.3
experiment.sample.molecule[0].total_mw250.74
experiment.sample.molecule[0].number_molecules1
experiment.sample.molecule[0].complex_stateFalse
experiment.sample.molecule[0].deuterationnull
experiment.sample.molecule[0].molecule_sourcebiological
experiment.sample.molecule[0].molecule_descriptionThe sample comprises a hexameric assembly of NSP15 protein (monomer MW ≈ 38.88 kDa) with an estimated hexameric molecular weight of ~233.30 kDa. Each protein hexamer is complexed with six copies of a 9-nucleotide single-stranded RNA (sequence: AAACGACAU), contributing an additional ~17.45 kDa, yielding a total molecular weight of approximately 250.74 kDa. The RNA is presumed to bind symmetrically across the RNA-binding sites of the protein hexamer, maintaining a compact, globular assembly in solution.
experiment.sample.buffer.name20mM HEPES, 150mM Nacl
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.nameNon Structural Protein 15 in complex with RNA 9mer
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].addressIndia
experiment.contributor[0].affiliation[0].full_nameCSIR - Central Drug Research Institute
experiment.contributor[0].affiliation[0].webpagehttps://cdri.res.in/
experiment.contributor[0].contributor_nameHira Singh
experiment.contributor[0].contributor_surnameGariya
experiment.contributor[0].orcid
experiment.concentration_methodnull
experiment.concentration_unitnull
experiment.date2024-06-14
experiment.storage_temperature10.0
experiment.cell_temperature10.0
experiment.exposure_time900.0
experiment.number_of_frames3
experiment.wavelength1.54
experiment.sample_detector_distance0.317
experiment.concentration_minnull
experiment.concentration_max4.0
experiment.sample_volumenull
experiment.flow_ratenull
experiment.s_min0.126
experiment.s_max5.001
experiment.total_exposure_timenull
experiment.seccolumnnull
fits[]
estimated_volume_methodnull
pddf_softwareATSAS GNOM
pddf_software_version5.0
i0_calibration_standardnull
descriptionSmall-angle X-ray scattering (SAXS) measurements were performed to characterize the solution structure of the SARS-CoV-2 Non-Structural Protein 15 (NSP15) in complex with a 9-mer RNA oligonucleotide (AAACGACAU) under catalytically relevant conditions. NSP15 is a uridine-specific endoribonuclease that functions as a hexamer. The SAXS sample was prepared in the presence of Mn²⁺ ions, which are essential for its enzymatic activity and RNA binding. The complex was modeled as a single scattering particle composed of six NSP15 monomers, each associated with a 9-mer RNA, and validated through molecular weight estimation from both I(0) and Porod analysis. The SAXS profile supports a monodisperse and compact hexameric assembly of NSP15 in solution. The data correlate well with the known crystallographic structure (e.g., PDB: 7N33), indicating the preservation of the oligomeric state and RNA interactions in solution under physiological ionic and metal conditions.
