Browse by MACROMOLECULE type: nucleic acid

SASDSK9 – SAM riboswitch element A aptamer domain

SAM riboswitch element A aptamer domain (RNA) experimental SAS data
SAM riboswitch element A aptamer domain (RNA) Kratky plot
Sample: SAM riboswitch element A aptamer domain (RNA) monomer, 39 kDa Listeria monocytogenes RNA
Buffer: 50 mM potassium phosphate, 135 mM NaCl, 5 mM MgCl2, pH: 6.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Jun 9
Functional Validation of SAM Riboswitch Element A from Listeria monocytogenes. Biochemistry (2024)
Hall I, Zablock K, Sobetski R, Weidmann CA, Keane SC
RgGuinier 3.2 nm
Dmax 11.7 nm
VolumePorod 76 nm3

SASDSL9 – SAM riboswitch element A aptamer domain with bound S-adenosyl-L-methionine (SAM)

SAM riboswitch element A aptamer domain (RNA)S-adenosyl-L-methionine experimental SAS data
SAM riboswitch element A aptamer domain (RNA) S-adenosyl-L-methionine Kratky plot
Sample: SAM riboswitch element A aptamer domain (RNA) monomer, 39 kDa Listeria monocytogenes RNA
S-adenosyl-L-methionine monomer, 0 kDa
Buffer: 50 mM potassium phosphate, 135 mM NaCl, 5 mM MgCl2, pH: 6.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Jun 9
Functional Validation of SAM Riboswitch Element A from Listeria monocytogenes. Biochemistry (2024)
Hall I, Zablock K, Sobetski R, Weidmann CA, Keane SC
RgGuinier 2.7 nm
Dmax 10.2 nm
VolumePorod 56 nm3

SASDSJ5 – 15mer poly-ADP ribose (PAR15) in 100mM NaCl

15mer of adenosine diphosphate ribose (poly-ADP ribose) experimental SAS data
OTHER [STATIC IMAGE] model
Sample: 15mer of adenosine diphosphate ribose (poly-ADP ribose) monomer, 8 kDa synthetic construct
Buffer: 100 mM NaCl, 20 mM Tris-HCl, pH: 7.4
Experiment: SAXS data collected at ID7A1 BioSAXS / HP-Bio Beamline, Cornell High Energy Synchrotron Source (CHESS) on 2022 Apr 21
Cation-induced intramolecular coil-to-globule transition in poly(ADP-ribose). Nat Commun 15(1):7901 (2024)
Wang T, Coshic K, Badiee M, McDonald MR, Aksimentiev A, Pollack L, Leung AKL
RgGuinier 2.4 nm
Dmax 10.0 nm
VolumePorod 15 nm3

SASDSK5 – 15mer poly-ADP ribose (PAR15) in 100mM NaCl + 1mM MgCl2

15mer of adenosine diphosphate ribose (poly-ADP ribose) experimental SAS data
OTHER [STATIC IMAGE] model
Sample: 15mer of adenosine diphosphate ribose (poly-ADP ribose) monomer, 8 kDa synthetic construct
Buffer: 20 mM Tris-HCl, 1 mM MgCl2, 100 mM NaCl, pH: 7.4
Experiment: SAXS data collected at ID7A1 BioSAXS / HP-Bio Beamline, Cornell High Energy Synchrotron Source (CHESS) on 2022 Apr 21
Cation-induced intramolecular coil-to-globule transition in poly(ADP-ribose). Nat Commun 15(1):7901 (2024)
Wang T, Coshic K, Badiee M, McDonald MR, Aksimentiev A, Pollack L, Leung AKL
RgGuinier 2.3 nm
Dmax 9.0 nm
VolumePorod 14 nm3

