Browse by MODEL: Hybrid

SASDPN2 – apo-Pyrococcus furiosus argonaute protein at 95 °C

Piwi domain-containing protein experimental SAS data
GASBOR model
Sample: Piwi domain-containing protein monomer, 91 kDa Pyrococcus furiosus (strain … protein
Buffer: 20 mM Tris–HCl, 250 mM NaCl, 2mM DTT, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 May 7
Argonaute protein SAXS investigation
lirong zheng
RgGuinier 3.2 nm
Dmax 9.7 nm
VolumePorod 187 nm3

SASDPP2 – apo-Pyrococcus furiosus argonaute protein with urea at 37 °C

Piwi domain-containing protein experimental SAS data
MOLECULAR DYNAMICS FRAME model
Sample: Piwi domain-containing protein monomer, 91 kDa Pyrococcus furiosus (strain … protein
Buffer: 20 mM Tris-HCl, 250 mM NaCl, 2 mM DTT, 6 M urea, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 Nov 17
Argonaute protein SAXS investigation
lirong zheng
RgGuinier 3.1 nm
Dmax 9.7 nm
VolumePorod 148 nm3

SASDPQ2 – apo-Clostridium butyricum argonaute protein at 10 °C

Clostridium butyricum argonaute protein experimental SAS data
MOLECULAR DYNAMICS FRAME model
Sample: Clostridium butyricum argonaute protein monomer, 86 kDa protein
Buffer: 20 mM Tris–HCl, 250 mM NaCl, 2mM DTT, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 May 7
Argonaute protein SAXS investigation
lirong zheng
RgGuinier 3.2 nm
Dmax 9.7 nm
VolumePorod 188 nm3

SASDPR2 – apo-Clostridium butyricum argonaute protein at 37 °C

Clostridium butyricum argonaute protein experimental SAS data
MOLECULAR DYNAMICS FRAME model
Sample: Clostridium butyricum argonaute protein monomer, 86 kDa protein
Buffer: 20 mM Tris–HCl, 250 mM NaCl, 2mM DTT, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 May 7
Argonaute protein SAXS investigation
lirong zheng
RgGuinier 3.2 nm
Dmax 9.7 nm
VolumePorod 185 nm3

SASDPS2 – apo-Thermus thermophilus argonaute protein at 10 °C

Piwi domain-containing protein experimental SAS data
MOLECULAR DYNAMICS FRAME model
Sample: Piwi domain-containing protein monomer, 77 kDa Thermus thermophilus (strain … protein
Buffer: 20 mM Tris–HCl, 250 mM NaCl, 2mM DTT, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 May 7
Argonaute protein SAXS investigation
lirong zheng
RgGuinier 3.1 nm
Dmax 9.7 nm
VolumePorod 122 nm3

SASDPT2 – apo-Thermus thermophilus argonaute protein at 25 °C

Piwi domain-containing protein experimental SAS data
MOLECULAR DYNAMICS FRAME model
Sample: Piwi domain-containing protein monomer, 77 kDa Thermus thermophilus (strain … protein
Buffer: 20 mM Tris–HCl, 250 mM NaCl, 2mM DTT, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 May 7
Argonaute protein SAXS investigation
lirong zheng
RgGuinier 3.1 nm
Dmax 9.7 nm
VolumePorod 120 nm3

SASDPU2 – apo-Thermus thermophilus argonaute protein at 75 °C

Piwi domain-containing protein experimental SAS data
MOLECULAR DYNAMICS FRAME model
Sample: Piwi domain-containing protein monomer, 77 kDa Thermus thermophilus (strain … protein
Buffer: 20 mM Tris–HCl, 250 mM NaCl, 2mM DTT, pH: 8
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2021 May 7
Argonaute protein SAXS investigation
lirong zheng
RgGuinier 3.3 nm
Dmax 9.7 nm
VolumePorod 175 nm3

SASDNV5 – Botulinum Toxin E at acidic pH

Botulinum Toxin Serotype E, endonegative experimental SAS data
GROMACS model
Sample: Botulinum Toxin Serotype E, endonegative monomer, 144 kDa Clostridium botulinum protein
Buffer: 10 mM sodium acetate (20 mM ionic strength), pH: 4
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Oct 6
Elucidation of critical pH-dependent structural changes in Botulinum Neurotoxin E. J Struct Biol :107876 (2022)
Lalaurie CJ, Splevins A, Barata TS, Bunting KA, Higazi DR, Zloh M, Spiteri VA, Perkins SJ, Dalby PA
RgGuinier 4.3 nm
Dmax 15.2 nm
VolumePorod 240 nm3

SASDNJ7 – Non-pre-microRNA stem loop 2 (NPSL2)

Non-pre-microRNA stem loop 2 experimental SAS data
PYMOL model
Sample: Non-pre-microRNA stem loop 2 monomer, 14 kDa Homo sapiens RNA
Buffer: 50 mM potassium phosphate buffer, 1 mM MgCl2, 50 mM NaCl, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Feb 20
Solution structure of NPSL2, a regulatory element in the oncomiR-1 RNA. J Mol Biol :167688 (2022)
Liu Y, Munsayac A, Hall I, Keane SC
RgGuinier 2.0 nm
Dmax 7.7 nm
VolumePorod 15 nm3

SASDMC4 – Plasmodium falciparum tyrosyl-tRNA synthetase

Tyrosine--tRNA ligase experimental SAS data
OTHER model
Sample: Tyrosine--tRNA ligase dimer, 87 kDa Plasmodium falciparum (isolate … protein
Buffer: 20 mM Tris-HCl, 150 mM NaCl, 0.5 mM TCEP, 0.1% sodium azide, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2021 Jun 4
Reaction hijacking of tyrosine tRNA synthetase as a new whole-of-life-cycle antimalarial strategy Science 376(6597):1074-1079 (2022)
Xie S, Metcalfe R, Dunn E, Morton C, Huang S, Puhalovich T, Du Y, Wittlin S, Nie S, Luth M, Ma L, Kim M, Pasaje C, Kumpornsin K, Giannangelo C, Houghton F, Churchyard A, Famodimu M, Barry D, Gillett D, Dey S, Kosasih C, Newman W, Niles J, Lee M, Baum J, Ottilie S, Winzeler E, Creek D, Williamson N, Parker M, Brand S, Langston S, Dick L, Griffin M, Gould A, Tilley L
RgGuinier 3.7 nm
Dmax 12.1 nm
VolumePorod 126 nm3