Browse by ORGANISM: other species

SASDNH2 – Complex of Geobacter sulfurreducens pAgo with Sir2-like effector protein

Piwi domain proteinSir2 superfamily protein experimental SAS data
GASBOR model
Sample: Piwi domain protein monomer, 53 kDa Geobacter sulfurreducens (strain … protein
Sir2 superfamily protein monomer, 68 kDa Geobacter sulfurreducens (strain … protein
Buffer: 20 mM TrisHCl, pH 7.5, 5 mM MgCl2, 150 mM NaCl and 2 mM DTT, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Sep 27
Short prokaryotic Argonautes provide defence against incoming mobile genetic elements through NAD+ depletion Nature Microbiology (2022)
Zaremba M, Dakineviciene D, Golovinas E, Zagorskaitė E, Stankunas E, Lopatina A, Sorek R, Manakova E, Ruksenaite A, Silanskas A, Asmontas S, Grybauskas A, Tylenyte U, Jurgelaitis E, Grigaitis R, Timinskas K, Venclovas Č, Siksnys V
RgGuinier 3.6 nm
Dmax 11.4 nm
VolumePorod 185 nm3

SASDPD3 – Second exon splicing silencer 2p (ESS2p) RNA, apo

The second exon splicing silencer 2p experimental SAS data
AMBER model
Sample: The second exon splicing silencer 2p monomer, 14 kDa RNA
Buffer: 20 mM Bis-Tris, 20 mM NaCl, pH: 6.2
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2017 Nov 1
Encoded Conformational Dynamics of the HIV Splice Site A3 Regulatory Locus: Implications for Differential Binding of hnRNP Splicing Auxiliary Factors. J Mol Biol 434(18):167728 (2022)
Chiu LY, Emery A, Jain N, Sugarman A, Kendrick N, Luo L, Ford W, Swanstrom R, Tolbert BS
RgGuinier 2.1 nm
Dmax 6.9 nm
VolumePorod 21 nm3

SASDPK4 – His-tagged RdfS Excisionase monomeric in solution

DNA-binding protein experimental SAS data
His-tagged RdfS Excisionase monomeric in solution Rg histogram
Sample: DNA-binding protein monomer, 13 kDa Mesorhizobium loti protein
Buffer: 150 mM Tris-HCl, 300 mM NaCl, 5% v/v glycerol, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2019 Jun 19
Crystallographic and X-ray scattering study of RdfS, a recombination directionality factor from an integrative and conjugative element Acta Crystallographica Section D Structural Biology 78(10) (2022)
Verdonk C, Marshall A, Ramsay J, Bond C
RgGuinier 2.2 nm
Dmax 9.2 nm
VolumePorod 23 nm3

SASDPH7 – Urate Oxidase SEC-SAXS data (EMBL-P12 bioSAXS beam line at DESY)

Urate Oxidase (Uricase) from Aspergillus flavus experimental SAS data
Urate Oxidase (Uricase) from Aspergillus flavus Kratky plot
Sample: Urate Oxidase (Uricase) from Aspergillus flavus tetramer, 137 kDa Aspergillus flavus protein
Buffer: 100 mM Tris, 150 mM NaCl, 1 % v/v glycerol, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Sep 15
Small-Angle X-ray Scattering data (benchmarking/consensus): EMBL-P12 SAXS beam line, DESY
Clement Blanchet, Melissa Graewert, Cy M Jeffries, Dmitri Svergun
RgGuinier 3.2 nm
Dmax 8.8 nm
VolumePorod 221 nm3

SASDPJ7 – Urate Oxidase SEC-WAXS data (EMBL-P12 bioSAXS beam line at DESY)

Urate Oxidase (Uricase) from Aspergillus flavus experimental SAS data
Urate Oxidase (Uricase) from Aspergillus flavus Kratky plot
Sample: Urate Oxidase (Uricase) from Aspergillus flavus tetramer, 137 kDa Aspergillus flavus protein
Buffer: 100 mM Tris, 150 mM NaCl, 1 % v/v glycerol, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jul 8
Small-Angle X-ray Scattering data (benchmarking/consensus): EMBL-P12 SAXS beam line, DESY
Clement Blanchet, Melissa Graewert, Cy M Jeffries, Dmitri Svergun
RgGuinier 3.2 nm
Dmax 9.0 nm
VolumePorod 214 nm3