SASDSL5 – 22mer poly-ADP ribose (PAR22) in 100mM NaCl

22mer of adenosine diphosphate ribose (poly-ADP ribose) experimental SAS data
OTHER [STATIC IMAGE] model
Sample: 22mer of adenosine diphosphate ribose (poly-ADP ribose) monomer, 12 kDa synthetic construct
Buffer: 100 mM NaCl, 20 mM Tris-HCl, pH: 7.4
Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2022 Apr 21
Cation-induced intramolecular coil-to-globule transition in poly(ADP-ribose). Nat Commun 15(1):7901 (2024)
Wang T, Coshic K, Badiee M, McDonald MR, Aksimentiev A, Pollack L, Leung AKL
RgGuinier 3.3 nm
Dmax 14.0 nm
VolumePorod 32 nm3

SASDSM5 – 22mer poly-ADP ribose (PAR22) in 100mM NaCl + 1mM MgCl2

22mer of adenosine diphosphate ribose (poly-ADP ribose) experimental SAS data
OTHER [STATIC IMAGE] model
Sample: 22mer of adenosine diphosphate ribose (poly-ADP ribose) monomer, 12 kDa synthetic construct
Buffer: 20 mM Tris-HCl, 1 mM MgCl2, 100 mM NaCl, pH: 7.4
Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2022 Apr 21
Cation-induced intramolecular coil-to-globule transition in poly(ADP-ribose). Nat Commun 15(1):7901 (2024)
Wang T, Coshic K, Badiee M, McDonald MR, Aksimentiev A, Pollack L, Leung AKL
RgGuinier 2.6 nm
Dmax 10.5 nm
VolumePorod 21 nm3

SASDSP7 – 5’-terminal stem-loop 1 RNA element of SARS-CoV-2 (5_SL1)

5_SL1 experimental SAS data
DAMMIN model
Sample: 5_SL1 monomer, 9 kDa Severe acute respiratory … RNA
Buffer: 50 mM BisTris, 25 mM NaCl, pH: 6.2
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Dec 1
The 5'-terminal stem-loop RNA element of SARS-CoV-2 features highly dynamic structural elements that are sensitive to differences in cellular pH. Nucleic Acids Res (2024)
Toews S, Wacker A, Faison EM, Duchardt-Ferner E, Richter C, Mathieu D, Bottaro S, Zhang Q, Schwalbe H
RgGuinier 1.7 nm
Dmax 5.5 nm
VolumePorod 16 nm3

SASDSN5 – A and C rich mixed sequence single stranded RNA in 100mM NaCl

Mixed sequence single stranded RNA, rich in A and C bases experimental SAS data
Mixed sequence single stranded RNA, rich in A and C bases Kratky plot
Sample: Mixed sequence single stranded RNA, rich in A and C bases monomer, 10 kDa synthetic construct RNA
Buffer: 100 mM NaCl, 10 mM MOPS, 20 µM EDTA, pH: 7
Experiment: SAXS data collected at Xenocs BioXolver L with GeniX3D, University of Copenhagen, Department of Drug Design and Pharmacology on 2022 Aug 19
Mixed sequence single stranded RNA in 100mM NaCl
Tong Wang
RgGuinier 2.2 nm
Dmax 7.6 nm
VolumePorod 15 nm3

SASDKP6 – G-quadruplex DNA from Hepatitis B virus, wild type (HBV G4 WT)

HBV G4 WT experimental SAS data
DAMMIN model
Sample: HBV G4 WT monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Dec 15
HBV G-quad
Trushar Patel
RgGuinier 1.8 nm
Dmax 4.7 nm
VolumePorod 18 nm3

SASDKQ6 – G-quadruplex DNA from Hepatitis B virus, mutant (HBV G4 G1738A)

HBV G-quad G1738A experimental SAS data
DAMMIN model
Sample: HBV G-quad G1738A monomer, 7 kDa Hepatitis B virus DNA
Buffer: 20 mM HEPES, 100 mM KCl, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Sep 14
HBV G-quad
Trushar Patel
RgGuinier 1.9 nm
Dmax 5.3 nm
VolumePorod 21 nm3