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SASDLE7 – Polyribonucleotide nucleotidyltransferase (PNPase): 2-GMP complex

Polyribonucleotide nucleotidyltransferase experimental SAS data
DAMFILT model
Sample: Polyribonucleotide nucleotidyltransferase trimer, 237 kDa Campylobacter jejuni subsp. … protein
Buffer: 20 mM Tris.HCl, 10 mM NAH2PO4, 60 mM KCl, 1mM MgCl2, 2 mM DTT, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2020 Mar 17
Structure and function of Campylobacter jejuni polynucleotide phosphorylase (PNPase): Insights into the role of this RNase in pathogenicity. Biochimie (2023)
Bárria C, Athayde D, Hernandez G, Fonseca L, Casinhas J, Cordeiro TN, Archer M, Arraiano CM, Brito JA, Matos RG
RgGuinier 3.9 nm
Dmax 11.0 nm
VolumePorod 312 nm3

SASDRV7 – SARS-CoV-2 5' untranslated region stem-loop 4 RNA (5_SL4) in phosphate buffer

stem-loop 4 from SARS-CoV-2 5'-UTR experimental SAS data
stem-loop 4 from SARS-CoV-2 5'-UTR Kratky plot
Sample: Stem-loop 4 from SARS-CoV-2 5'-UTR monomer, 14 kDa SARS coronavirus 2-Wuhan RNA
Buffer: 25 mM potassium phosphate pH 6.5, 150 mM KCl, 2 mM TCEP, pH: 6.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 Aug 7
High-resolution structure of stem-loop 4 from the 5'-UTR of SARS-CoV-2 solved by solution state NMR. Nucleic Acids Res (2023)
Vögele J, Hymon D, Martins J, Ferner J, Jonker HRA, Hargrove AE, Weigand JE, Wacker A, Schwalbe H, Wöhnert J, Duchardt-Ferner E
RgGuinier 2.1 nm
Dmax 7.0 nm
VolumePorod 22 nm3

SASDR25 – Periplasmic domain of cholera toxin transcriptional activator ToxR

Cholera toxin transcriptional activator experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Cholera toxin transcriptional activator monomer, 12 kDa Vibrio cholerae serotype … protein
Buffer: 50 mM Na2HPO4, 300 mM NaCl, 3% glycerol, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Mar 6
Vibrio cholerae's ToxRS bile sensing system. Elife 12 (2023)
Gubensäk N, Sagmeister T, Buhlheller C, Geronimo BD, Wagner GE, Petrowitsch L, Gräwert MA, Rotzinger M, Berger TMI, Schäfer J, Usón I, Reidl J, Sánchez-Murcia PA, Zangger K, Pavkov-Keller T
RgGuinier 1.6 nm
Dmax 6.0 nm
VolumePorod 16 nm3

SASDR35 – Periplasmic domain of cholera transmembrane regulatory protein ToxS

Transmembrane regulatory protein ToxS experimental SAS data
ALPHAFOLD model
Sample: Transmembrane regulatory protein ToxS dimer, 37 kDa Vibrio cholerae serotype … protein
Buffer: 50 mM Na2HPO4, 300 mM NaCl, 3% glycerol, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Mar 6
Vibrio cholerae's ToxRS bile sensing system. Elife 12 (2023)
Gubensäk N, Sagmeister T, Buhlheller C, Geronimo BD, Wagner GE, Petrowitsch L, Gräwert MA, Rotzinger M, Berger TMI, Schäfer J, Usón I, Reidl J, Sánchez-Murcia PA, Zangger K, Pavkov-Keller T
RgGuinier 2.3 nm
Dmax 7.4 nm
VolumePorod 55 nm3

SASDR45 – A complex between the periplasmic domains of cholera toxin transcriptional activator ToxR and transmembrane regulatory protein ToxS

Cholera toxin transcriptional activatorTransmembrane regulatory protein ToxS experimental SAS data
CUSTOM IN-HOUSE model
Sample: Cholera toxin transcriptional activator monomer, 12 kDa Vibrio cholerae serotype … protein
Transmembrane regulatory protein ToxS dimer, 37 kDa Vibrio cholerae serotype … protein
Buffer: 50 mM Na2HPO4, 300 mM NaCl, 3% glycerol, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Mar 6
Vibrio cholerae's ToxRS bile sensing system. Elife 12 (2023)
Gubensäk N, Sagmeister T, Buhlheller C, Geronimo BD, Wagner GE, Petrowitsch L, Gräwert MA, Rotzinger M, Berger TMI, Schäfer J, Usón I, Reidl J, Sánchez-Murcia PA, Zangger K, Pavkov-Keller T
RgGuinier 2.1 nm
Dmax 6.6 nm
VolumePorod 51 nm3

SASDR55 – A complex between the periplasmic domains of cholera toxin transcriptional activator ToxR and transmembrane regulatory protein ToxS bound to bile salt

Cholera toxin transcriptional activatorTransmembrane regulatory protein ToxSbile acid: sodium cholate hydrate experimental SAS data
CUSTOM IN-HOUSE model
Sample: Cholera toxin transcriptional activator monomer, 12 kDa Vibrio cholerae serotype … protein
Transmembrane regulatory protein ToxS dimer, 37 kDa Vibrio cholerae serotype … protein
Bile acid: sodium cholate hydrate monomer, 0 kDa
Buffer: 50 mM Na2HPO4, 300 mM NaCl, 3% glycerol, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Jul 7
Vibrio cholerae's ToxRS bile sensing system. Elife 12 (2023)
Gubensäk N, Sagmeister T, Buhlheller C, Geronimo BD, Wagner GE, Petrowitsch L, Gräwert MA, Rotzinger M, Berger TMI, Schäfer J, Usón I, Reidl J, Sánchez-Murcia PA, Zangger K, Pavkov-Keller T
RgGuinier 2.4 nm
Dmax 6.6 nm
VolumePorod 60 nm3