experiment_descriptionnull
tags[]
intensity_unitarbitrary
experimental_mw244.1
experimental_mw_errornull
guinier_i0_mw208.0
guinier_i0_mw_errornull
porod_mw222.0
porod_mw_errornull
pddf_i051800.0
pddf_i0_errornull
guinier_i052508.4
guinier_i0_error842.17
pddf_rg4.66
pddf_rg_error0.417
guinier_rg4.72
guinier_rg_error0.18
pddf_dmax13.83
pddf_dmax_errornull
porod_volume356.0
porod_volume_errornull
estimated_volumenull
estimated_volume_errornull
guinier_point_first9
guinier_point_last30
pddf_point_firstnull
pddf_point_lastnull
i0_calibration_standard_datanull
intensities_log_log_plotSASDX67_datloglog_img.png
symmetrynull
last_modified2025-09-17T14:35:36.817367+02:00
bragg_peak[]
manifest.json:34 field values
Field pathRaw value
codeSASDX67
statussuccess
started_at2026-08-11T15:23:17.271806+00:00
finished_at2026-08-11T15:23:24.605774+00:00
source_last_modified2025-09-17T14:35:36.817367+02:00
files[0].statusdownloaded
files[0].urlhttps://www.sasbdb.org/rest-api/entry/summary/SASDX67/
files[0].path/data/saxsdb/sasbdb/entries/67/sasdx67/source/summary.json
files[0].size14073
files[0].sha256ea9eef9b4331649d366a18fd4387f4d1c599a24e5e5dbb79e9140e391bee1dff
files[1].statusdownloaded
files[1].urlhttps://www.sasbdb.org/media/intensities_files/SASDX67.dat
files[1].path/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.dat
files[1].size35069
files[1].sha256653e975548e551e66f42e7c5b42e3f6f1b6251af6ec6c13846868b849c12ef4b
files[1].rolecurve
files[2].statusdownloaded
files[2].urlhttps://www.sasbdb.org/media/p_of_R_files/SASDX67.out
files[2].path/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.out
files[2].size27562
files[2].sha25687c09fb18d317972b9541c4418a3c308e305b47c890082eac86bf8870afcc9f1
files[2].rolepddf
files[3].statusnot_available
files[3].urlhttps://www.sasbdb.org/media/sascif/sascif_files/SASDX67.sascif
files[3].path/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.sascif
files[3].rolesascif
files[4].statusdownloaded
files[4].urlhttps://www.sasbdb.org/media/zip_directories/SASDX67.zip
files[4].path/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.zip
files[4].size18646
files[4].sha2569d3b8f12ea604cb6de59c52b8cad7491e432d8f1114bd8636b29e2abe63a099c
files[4].rolefull_entry_zip
files[4].zip_member_count2
files[4].zip_validationcentral_directory_readable
View the complete summary.json source
{
  "code": "SASDX67",
  "status": "Published",
  "type_of_curve": "Single concentration",
  "angular_unit": "1/nm",
  "project": {
    "title": "Non Structural Protein 15 in Complex with RNA 9mer Oligo of  SARS CoV 2",
