Browse by MODEL: Ab initio only

SASDUH5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex oligomerised along 36mer of dsRNA in a 4:1 ratio

Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 336-mer dsRNAInterleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3 experimental SAS data
DAMMIN model
Sample: Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
36-mer dsRNA monomer, 23 kDa RNA
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 May 9
Integrative structural analysis of NF45-NF90 heterodimers reveals architectural rearrangements and oligomerization on binding dsRNA. Nucleic Acids Res 53(6) (2025)
Winterbourne S, Jayachandran U, Zou J, Rappsilber J, Granneman S, Cook AG
RgGuinier 6.4 nm
Dmax 22.1 nm
VolumePorod 626 nm3

SASDUJ5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex oligomerised along 54mer of dsRNA in a 2:1 ratio

Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 354-mer dsRNA experimental SAS data
DAMMIN model
Sample: Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
54-mer dsRNA monomer, 35 kDa RNA
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 May 9
Integrative structural analysis of NF45-NF90 heterodimers reveals architectural rearrangements and oligomerization on binding dsRNA. Nucleic Acids Res 53(6) (2025)
Winterbourne S, Jayachandran U, Zou J, Rappsilber J, Granneman S, Cook AG
RgGuinier 7.1 nm
Dmax 25.0 nm
VolumePorod 797 nm3

SASDUK5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex oligomerised along 54mer of dsRNA in a 4:1 ratio

Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 354-mer dsRNAInterleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2 experimental SAS data
DAMMIN model
Sample: Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
54-mer dsRNA monomer, 35 kDa RNA
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 May 9
Integrative structural analysis of NF45-NF90 heterodimers reveals architectural rearrangements and oligomerization on binding dsRNA. Nucleic Acids Res 53(6) (2025)
Winterbourne S, Jayachandran U, Zou J, Rappsilber J, Granneman S, Cook AG
RgGuinier 7.7 nm
Dmax 26.5 nm
VolumePorod 1075 nm3

SASDUL5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex oligomerised along 54mer of dsRNA in a 6:1 ratio

Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 354-mer dsRNAInterleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2 experimental SAS data
DAMMIN model
Sample: Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
54-mer dsRNA monomer, 35 kDa RNA
Interleukin enhancer-binding factor 3 monomer, 66 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 44 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM DTT, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2023 May 9
Integrative structural analysis of NF45-NF90 heterodimers reveals architectural rearrangements and oligomerization on binding dsRNA. Nucleic Acids Res 53(6) (2025)
Winterbourne S, Jayachandran U, Zou J, Rappsilber J, Granneman S, Cook AG
RgGuinier 7.8 nm
Dmax 26.1 nm
VolumePorod 1050 nm3

SASDNY6 – ASO2 DNA in the absence of target RNA

MOE PS gapmers 3-8-3 experimental SAS data
DAMMIF model
Sample: MOE PS gapmers 3-8-3 monomer, 4 kDa DNA
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2021 Oct 21
Application of enhanced biophysical strategies to determine ASO/target RNA binding affinity and kinetics
Michael Lerche
RgGuinier 1.4 nm
Dmax 4.3 nm
VolumePorod 5 nm3

SASDN37 – ASO2 DNA in the presence of target RNA

MOE PS gapmers 3-8-3PSCK9, 24mer ASO binding site experimental SAS data
DAMMIF model
Sample: MOE PS gapmers 3-8-3 monomer, 4 kDa DNA
PSCK9, 24mer ASO binding site monomer, 8 kDa RNA
Buffer: phosphate buffered saline, pH: 7.4
Experiment: SAXS data collected at B21, Diamond Light Source on 2021 Oct 21
Application of enhanced biophysical strategies to determine ASO/target RNA binding affinity and kinetics
Michael Lerche
RgGuinier 2.1 nm
Dmax 6.4 nm
VolumePorod 16 nm3

SASDVR4 – Endophilin B1 wild type (0.69 mg/ml)

Endophilin-B1 experimental SAS data
Sample: Endophilin-B1 dimer, 82 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT, pH: 8.1
Experiment: SAXS data collected at BM29, ESRF on 2024 Mar 10
Peripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers Communications Biology 8(1) (2025)
Thorlacius A, Rulev M, Sundberg O, Sundborger-Lunna A
RgGuinier 5.1 nm
Dmax 16.0 nm
VolumePorod 151 nm3

SASDVS4 – Endophilin B1 wild type (0.34mg/ml)

Endophilin-B1 experimental SAS data
Sample: Endophilin-B1 dimer, 82 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT, pH: 8.1
Experiment: SAXS data collected at BM29, ESRF on 2024 Mar 10
Peripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers Communications Biology 8(1) (2025)
Thorlacius A, Rulev M, Sundberg O, Sundborger-Lunna A
RgGuinier 5.0 nm
Dmax 16.0 nm
VolumePorod 152 nm3

SASDVT4 – Endophilin B1 wild type (0.14 mg/ml)

Endophilin-B1 experimental SAS data
Sample: Endophilin-B1 monomer, 41 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT, pH: 8.1
Experiment: SAXS data collected at BM29, ESRF on 2024 Mar 10
Peripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers Communications Biology 8(1) (2025)
Thorlacius A, Rulev M, Sundberg O, Sundborger-Lunna A
RgGuinier 3.7 nm
Dmax 15.3 nm
VolumePorod 47 nm3

SASDVU4 – Endophilin B1 truncated construction without SH3 domain

Endophilin-B1 (Δ307-360) experimental SAS data
Sample: Endophilin-B1 (Δ307-360) dimer, 68 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 150 mM NaCl, 1 mM TCEP, 0.5 mM DTT, pH: 8.1
Experiment: SAXS data collected at BM29, ESRF on 2024 Mar 10
Peripheral membrane protein endophilin B1 probes, perturbs and permeabilizes lipid bilayers Communications Biology 8(1) (2025)
Thorlacius A, Rulev M, Sundberg O, Sundborger-Lunna A
RgGuinier 4.6 nm
Dmax 15.2 nm
VolumePorod 149 nm3