Browse by MODEL: Hybrid

SASDRF9 – Precursor microRNA 31

Precursor microRNA 31 experimental SAS data
DENSS model
Sample: Precursor microRNA 31 monomer, 23 kDa Homo sapiens RNA
Buffer: 50 mM potassium phosphate, 50 mM NaCl, 1 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2023 Mar 19
Structure of pre-miR-31 reveals an active role in Dicer-TRBP complex processing. Proc Natl Acad Sci U S A 120(39):e2300527120 (2023)
Ma S, Kotar A, Hall I, Grote S, Rouskin S, Keane SC
RgGuinier 2.9 nm
Dmax 10.6 nm
VolumePorod 31 nm3

SASDRQ8 – Bovine serum albumin monomer separated using asymmetric flow field flow fractionation (AFFFF)

Albumin experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Albumin monomer, 66 kDa Bos taurus protein
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 8
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
RgGuinier 2.9 nm
Dmax 9.0 nm
VolumePorod 104 nm3

SASDQQ8 – Endo-D-arabinanase, 54 kDa, dimer, Microbacterium arabinogalactanolyticum

Endo-D-arabinanase experimental SAS data
REFMAC model
Sample: Endo-D-arabinanase dimer, 107 kDa Microbacterium arabinogalactanolyticum protein
Buffer: 20 mM Tris-HCl, 200 mM NaCl, pH: 7.5
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2022 Nov 3
Identification and characterization of endo-α-, exo-α-, and exo-β-d-arabinofuranosidases degrading lipoarabinomannan and arabinogalactan of mycobacteria Nature Communications 14(1) (2023)
Shimokawa M, Ishiwata A, Kashima T, Nakashima C, Li J, Fukushima R, Sawai N, Nakamori M, Tanaka Y, Kudo A, Morikami S, Iwanaga N, Akai G, Shimizu N, Arakawa T, Yamada C, Kitahara K, Tanaka K, Ito Y, Fushinobu S, Fujita K
RgGuinier 3.1 nm
Dmax 10.4 nm
VolumePorod 131 nm3

SASDN98 – SvGT under calcium free conditions: Apo state

Glyco_trans_2-like domain-containing protein experimental SAS data
OTHER model
Sample: Glyco_trans_2-like domain-containing protein dimer, 96 kDa Streptomyces sp. M41(2017) protein
Buffer: 20 mM Tris, pH 7.5, 100 mM NaCl, and 2 mM DTT + 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR - Institute of Microbial Technology (IMTech) on 2019 Oct 18
Global shape of SvGT, a metal-dependent bacteriocin modifying S/O-HexNActransferase from actinobacteria: c -terminal dimerization modulates the function of this GT. J Biomol Struct Dyn :1-15 (2023)
Sharma Y, Ahlawat S, Ashish, Rao A
RgGuinier 4.4 nm
Dmax 17.0 nm
VolumePorod 151 nm3

SASDNA8 – SvGT under calcium free conditions: Mg2+ bound state

Glyco_trans_2-like domain-containing protein experimental SAS data
OTHER model
Sample: Glyco_trans_2-like domain-containing protein dimer, 96 kDa Streptomyces sp. M41(2017) protein
Buffer: 20 mM Tris, pH 7.5, 100 mM NaCl, 2 mM DTT, 1 mM EDTA, 2 mM MgCl2, pH: 7.5
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR - Institute of Microbial Technology (IMTech) on 2019 Oct 18
Global shape of SvGT, a metal-dependent bacteriocin modifying S/O-HexNActransferase from actinobacteria: c -terminal dimerization modulates the function of this GT. J Biomol Struct Dyn :1-15 (2023)
Sharma Y, Ahlawat S, Ashish, Rao A
RgGuinier 5.8 nm
Dmax 17.9 nm
VolumePorod 111 nm3