    "publication": null,
    "status": "released",
    "submitted_date": "2025-07-30",
    "released_date": "2025-08-05"
  },
  "pddf_data": "https://www.sasbdb.org/media/p_of_R_files/SASDX67.out",
  "intensities_data": "https://www.sasbdb.org/media/intensities_files/SASDX67.dat",
  "intensities_log_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX67_dat_img.png",
  "intensities_kratky_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX67_kratky_img.png",
  "pddf_plot": "https://www.sasbdb.org/media/p_of_R_files/pofr_images/SASDX67_pofr_img.png",
  "intensities_guinier_plot": "https://www.sasbdb.org/media/intensities_files/scattering_plots/SASDX67_guinier_img.png",
  "sascif_data": "https://www.sasbdb.org/media/sascif/sascif_files/SASDX67.sascif",
  "experiment": {
    "instrument": {
      "detector": {
        "type": "Hybrid Photon Counting (HPC)",
        "name": "Mythen2 R 1K",
        "resolution": null
      },
      "name": "CSIR-Central Drug Research Institute",
      "city": "Lucknow",
      "country": "India",
      "beamline_name": "Anton Paar SAXSpace",
      "beam_geometry": null,
      "type_of_source": "X-ray in house",
      "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": "Non structural Protein 15",
          "short_name": "NSP15",
          "sequence": "MTIFAPQHKADFGIIDGHFNNFANNAQILAFNDFHKIIQQQINNAANTFAATGLCIGDKIVFHGAIHRNEILKFKRAFFKTFGQTNQQMQTTLAMAKITIHDMFKGIAFQFITFDKFIHGQFQKINFHLATRFKFLQITALGKIGFRQLLNNAIDFFVIVELGFNCFTNQGNTIQARLFRTNARLQTFNATFGNQNTITCITKQVNLTIHTAIKKNGQRCTNGFGRFFCNIGHATNTNGANMCRCITFIIPDNGIGCNINTQIIQNFHFRNRFDITFCPQFKRNINRQCGFILKQFNINTIHFGIHGIVNNANRNFTLLTIKMAFVHNIKGNIFQAGSMRP",
          "organism": "Severe acute respiratory syndrome coronavirus 2",
          "uniprot_code": "P0DTD1",
          "uniprot_range_first": 6465,
          "uniprot_range_last": 6798,
          "oligomerization": "monomer",
          "molecular_type": "protein",
          "uniprot_sequence": "MESLVPGFNEKTHVQLSLPVLQVRDVLVRGFGDSVEEVLSEARQHLKDGTCGLVEVEKGV\nLPQLEQPYVFIKRSDARTAPHGHVMVELVAELEGIQYGRSGETLGVLVPHVGEIPVAYRK\nVLLRKNGNKGAGGHSYGADLKSFDLGDELGTDPYEDFQENWNTKHSSGVTRELMRELNGG\nAYTRYVDNNFCGPDGYPLECIKDLLARAGKASCTLSEQLDFIDTKRGVYCCREHEHEIAW\nYTERSEKSYELQTPFEIKLAKKFDTFNGECPNFVFPLNSIIKTIQPRVEKKKLDGFMGRI\nRSVYPVASPNECNQMCLSTLMKCDHCGETSWQTGDFVKATCEFCGTENLTKEGATTCGYL\nPQNAVVKIYCPACHNSEVGPEHSLAEYHNESGLKTILRKGGRTIAFGGCVFSYVGCHNKC\nAYWVPRASANIGCNHTGVVGEGSEGLNDNLLEILQKEKVNINIVGDFKLNEEIAIILASF\nSASTSAFVETVKGLDYKAFKQIVESCGNFKVTKGKAKKGAWNIGEQKSILSPLYAFASEA\nARVVRSIFSRTLETAQNSVRVLQKAAITILDGISQYSLRLIDAMMFTSDLATNNLVVMAY\nITGGVVQLTSQWLTNIFGTVYEKLKPVLDWLEEKFKEGVEFLRDGWEIVKFISTCACEIV\nGGQIVTCAKEIKESVQTFFKLVNKFLALCADSIIIGGAKLKALNLGETFVTHSKGLYRKC\nVKSREETGLLMPLKAPKEIIFLEGETLPTEVLTEEVVLKTGDLQPLEQPTSEAVEAPLVG\nTPVCINGLMLLEIKDTEKYCALAPNMMVTNNTFTLKGGAPTKVTFGDDTVIEVQGYKSVN\nITFELDERIDKVLNEKCSAYTVELGTEVNEFACVVADAVIKTLQPVSELLTPLGIDLDEW\nSMATYYLFDESGEFKLASHMYCSFYPPDEDEEEGDCEEEEFEPSTQYEYGTEDDYQGKPL\nEFGATSAALQPEEEQEEDWLDDDSQQTVGQQDGSEDNQTTTIQTIVEVQPQLEMELTPVV\nQTIEVNSFSGYLKLTDNVYIKNADIVEEAKKVKPTVVVNAANVYLKHGGGVAGALNKATN\nNAMQVESDDYIATNGPLKVGGSCVLSGHNLAKHCLHVVGPNVNKGEDIQLLKSAYENFNQ\nHEVLLAPLLSAGIFGADPIHSLRVCVDTVRTNVYLAVFDKNLYDKLVSSFLEMKSEKQVE\nQKIAEIPKEEVKPFITESKPSVEQRKQDDKKIKACVEEVTTTLEETKFLTENLLLYIDIN\nGNLHPDSATLVSDIDITFLKKDAPYIVGDVVQEGVLTAVVIPTKKAGGTTEMLAKALRKV\nPTDNYITTYPGQGLNGYTVEEAKTVLKKCKSAFYILPSIISNEKQEILGTVSWNLREMLA\nHAEETRKLMPVCVETKAIVSTIQRKYKGIKIQEGVVDYGARFYFYTSKTTVASLINTLND\nLNETLVTMPLGYVTHGLNLEEAARYMRSLKVPATVSVSSPDAVTAYNGYLTSSSKTPEEH\nFIETISLAGSYKDWSYSGQSTQLGIEFLKRGDKSVYYTSNPTTFHLDGEVITFDNLKTLL\nSLREVRTIKVFTTVDNINLHTQVVDMSMTYGQQFGPTYLDGADVTKIKPHNSHEGKTFYV\nLPNDDTLRVEAFEYYHTTDPSFLGRYMSALNHTKKWKYPQVNGLTSIKWADNNCYLATAL\nLTLQQIELKFNPPALQDAYYRARAGEAANFCALILAYCNKTVGELGDVRETMSYLFQHAN\nLDSCKRVLNVVCKTCGQQQTTLKGVEAVMYMGTLSYEQFKKGVQIPCTCGKQATKYLVQQ\nESPFVMMSAPPAQYELKHGTFTCASEYTGNYQCGHYKHITSKETLYCIDGALLTKSSEYK\nGPITDVFYKENSYTTTIKPVTYKLDGVVCTEIDPKLDNYYKKDNSYFTEQPIDLVPNQPY\nPNASFDNFKFVCDNIKFADDLNQLTGYKKPASRELKVTFFPDLNGDVVAIDYKHYTPSFK\nKGAKLLHKPIVWHVNNATNKATYKPNTWCIRCLWSTKPVETSNSFDVLKSEDAQGMDNLA\nCEDLKPVSEEVVENPTIQKDVLECNVKTTEVVGDIILKPANNSLKITEEVGHTDLMAAYV\nDNSSLTIKKPNELSRVLGLKTLATHGLAAVNSVPWDTIANYAKPFLNKVVSTTTNIVTRC\nLNRVCTNYMPYFFTLLLQLCTFTRSTNSRIKASMPTTIAKNTVKSVGKFCLEASFNYLKS\nPNFSKLINIIIWFLLLSVCLGSLIYSTAALGVLMSNLGMPSYCTGYREGYLNSTNVTIAT\nYCTGSIPCSVCLSGLDSLDTYPSLETIQITISSFKWDLTAFGLVAEWFLAYILFTRFFYV\nLGLAAIMQLFFSYFAVHFISNSWLMWLIINLVQMAPISAMVRMYIFFASFYYVWKSYVHV\nVDGCNSSTCMMCYKRNRATRVECTTIVNGVRRSFYVYANGGKGFCKLHNWNCVNCDTFCA\nGSTFISDEVARDLSLQFKRPINPTDQSSYIVDSVTVKNGSIHLYFDKAGQKTYERHSLSH\nFVNLDNLRANNTKGSLPINVIVFDGKSKCEESSAKSASVYYSQLMCQPILLLDQALVSDV\nGDSAEVAVKMFDAYVNTFSSTFNVPMEKLKTLVATAEAELAKNVSLDNVLSTFISAARQG\nFVDSDVETKDVVECLKLSHQSDIEVTGDSCNNYMLTYNKVENMTPRDLGACIDCSARHIN\nAQVAKSHNIALIWNVKDFMSLSEQLRKQIRSAAKKNNLPFKLTCATTRQVVNVVTTKIAL\nKGGKIVNNWLKQLIKVTLVFLFVAAIFYLITPVHVMSKHTDFSSEIIGYKAIDGGVTRDI\nASTDTCFANKHADFDTWFSQRGGSYTNDKACPLIAAVITREVGFVVPGLPGTILRTTNGD\nFLHFLPRVFSAVGNICYTPSKLIEYTDFATSACVLAAECTIFKDASGKPVPYCYDTNVLE\nGSVAYESLRPDTRYVLMDGSIIQFPNTYLEGSVRVVTTFDSEYCRHGTCERSEAGVCVST\nSGRWVLNNDYYRSLPGVFCGVDAVNLLTNMFTPLIQPIGALDISASIVAGGIVAIVVTCL\nAYYFMRFRRAFGEYSHVVAFNTLLFLMSFTVLCLTPVYSFLPGVYSVIYLYLTFYLTNDV\nSFLAHIQWMVMFTPLVPFWITIAYIICISTKHFYWFFSNYLKRRVVFNGVSFSTFEEAAL\nCTFLLNKEMYLKLRSDVLLPLTQYNRYLALYNKYKYFSGAMDTTSYREAACCHLAKALND\nFSNSGSDVLYQPPQTSITSAVLQSGFRKMAFPSGKVEGCMVQVTCGTTTLNGLWLDDVVY\nCPRHVICTSEDMLNPNYEDLLIRKSNHNFLVQAGNVQLRVIGHSMQNCVLKLKVDTANPK\nTPKYKFVRIQPGQTFSVLACYNGSPSGVYQCAMRPNFTIKGSFLNGSCGSVGFNIDYDCV\nSFCYMHHMELPTGVHAGTDLEGNFYGPFVDRQTAQAAGTDTTITVNVLAWLYAAVINGDR\nWFLNRFTTTLNDFNLVAMKYNYEPLTQDHVDILGPLSAQTGIAVLDMCASLKELLQNGMN\nGRTILGSALLEDEFTPFDVVRQCSGVTFQSAVKRTIKGTHHWLLLTILTSLLVLVQSTQW\nSLFFFLYENAFLPFAMGIIAMSAFAMMFVKHKHAFLCLFLLPSLATVAYFNMVYMPASWV\nMRIMTWLDMVDTSLSGFKLKDCVMYASAVVLLILMTARTVYDDGARRVWTLMNVLTLVYK\nVYYGNALDQAISMWALIISVTSNYSGVVTTVMFLARGIVFMCVEYCPIFFITGNTLQCIM\nLVYCFLGYFCTCYFGLFCLLNRYFRLTLGVYDYLVSTQEFRYMNSQGLLPPKNSIDAFKL\nNIKLLGVGGKPCIKVATVQSKMSDVKCTSVVLLSVLQQLRVESSSKLWAQCVQLHNDILL\nAKDTTEAFEKMVSLLSVLLSMQGAVDINKLCEEMLDNRATLQAIASEFSSLPSYAAFATA\nQEAYEQAVANGDSEVVLKKLKKSLNVAKSEFDRDAAMQRKLEKMADQAMTQMYKQARSED\nKRAKVTSAMQTMLFTMLRKLDNDALNNIINNARDGCVPLNIIPLTTAAKLMVVIPDYNTY\nKNTCDGTTFTYASALWEIQQVVDADSKIVQLSEISMDNSPNLAWPLIVTALRANSAVKLQ\nNNELSPVALRQMSCAAGTTQTACTDDNALAYYNTTKGGRFVLALLSDLQDLKWARFPKSD\nGTGTIYTELEPPCRFVTDTPKGPKVKYLYFIKGLNNLNRGMVLGSLAATVRLQAGNATEV\nPANSTVLSFCAFAVDAAKAYKDYLASGGQPITNCVKMLCTHTGTGQAITVTPEANMDQES\nFGGASCCLYCRCHIDHPNPKGFCDLKGKYVQIPTTCANDPVGFTLKNTVCTVCGMWKGYG\nCSCDQLREPMLQSADAQSFLNRVCGVSAARLTPCGTGTSTDVVYRAFDIYNDKVAGFAKF\nLKTNCCRFQEKDEDDNLIDSYFVVKRHTFSNYQHEETIYNLLKDCPAVAKHDFFKFRIDG\nDMVPHISRQRLTKYTMADLVYALRHFDEGNCDTLKEILVTYNCCDDDYFNKKDWYDFVEN\nPDILRVYANLGERVRQALLKTVQFCDAMRNAGIVGVLTLDNQDLNGNWYDFGDFIQTTPG\nSGVPVVDSYYSLLMPILTLTRALTAESHVDTDLTKPYIKWDLLKYDFTEERLKLFDRYFK\nYWDQTYHPNCVNCLDDRCILHCANFNVLFSTVFPPTSFGPLVRKIFVDGVPFVVSTGYHF\nRELGVVHNQDVNLHSSRLSFKELLVYAADPAMHAASGNLLLDKRTTCFSVAALTNNVAFQ\nTVKPGNFNKDFYDFAVSKGFFKEGSSVELKHFFFAQDGNAAISDYDYYRYNLPTMCDIRQ\nLLFVVEVVDKYFDCYDGGCINANQVIVNNLDKSAGFPFNKWGKARLYYDSMSYEDQDALF\nAYTKRNVIPTITQMNLKYAISAKNRARTVAGVSICSTMTNRQFHQKLLKSIAATRGATVV\nIGTSKFYGGWHNMLKTVYSDVENPHLMGWDYPKCDRAMPNMLRIMASLVLARKHTTCCSL\nSHRFYRLANECAQVLSEMVMCGGSLYVKPGGTSSGDATTAYANSVFNICQAVTANVNALL\nSTDGNKIADKYVRNLQHRLYECLYRNRDVDTDFVNEFYAYLRKHFSMMILSDDAVVCFNS\nTYASQGLVASIKNFKSVLYYQNNVFMSEAKCWTETDLTKGPHEFCSQHTMLVKQGDDYVY\nLPYPDPSRILGAGCFVDDIVKTDGTLMIERFVSLAIDAYPLTKHPNQEYADVFHLYLQYI\nRKLHDELTGHMLDMYSVMLTNDNTSRYWEPEFYEAMYTPHTVLQAVGACVLCNSQTSLRC\nGACIRRPFLCCKCCYDHVISTSHKLVLSVNPYVCNAPGCDVTDVTQLYLGGMSYYCKSHK\nPPISFPLCANGQVFGLYKNTCVGSDNVTDFNAIATCDWTNAGDYILANTCTERLKLFAAE\nTLKATEETFKLSYGIATVREVLSDRELHLSWEVGKPRPPLNRNYVFTGYRVTKNSKVQIG\nEYTFEKGDYGDAVVYRGTTTYKLNVGDYFVLTSHTVMPLSAPTLVPQEHYVRITGLYPTL\nNISDEFSSNVANYQKVGMQKYSTLQGPPGTGKSHFAIGLALYYPSARIVYTACSHAAVDA\nLCEKALKYLPIDKCSRIIPARARVECFDKFKVNSTLEQYVFCTVNALPETTADIVVFDEI\nSMATNYDLSVVNARLRAKHYVYIGDPAQLPAPRTLLTKGTLEPEYFNSVCRLMKTIGPDM\nFLGTCRRCPAEIVDTVSALVYDNKLKAHKDKSAQCFKMFYKGVITHDVSSAINRPQIGVV\nREFLTRNPAWRKAVFISPYNSQNAVASKILGLPTQTVDSSQGSEYDYVIFTQTTETAHSC\nNVNRFNVAITRAKVGILCIMSDRDLYDKLQFTSLEIPRRNVATLQAENVTGLFKDCSKVI\nTGLHPTQAPTHLSVDTKFKTEGLCVDIPGIPKDMTYRRLISMMGFKMNYQVNGYPNMFIT\nREEAIRHVRAWIGFDVEGCHATREAVGTNLPLQLGFSTGVNLVAVPTGYVDTPNNTDFSR\nVSAKPPPGDQFKHLIPLMYKGLPWNVVRIKIVQMLSDTLKNLSDRVVFVLWAHGFELTSM\nKYFVKIGPERTCCLCDRRATCFSTASDTYACWHHSIGFDYVYNPFMIDVQQWGFTGNLQS\nNHDLYCQVHGNAHVASCDAIMTRCLAVHECFVKRVDWTIEYPIIGDELKINAACRKVQHM\nVVKAALLADKFPVLHDIGNPKAIKCVPQADVEWKFYDAQPCSDKAYKIEELFYSYATHSD\nKFTDGVCLFWNCNVDRYPANSIVCRFDTRVLSNLNLPGCDGGSLYVNKHAFHTPAFDKSA\nFVNLKQLPFFYYSDSPCESHGKQVVSDIDYVPLKSATCITRCNLGGAVCRHHANEYRLYL\nDAYNMMISAGFSLWVYKQFDTYNLWNTFTRLQSLENVAFNVVNKGHFDGQQGEVPVSIIN\nNTVYTKVDGVDVELFENKTTLPVNVAFELWAKRNIKPVPEVKILNNLGVDIAANTVIWDY\nKRDAPAHISTIGVCSMTDIAKKPTETICAPLTVFFDGRVDGQVDLFRNARNGVLITEGSV\nKGLQPSVGPKQASLNGVTLIGEAVKTQFNYYKKVDGVVQQLPETYFTQSRNLQEFKPRSQ\nMEIDFLELAMDEFIERYKLEGYAFEHIVYGDFSHSQLGGLHLLIGLAKRFKESPFELEDF\nIPMDSTVKNYFITDAQTGSSKCVCSVIDLLLDDFVEIIKSQDLSVVSKVVKVTIDYTEIS\nFMLWCKDGHVETFYPKLQSSQAWQPGVAMPNLYKMQRMLLEKCDLQNYGDSATLPKGIMM\nNVAKYTQLCQYLNTLTLAVPYNMRVIHFGAGSDKGVAPGTAVLRQWLPTGTLLVDSDLND\nFVSDADSTLIGDCATVHTANKWDLIISDMYDPKTKNVTKENDSKEGFFTYICGFIQQKLA\nLGGSVAIKITEHSWNADLYKLMGHFAWWTAFVTNVNASSSEAFLIGCNYLGKPREQIDGY\nVMHANYIFWRNTNPIQLSSYSLFDMSKFPLKLRGTAVMSLKEGQINDMILSLLSKGRLII\nRENNRVVISSDVLVNN",
          "mw": 233.3,
          "total_mw": 250.74,
          "number_molecules": 1,
          "complex_state": false,
          "deuteration": null,
          "molecule_source": "biological",
          "molecule_description": "The sample comprises a hexameric assembly of NSP15 protein (monomer MW ≈ 38.88 kDa) with an estimated hexameric molecular weight of ~233.30 kDa. Each protein hexamer is complexed with six copies of a 9-nucleotide single-stranded RNA (sequence: AAACGACAU), contributing an additional ~17.45 kDa, yielding a total molecular weight of approximately 250.74 kDa. The RNA is presumed to bind symmetrically across the RNA-binding sites of the protein hexamer, maintaining a compact, globular assembly in solution."
        }
      ],
      "buffer": {
        "name": "20mM HEPES, 150mM Nacl",
        "concentration_unit": null,
        "comment": null,
