Integrative structural analysis of NF45-NF90 heterodimers reveals architectural rearrangements and oligomerization on binding dsRNA.

Winterbourne S, Jayachandran U, Zou J, Rappsilber J, Granneman S, Cook AG
Nucleic Acids Res 53(6) (2025 Mar 20)
PMID: 40156862
doi: 10.1093/nar/gkaf204 		Submitted to SASBDB: 2024 Mar 28
Published in SASBDB:

SASDUA5 – Double-stranded RNA-binding domains of Interleukin enhancer-binding factor 3 (395-592)

Interleukin enhancer-binding factor 3 experimental SAS data
GASBOR model
Sample: Interleukin enhancer-binding factor 3 monomer, 21 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 2017 Oct 23
RgGuinier 3.5 nm
Dmax 12.6 nm
VolumePorod 39 nm3

SASDUB5 – Heterodimer complex of domain-associated zinc finger domains of Interleukin enhancer-binding factor 2 (29-390) and Interleukin enhancer-binding factor 3 (1-381)

Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2 experimental SAS data
GASBOR model
Sample: Interleukin enhancer-binding factor 3 monomer, 42 kDa Mus musculus protein
Interleukin enhancer-binding factor 2 monomer, 40 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 2017 Oct 23
RgGuinier 3.5 nm
Dmax 12.6 nm
VolumePorod 127 nm3

SASDUC5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex (SEC-SAXS 1)

Interleukin 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
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
RgGuinier 4.7 nm
Dmax 17.1 nm
VolumePorod 210 nm3

SASDUD5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex (SEC-SAXS 2)

Interleukin enhancer-binding factor 3Interleukin enhancer-binding factor 2 experimental SAS data
GASBOR model
Sample: 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 2017 Oct 23
RgGuinier 4.7 nm
Dmax 17.1 nm
VolumePorod 210 nm3

SASDUE5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex oligomerised along 25mer of dsRNA in a 2:1 ratio

Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 325-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
25-mer dsRNA monomer, 16 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
RgGuinier 5.7 nm
Dmax 19.9 nm
VolumePorod 453 nm3

SASDUF5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex oligomerised along 25mer of dsRNA in a 4:1 ratio

Interleukin enhancer-binding factor 2Interleukin enhancer-binding factor 325-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
25-mer dsRNA monomer, 16 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
RgGuinier 5.7 nm
Dmax 20.5 nm
VolumePorod 431 nm3

SASDUG5 – Interleukin enhancer-binding factor 3 (1-591) and Interleukin enhancer-binding factor 2 (1-390) heterodimer complex oligomerised along 36mer of dsRNA in a 2:1 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
RgGuinier 6.1 nm
Dmax 21.2 nm
VolumePorod 587 nm3

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
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
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
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
RgGuinier 7.8 nm
Dmax 26.1 nm
VolumePorod 1050 nm3