SASDSH7 – Cationic liposomes containing DOTMA:DOPE (2:1) with negatively charged messenger RNA (mRNA) (raito 0.65:1)

mRNA -- proprietary sequence(R)-N,N,N-trimethyl-2-3-dioleyloxy-1-propanaminium chloride1,2-dioleoyl-sn-glycero-3-phosphoethanolamine experimental SAS data
OTHER [STATIC IMAGE] model
Sample: MRNA -- proprietary sequence, 400 kDa RNA
(R)-N,N,N-trimethyl-2-3-dioleyloxy-1-propanaminium chloride, 1 kDa lipid
1,2-dioleoyl-sn-glycero-3-phosphoethanolamine, 1 kDa lipid
Buffer: 10 mM HEPES, 5 mM NaCl, 0.1 mM EDTA, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Jun 9
Quantitative size-resolved characterization of mRNA nanoparticles by in-line coupling of asymmetrical-flow field-flow fractionation with small angle X-ray scattering. Sci Rep 13(1):15764 (2023)
Graewert MA, Wilhelmy C, Bacic T, Schumacher J, Blanchet C, Meier F, Drexel R, Welz R, Kolb B, Bartels K, Nawroth T, Klein T, Svergun D, Langguth P, Haas H

SASDSZ4 – HIV-1 Reverse Transcriptase heterodimer (p66/p51) unliganded form

Gag-Pol polyprotein (588-1147: Reverse transcriptase/ribonuclease H; p66)Gag-Pol polyprotein (588-1027: Reverse transcriptase p51; p51 RT) experimental SAS data
Gag-Pol polyprotein (588-1147: Reverse transcriptase/ribonuclease H; p66) Gag-Pol polyprotein (588-1027: Reverse transcriptase p51; p51 RT) Kratky plot
Sample: Gag-Pol polyprotein (588-1147: Reverse transcriptase/ribonuclease H; p66) monomer, 67 kDa Human immunodeficiency virus … protein
Gag-Pol polyprotein (588-1027: Reverse transcriptase p51; p51 RT) monomer, 53 kDa Human immunodeficiency virus … protein
Buffer: 20 mM Tris-HCl, 100 mM NaCl, 1 mM TCEP, pH: 7
Experiment: SAXS data collected at BL1.3W, Synchrotron Light Research Institute (SLRI) on 2017 Jun 19
Biophysical Characterization of p51 and p66 Monomers of HIV-1 Reverse Transcriptase with Their Inhibitors. Protein J (2023)
Seetaha S, Kamonsutthipaijit N, Yagi-Utsumi M, Seako Y, Yamaguchi T, Hannongbua S, Kato K, Choowongkomon K
RgGuinier 3.3 nm
Dmax 9.9 nm
VolumePorod 153 nm3

SASDS25 – HIV-1 Reverse Transcriptase heterodimer (p66/p51) bound with Nevirapine

Gag-Pol polyprotein (588-1147: Reverse transcriptase/ribonuclease H; p66)Gag-Pol polyprotein (588-1027: Reverse transcriptase p51; p51 RT) experimental SAS data
Gag-Pol polyprotein (588-1147: Reverse transcriptase/ribonuclease H; p66) Gag-Pol polyprotein (588-1027: Reverse transcriptase p51; p51 RT) Kratky plot
Sample: Gag-Pol polyprotein (588-1147: Reverse transcriptase/ribonuclease H; p66) monomer, 67 kDa Human immunodeficiency virus … protein
Gag-Pol polyprotein (588-1027: Reverse transcriptase p51; p51 RT) monomer, 53 kDa Human immunodeficiency virus … protein
Buffer: 20 mM Tris-HCl, 100 mM NaCl, 1 mM TCEP, pH: 7
Experiment: SAXS data collected at BL1.3W, Synchrotron Light Research Institute (SLRI) on 2017 Jun 19
Biophysical Characterization of p51 and p66 Monomers of HIV-1 Reverse Transcriptase with Their Inhibitors. Protein J (2023)
Seetaha S, Kamonsutthipaijit N, Yagi-Utsumi M, Seako Y, Yamaguchi T, Hannongbua S, Kato K, Choowongkomon K
RgGuinier 3.5 nm
Dmax 10.9 nm
VolumePorod 161 nm3

SASDS35 – HIV-1 Reverse Transcriptase monomer (p66 subunit with W401A mutation) unliganded form

Gag-Pol polyprotein (588-1147: W988A mutant; Reverse transcriptase/ribonuclease H; p66) experimental SAS data
Gag-Pol polyprotein (588-1147: W988A mutant; Reverse transcriptase/ribonuclease H; p66) Kratky plot
Sample: Gag-Pol polyprotein (588-1147: W988A mutant; Reverse transcriptase/ribonuclease H; p66) monomer, 67 kDa Human immunodeficiency virus … protein
Buffer: 20 mM Tris-HCl, 100 mM NaCl, 1 mM TCEP, pH: 7
Experiment: SAXS data collected at BL1.3W, Synchrotron Light Research Institute (SLRI) on 2017 Jun 19
Biophysical Characterization of p51 and p66 Monomers of HIV-1 Reverse Transcriptase with Their Inhibitors. Protein J (2023)
Seetaha S, Kamonsutthipaijit N, Yagi-Utsumi M, Seako Y, Yamaguchi T, Hannongbua S, Kato K, Choowongkomon K
RgGuinier 3.1 nm
Dmax 10.7 nm
VolumePorod 98 nm3