        "additive": null,
        "concentration": null,
        "pka": null,
        "ph": 7.5,
        "deuteration": null
      },
      "purity_method": null,
      "name": "Non Structural Protein 15 in complex with RNA 9mer",
      "ext_coefficient": null,
      "contrast": null,
      "specific_vol": null,
      "dry_vol": null,
      "absorbption": null,
      "deuteration": null,
      "mixture": null
    },
    "contributor": [
      {
        "affiliation": [
          {
            "short_name": null,
            "address": "India",
            "full_name": "CSIR - Central Drug Research Institute",
            "webpage": "https://cdri.res.in/"
          }
        ],
        "contributor_name": "Hira Singh",
        "contributor_surname": "Gariya",
        "orcid": ""
      }
    ],
    "concentration_method": null,
    "concentration_unit": null,
    "date": "2024-06-14",
    "storage_temperature": 10.0,
    "cell_temperature": 10.0,
    "exposure_time": 900.0,
    "number_of_frames": 3,
    "wavelength": 1.54,
    "sample_detector_distance": 0.317,
    "concentration_min": null,
    "concentration_max": 4.0,
    "sample_volume": null,
    "flow_rate": null,
    "s_min": 0.126,
    "s_max": 5.001,
    "total_exposure_time": null,
    "seccolumn": null
  },
  "fits": [],
  "estimated_volume_method": null,
  "pddf_software": "ATSAS GNOM",
  "pddf_software_version": "5.0",
  "i0_calibration_standard": null,
  "description": "Small-angle X-ray scattering (SAXS) measurements were performed to characterize the solution structure of the SARS-CoV-2 Non-Structural Protein 15 (NSP15) in complex with a 9-mer RNA oligonucleotide (AAACGACAU) under catalytically relevant conditions. NSP15 is a uridine-specific endoribonuclease that functions as a hexamer. The SAXS sample was prepared in the presence of Mn²⁺ ions, which are essential for its enzymatic activity and RNA binding. \r\nThe complex was modeled as a single scattering particle composed of six NSP15 monomers, each associated with a 9-mer RNA, and validated through molecular weight estimation from both I(0) and Porod analysis. The SAXS profile supports a monodisperse and compact hexameric assembly of NSP15 in solution. The data correlate well with the known crystallographic structure (e.g., PDB: 7N33), indicating the preservation of the oligomeric state and RNA interactions in solution under physiological ionic and metal conditions.",
  "experiment_description": null,
  "tags": [],
  "intensity_unit": "arbitrary",
  "experimental_mw": 244.1,