SASDPK7 – Xylose isomerase SEC-SAXS data (EMBL-P12 bioSAXS beam line at DESY)

Xylose isomerase experimental SAS data
Xylose isomerase Kratky plot
Sample: Xylose isomerase tetramer, 173 kDa Streptomyces rubiginosus protein
Buffer: 50 mM Tris, 100 mM NaCl, 1 mM MgCl2, 1 % v/v glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Sep 15
Small-Angle X-ray Scattering data (benchmarking/consensus): EMBL-P12 SAXS beam line, DESY
Clement Blanchet, Melissa Graewert, Cy M Jeffries, Dmitri Svergun
RgGuinier 3.2 nm
Dmax 14.1 nm
VolumePorod 228 nm3

SASDPL7 – Xylose isomerase SEC-WAXS data (EMBL-P12 bioSAXS beam line at DESY)

Xylose isomerase experimental SAS data
Xylose isomerase Kratky plot
Sample: Xylose isomerase tetramer, 173 kDa Streptomyces rubiginosus protein
Buffer: 50 mM Tris, 100 mM NaCl, 1 mM MgCl2, 1 % v/v glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jul 8
Small-Angle X-ray Scattering data (benchmarking/consensus): EMBL-P12 SAXS beam line, DESY
Clement Blanchet, Melissa Graewert, Cy M Jeffries, Dmitri Svergun
RgGuinier 3.3 nm
Dmax 14.1 nm
VolumePorod 233 nm3

SASDPM7 – Xylanase SEC-SAXS data (EMBL-P12 bioSAXS beam line at DESY)

Endo-1,4-beta-xylanase experimental SAS data
Endo-1,4-beta-xylanase Kratky plot
Sample: Endo-1,4-beta-xylanase monomer, 21 kDa Trichoderma longibrachiatum protein
Buffer: 50 mM HEPES, 150 mM KCl, 3% glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Sep 16
Small-Angle X-ray Scattering data (benchmarking/consensus): EMBL-P12 SAXS beam line, DESY
Clement Blanchet, Melissa Graewert, Cy M Jeffries, Dmitri Svergun
RgGuinier 1.6 nm
Dmax 4.8 nm
VolumePorod 25 nm3

SASDPN7 – Xylanase SEC-WAXS data (EMBL-P12 bioSAXS beam line at DESY)

Endo-1,4-beta-xylanase experimental SAS data
Endo-1,4-beta-xylanase Kratky plot
Sample: Endo-1,4-beta-xylanase monomer, 21 kDa Trichoderma longibrachiatum protein
Buffer: 50 mM Tris, 100 mM NaCl, 1% v/v glycerol, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jul 8
Small-Angle X-ray Scattering data (benchmarking/consensus): EMBL-P12 SAXS beam line, DESY
Clement Blanchet, Melissa Graewert, Cy M Jeffries, Dmitri Svergun
RgGuinier 1.6 nm
Dmax 4.5 nm
VolumePorod 24 nm3

SASDP56 – SARS-CoV-2 non-structural protein 8 (nsp8, dimer) in 250 mM NaCl buffer

Replicase polyprotein 1a (Non-structural protein 8, SARS-CoV-2) experimental SAS data
Replicase polyprotein 1a (Non-structural protein 8, SARS-CoV-2) Kratky plot
Sample: Replicase polyprotein 1a (Non-structural protein 8, SARS-CoV-2) dimer, 44 kDa Severe acute respiratory … protein
Buffer: 20 mM HEPES pH 7.4, 250 mM NaCl, pH: 7.4
Experiment: SANS data collected at BL01-Small Angle Neutron Scattering, China Spallation Neutron Source on 2021 Jul 19
Multiscale characterization reveals oligomerization dependent phase separation of primer-independent RNA polymerase nsp8 from SARS-CoV-2. Commun Biol 5(1):925 (2022)
Xu J, Jiang X, Zhang Y, Dong Y, Ma C, Jiang H, Zuo T, Chen R, Ke Y, Cheng H, Wang H, Liu J
RgGuinier 4.1 nm