SASDS22 – Sulfite reductase flavoprotein crosslinked octamer

Sulfite reductase [NADPH] flavoprotein alpha-component experimental SAS data
SASREF model
Sample: Sulfite reductase [NADPH] flavoprotein alpha-component octamer, 530 kDa Escherichia coli (strain … protein
Buffer: 50 mM potassium phosphate, 100 mM NaCl, 1 mM EDTA, pH: 7.8
Experiment: SANS data collected at EQ-SANS, Spallation Neutron Source on 2022 Jun 24
Domain crossover in the reductase subunit of NADPH-dependent assimilatory sulfite reductase. J Struct Biol 215(4):108028 (2023)
Walia N, Murray DT, Garg Y, He H, Weiss KL, Nagy G, Elizabeth Stroupe M
RgGuinier 8.4 nm
Dmax 23.0 nm
VolumePorod 767 nm3

SASDSS5 – SARS-CoV-2 Main Protease H163A Mutant - 3.0 mg/mL

Replicase polyprotein 1ab, H3426A (3C-like proteinase nsp5 - H163A mutant) experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Replicase polyprotein 1ab, H3426A (3C-like proteinase nsp5 - H163A mutant) dimer, 67 kDa Severe acute respiratory … protein
Buffer: 25 mM HEPES, 1 mM TCEP, pH: 7.5
Experiment: SAXS data collected at ID7A1 BioSAXS / HP-Bio Beamline, Cornell High Energy Synchrotron Source (CHESS) on 2023 Mar 24
The H163A mutation unravels an oxidized conformation of the SARS-CoV-2 main protease. Nat Commun 14(1):5625 (2023)
Tran N, Dasari S, Barwell SAE, McLeod MJ, Kalyaanamoorthy S, Holyoak T, Ganesan A
RgGuinier 2.6 nm
Dmax 8.5 nm
VolumePorod 102 nm3

SASDSV5 – Dimeric structure of Zn-TtPetA (Ubiquinol-cytochrome c reductase)

Ubiquinol-cytochrome c reductase iron-sulfur subunit experimental SAS data
OTHER model
Sample: Ubiquinol-cytochrome c reductase iron-sulfur subunit dimer, 33 kDa Thermochromatium tepidum protein
Buffer: 10 mM Tris-HCl pH 7.6, 150 mM NaCl, 5% glycerol, pH: 7.6
Experiment: SAXS data collected at BL38B1, SPring-8 on 2023 Apr 26
Structure of a putative immature form of a Rieske-type iron-sulfur protein in complex with zinc chloride. Commun Chem 6(1):190 (2023)
Tsutsumi E, Niwa S, Takeda R, Sakamoto N, Okatsu K, Fukai S, Ago H, Nagao S, Sekiguchi H, Takeda K
RgGuinier 2.3 nm
Dmax 7.8 nm
VolumePorod 38 nm3

SASDSU6 – Palivizumab IgG

Palivizumab IgG experimental SAS data
CORAL model
Sample: Palivizumab IgG monomer, 145 kDa Commercial (Synagis) protein
Buffer: PBS (137 mM NaCl, 2.7 mM KCl, 12 mM HPO4 2−/H2PO4 −), pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Sep 14
Respiratory syncytial virus (RSV)-approved monoclonal antibody Palivizumab as ligand for anti-idiotype nanobody-based synthetic cytokine receptors Journal of Biological Chemistry :105270 (2023)
Ettich J, Wittich C, Moll J, Behnke K, Floss D, Reiners J, Christmann A, Lang P, Smits S, Kolmar H, Scheller J
RgGuinier 5.0 nm
Dmax 16.8 nm
VolumePorod 252 nm3

SASDSV6 – Nanobody AIP1 VHH

Anti-Idiotypic-Palivizumab-Nanobody1 experimental SAS data
CORAL model
Sample: Anti-Idiotypic-Palivizumab-Nanobody1 monomer, 20 kDa Lama glama protein
Buffer: PBS (137 mM NaCl, 2.7 mM KCl, 12 mM HPO4 2−/H2PO4 −), pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Sep 14
Respiratory syncytial virus (RSV)-approved monoclonal antibody Palivizumab as ligand for anti-idiotype nanobody-based synthetic cytokine receptors Journal of Biological Chemistry :105270 (2023)
Ettich J, Wittich C, Moll J, Behnke K, Floss D, Reiners J, Christmann A, Lang P, Smits S, Kolmar H, Scheller J
RgGuinier 2.6 nm
Dmax 8.8 nm
VolumePorod 31 nm3