  "experimental_mw_error": null,
  "guinier_i0_mw": 208.0,
  "guinier_i0_mw_error": null,
  "porod_mw": 222.0,
  "porod_mw_error": null,
  "pddf_i0": 51800.0,
  "pddf_i0_error": null,
  "guinier_i0": 52508.4,
  "guinier_i0_error": 842.17,
  "pddf_rg": 4.66,
  "pddf_rg_error": 0.417,
  "guinier_rg": 4.72,
  "guinier_rg_error": 0.18,
  "pddf_dmax": 13.83,
  "pddf_dmax_error": null,
  "porod_volume": 356.0,
  "porod_volume_error": null,
  "estimated_volume": null,
  "estimated_volume_error": null,
  "guinier_point_first": 9,
  "guinier_point_last": 30,
  "pddf_point_first": null,
  "pddf_point_last": null,
  "i0_calibration_standard_data": null,
  "intensities_log_log_plot": "SASDX67_datloglog_img.png",
  "symmetry": null,
  "last_modified": "2025-09-17T14:35:36.817367+02:00",
  "bragg_peak": []
}
View the complete manifest.json source
{
  "code": "SASDX67",
  "status": "success",
  "started_at": "2026-08-11T15:23:17.271806+00:00",
  "finished_at": "2026-08-11T15:23:24.605774+00:00",
  "source_last_modified": "2025-09-17T14:35:36.817367+02:00",
  "files": [
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/rest-api/entry/summary/SASDX67/",
      "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/summary.json",
      "size": 14073,
      "sha256": "ea9eef9b4331649d366a18fd4387f4d1c599a24e5e5dbb79e9140e391bee1dff"
    },
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/media/intensities_files/SASDX67.dat",
      "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.dat",
      "size": 35069,
      "sha256": "653e975548e551e66f42e7c5b42e3f6f1b6251af6ec6c13846868b849c12ef4b",
      "role": "curve"
    },
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/media/p_of_R_files/SASDX67.out",
      "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.out",
      "size": 27562,
      "sha256": "87c09fb18d317972b9541c4418a3c308e305b47c890082eac86bf8870afcc9f1",
      "role": "pddf"
    },
    {
      "status": "not_available",
      "url": "https://www.sasbdb.org/media/sascif/sascif_files/SASDX67.sascif",
      "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.sascif",
      "role": "sascif"
    },
    {
      "status": "downloaded",
      "url": "https://www.sasbdb.org/media/zip_directories/SASDX67.zip",
      "path": "/data/saxsdb/sasbdb/entries/67/sasdx67/source/SASDX67.zip",
      "size": 18646,
      "sha256": "9d3b8f12ea604cb6de59c52b8cad7491e432d8f1114bd8636b29e2abe63a099c",
      "role": "full_entry_zip",
      "zip_member_count": 2,
      "zip_validation": "central_directory_readable"
    }
  ]
}