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14 hits found for Koning

SASDT72 – GAGE6 60bp dsDNA oligonucleotide

GAGE6 60bp dsDNA oligo experimental SAS data
DAMMIN model
Sample: GAGE6 60bp dsDNA oligo monomer, 37 kDa Homo sapiens DNA
Buffer: 150 mM KCl, 20 mM HEPES, 5% glycerol, 5 mM MgCl2, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2023 Mar 14
Probing the statistics of sequence-dependent DNA conformations in solution using SAXS
Heidar Koning
RgGuinier 4.7 nm
Dmax 20.7 nm
VolumePorod 101 nm3

SASDNV2 – The pro-convertase formed by human FB and cobra venom factor (CVF)

Cobra venom factor experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Cobra venom factor monomer, 185 kDa Naja kaouthia protein
Buffer: 10 mM Tris 5 mM MgCl2 10 mM NaCl, pH: 7.4
Experiment: SAXS data collected at EMBL X33, DORIS III, DESY on 2007 Dec 19
Insights into complement convertase formation based on the structure of the factor B-cobra venom factor complex The EMBO Journal 28(16):2469-2478 (2009)
...Koning R, Svergun D, Koster A, Fritzinger D, Vogel C, Gros P
RgGuinier 4.6 nm
Dmax 15.0 nm
VolumePorod 384 nm3

SASDXD4 – Full-length human SFPQ dimer (protiated and deuterated)

Splicing factor, proline- and glutamine-rich experimental SAS data
Splicing factor, proline- and glutamine-rich Kratky plot
Sample: Splicing factor, proline- and glutamine-rich dimer, 153 kDa Homo sapiens protein
Buffer: 150 mM KCl, 1.5% glycerol, 20 mM HEPES, 1 mM DTT (in 100% H2O), pH: 7.4
Experiment: SANS data collected at Quokka - Small Angle Neutron Scattering, Australian Centre for Neutron Scattering (ANSTO) on 2023 Jan 23
Structural dynamics of IDR interactions in human SFPQ and implications for liquid–liquid phase separation Acta Crystallographica Section D Structural Biology 81(7):357-379 (2025)
Koning H, Lai V, Sethi A, Chakraborty S, Ang C, Fox A, Duff A, Whitten A, Marshall A, Bond C
RgGuinier 8.7 nm
Dmax 30.7 nm
VolumePorod 241000 nm3

SASDV57 – Full-length SFPQ in high salt buffer

Splicing factor, proline- and glutamine-rich experimental SAS data
Splicing factor, proline- and glutamine-rich Kratky plot
Sample: Splicing factor, proline- and glutamine-rich dimer, 153 kDa Homo sapiens protein
Buffer: 500mM KNO3, 20mM HEPES, 5% glycerol, 1mM DTT, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2022 Oct 22
Structural dynamics of IDR interactions in human SFPQ and implications for liquid–liquid phase separation Acta Crystallographica Section D Structural Biology 81(7):357-379 (2025)
Koning H, Lai V, Sethi A, Chakraborty S, Ang C, Fox A, Duff A, Whitten A, Marshall A, Bond C
RgGuinier 7.9 nm
Dmax 42.5 nm
VolumePorod 485 nm3

SASDV67 – Human Splicing Factor Proline/Glutamine rich SFPQ1 dimer with C-terminal truncation (delta599-707)

Splicing Factor Proline/Glutamine rich (1-598) experimental SAS data
Splicing Factor Proline/Glutamine rich (1-598) Kratky plot
Sample: Splicing Factor Proline/Glutamine rich (1-598) dimer, 130 kDa Homo sapiens protein
Buffer: 500mM KNO3, 20mM HEPES, 5% glycerol, 1mM DTT, pH: 7.4
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2023 Mar 13
Structural dynamics of IDR interactions in human SFPQ and implications for liquid–liquid phase separation Acta Crystallographica Section D Structural Biology 81(7):357-379 (2025)
Koning H, Lai V, Sethi A, Chakraborty S, Ang C, Fox A, Duff A, Whitten A, Marshall A, Bond C
RgGuinier 7.6 nm
Dmax 34.3 nm
VolumePorod 400 nm3

SASDV77 – Human Splicing Factor Proline/Glutamine rich SFPQ1 dimer with C-terminal truncation (delta599-707) in low salt buffer

Splicing Factor Proline/Glutamine rich (1-598) experimental SAS data
Splicing Factor Proline/Glutamine rich (1-598) Kratky plot
Sample: Splicing Factor Proline/Glutamine rich (1-598) dimer, 130 kDa Homo sapiens protein
Buffer: 150 mM KCl, 20 mM HEPES, 5% glycerol, 5 mM MgCl2, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2023 Mar 13
Structural dynamics of IDR interactions in human SFPQ and implications for liquid–liquid phase separation Acta Crystallographica Section D Structural Biology 81(7):357-379 (2025)
Koning H, Lai V, Sethi A, Chakraborty S, Ang C, Fox A, Duff A, Whitten A, Marshall A, Bond C
RgGuinier 6.1 nm
Dmax 28.0 nm
VolumePorod 315 nm3

SASDV87 – The 60bp dsDNA oligo GAGE6_1

GAGE6_1 experimental SAS data
GAGE6_1 Kratky plot
Sample: GAGE6_1 dimer, 37 kDa Homo sapiens DNA
Buffer: 150 mM KCl, 20 mM HEPES, 5% glycerol, 5 mM MgCl2, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2023 Nov 28
Probing the statistics of sequence-dependent DNA conformations in solution using SAXS
Heidar Koning
RgGuinier 5.1 nm
Dmax 19.2 nm
VolumePorod 67 nm3

SASDV97 – The 60bp dsDNA oligo GAGE6_2

GAGE6_2 experimental SAS data
GAGE6_2 Kratky plot
Sample: GAGE6_2 dimer, 37 kDa Homo sapiens DNA
Buffer: 150 mM KCl, 20 mM HEPES, 5% glycerol, 5 mM MgCl2, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2023 Nov 28
Probing the statistics of sequence-dependent DNA conformations in solution using SAXS
Heidar Koning
RgGuinier 5.2 nm
Dmax 18.4 nm
VolumePorod 72 nm3

SASDVA7 – The 60bp dsDNA oligo GAGE6_3

GAGE6_3 experimental SAS data
GAGE6_3 Kratky plot
Sample: GAGE6_3 dimer, 37 kDa Homo sapiens DNA
Buffer: 150 mM KCl, 20 mM HEPES, 5% glycerol, 5 mM MgCl2, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2023 Nov 28
Probing the statistics of sequence-dependent DNA conformations in solution using SAXS
Heidar Koning
RgGuinier 5.0 nm
Dmax 21.4 nm
VolumePorod 80 nm3

SASDXH7 – GAGE6 60bp dsDNA oligonucleotide

GAGE6 60bp dsDNA oligo experimental SAS data
DAMMIN model
Sample: GAGE6 60bp dsDNA oligo monomer, 37 kDa Homo sapiens DNA
Buffer: 150 mM KCl, 20 mM HEPES, 5% glycerol, 5 mM MgCl2, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2023 Mar 14
The 60bp GAGE6 dsDNA oligonucleotide
Heidar Koning
RgGuinier 4.8 nm
Dmax 19.5 nm
VolumePorod 101 nm3

SASDV59 – Human Splicing factor, proline- and glutamine-rich protein 5% SFPQ and 95% dSFPQ at a D2O matchpoint of 95%

Splicing factor, proline- and glutamine-rich experimental SAS data
Splicing factor, proline- and glutamine-rich Kratky plot
Sample: Splicing factor, proline- and glutamine-rich dimer, 153 kDa Homo sapiens protein
Buffer: 150 mM KCl, 0.075% glycerol, 20 mM HEPES, 0.5 mM DTT,, pH: 7.4
Experiment: SANS data collected at Quokka - Small Angle Neutron Scattering, Australian Centre for Neutron Scattering (ANSTO) on 2023 Jan 20
Structural dynamics of IDR interactions in human SFPQ and implications for liquid–liquid phase separation Acta Crystallographica Section D Structural Biology 81(7):357-379 (2025)
Koning H, Lai V, Sethi A, Chakraborty S, Ang C, Fox A, Duff A, Whitten A, Marshall A, Bond C
RgGuinier 6.1 nm
Dmax 22.0 nm
VolumePorod 181 nm3

SASDMV7 – The tetramer of splicing factor, proline- and glutamine-rich and Non-POU domain-containing octamer-binding protein (SFPQ214-598(R542C)/NONO53-312)

Splicing factor, proline- and glutamine-richNon-POU domain-containing octamer-binding protein experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Splicing factor, proline- and glutamine-rich dimer, 153 kDa Homo sapiens protein
Non-POU domain-containing octamer-binding protein dimer, 60 kDa Homo sapiens protein
Buffer: 20 mM Tris, 250 mM NaCl, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2019 Jun 18
Structural plasticity of the coiled-coil interactions in human SFPQ. Nucleic Acids Res (2024)
Koning HJ, Lai JY, Marshall AC, Stroeher E, Monahan G, Pullakhandam A, Knott GJ, Ryan TM, Fox AH, Whitten A, Lee M, Bond CS
RgGuinier 5.5 nm
Dmax 20.4 nm
VolumePorod 304 nm3

SASDMW8 – The disulphide-linked tetramer of splicing factor, proline- and glutamine-rich and Non-POU domain-containing octamer-binding protein (SFPQ276-598(R542C)/NONO53-312) at 0.78mg/ml

Non-POU domain-containing octamer-binding proteinSplicing factor, proline- and glutamine-rich SFPQ276-598(R542C)/NONO53-312 dimer) experimental SAS data
DAMMIF model
Sample: Non-POU domain-containing octamer-binding protein dimer, 60 kDa Homo sapiens protein
Splicing factor, proline- and glutamine-rich SFPQ276-598(R542C)/NONO53-312 dimer) dimer, 76 kDa Homo sapiens protein
Buffer: 20 mM Tris, 250 mM NaCl, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2015 Apr 28
Structural plasticity of the coiled-coil interactions in human SFPQ. Nucleic Acids Res (2024)
Koning HJ, Lai JY, Marshall AC, Stroeher E, Monahan G, Pullakhandam A, Knott GJ, Ryan TM, Fox AH, Whitten A, Lee M, Bond CS
RgGuinier 5.2 nm
Dmax 21.0 nm
VolumePorod 257 nm3

SASDMW7 – Concentration dependent dimer-tetramer transition of splicing factor, proline- and glutamine-rich with Non-POU domain-containing octamer-binding protein (SFPQ276-565/NONO53-312)

Splicing factor, proline- and glutamine-rich (276-565)Non-POU domain-containing octamer-binding protein (53-312) experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Splicing factor, proline- and glutamine-rich (276-565) monomer, 34 kDa Homo sapiens protein
Non-POU domain-containing octamer-binding protein (53-312) monomer, 30 kDa Homo sapiens protein
Buffer: 20 mM Tris, 250 mM NaCl, pH: 7.5
Experiment: SAXS data collected at SAXS/WAXS, Australian Synchrotron on 2015 Apr 28
Structural plasticity of the coiled-coil interactions in human SFPQ. Nucleic Acids Res (2024)
Koning HJ, Lai JY, Marshall AC, Stroeher E, Monahan G, Pullakhandam A, Knott GJ, Ryan TM, Fox AH, Whitten A, Lee M, Bond CS
RgGuinier 3.0 nm
Dmax 12.7 nm
VolumePorod 102 nm3