Browse by MODEL: Hybrid

SASDNN3 – Peptidyl-prolyl cis-trans isomerase FKBP43, nucleoplasmin domain (amino acids 1-96)

Peptidyl-prolyl cis-trans isomerase FKBP43 experimental SAS data
ALPHAFOLD model
Sample: Peptidyl-prolyl cis-trans isomerase FKBP43 pentamer, 58 kDa Arabidopsis thaliana protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2018 Mar 16
The plant nucleoplasmin AtFKBP43 needs its extended arms for histone interaction. Biochim Biophys Acta Gene Regul Mech 1865(7):194872 (2022)
Singh AK, Saharan K, Baral S, Vasudevan D
RgGuinier 2.5 nm
Dmax 7.3 nm
VolumePorod 141 nm3

SASDNQ7 – Peptidyl-prolyl cis-trans isomerase AtFKBP43 (1-136)

Peptidyl-prolyl cis-trans isomerase FKBP43 experimental SAS data
ALPHAFOLD model
Sample: Peptidyl-prolyl cis-trans isomerase FKBP43 pentamer, 81 kDa Arabidopsis thaliana protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 28
The plant nucleoplasmin AtFKBP43 needs its extended arms for histone interaction. Biochim Biophys Acta Gene Regul Mech 1865(7):194872 (2022)
Singh AK, Saharan K, Baral S, Vasudevan D
RgGuinier 3.6 nm
Dmax 12.4 nm
VolumePorod 164 nm3

SASDNR7 – Peptidyl-prolyl cis-trans isomerase AtFKBP43 (1-136) -H2A/H2B histone oligomer complex

Peptidyl-prolyl cis-trans isomerase FKBP43Histone H2A type 1-B/EHistone H2B type 1-C/E/F/G/I experimental SAS data
MULTIFOXS model
Sample: Peptidyl-prolyl cis-trans isomerase FKBP43 pentamer, 81 kDa Arabidopsis thaliana protein
Histone H2A type 1-B/E monomer, 14 kDa Homo sapiens protein
Histone H2B type 1-C/E/F/G/I monomer, 14 kDa Homo sapiens protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 28
The plant nucleoplasmin AtFKBP43 needs its extended arms for histone interaction. Biochim Biophys Acta Gene Regul Mech 1865(7):194872 (2022)
Singh AK, Saharan K, Baral S, Vasudevan D
RgGuinier 4.1 nm
Dmax 13.9 nm
VolumePorod 194 nm3

SASDNS7 – Peptidyl-prolyl cis-trans isomerase AtFKBP43 (1-136) -H3/H4 histone oligomer complex

Peptidyl-prolyl cis-trans isomerase FKBP43Histone H3.1Histone H4 experimental SAS data
ALPHAFOLD model
Sample: Peptidyl-prolyl cis-trans isomerase FKBP43 pentamer, 81 kDa Arabidopsis thaliana protein
Histone H3.1 dimer, 31 kDa Homo sapiens protein
Histone H4 dimer, 23 kDa Homo sapiens protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 28
The plant nucleoplasmin AtFKBP43 needs its extended arms for histone interaction. Biochim Biophys Acta Gene Regul Mech 1865(7):194872 (2022)
Singh AK, Saharan K, Baral S, Vasudevan D
RgGuinier 4.4 nm
Dmax 14.1 nm
VolumePorod 226 nm3

SASDNT7 – Peptidyl-prolyl cis-trans isomerase AtFKBP43 (1-164)

Peptidyl-prolyl cis-trans isomerase FKBP43 experimental SAS data
ALPHAFOLD model
Sample: Peptidyl-prolyl cis-trans isomerase FKBP43 pentamer, 96 kDa Arabidopsis thaliana protein
Buffer: 20 mM Tris, 300 mM NaCl, 1 mM β-mercaptoethanol, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 28
The plant nucleoplasmin AtFKBP43 needs its extended arms for histone interaction. Biochim Biophys Acta Gene Regul Mech 1865(7):194872 (2022)
Singh AK, Saharan K, Baral S, Vasudevan D
RgGuinier 4.0 nm
Dmax 13.9 nm
VolumePorod 180 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

SASDNH7 – Tn3 resolvase dimer bound to site II DNA sequence

Transposon Tn3 resolvaseTn3 res, resolvase binding site II experimental SAS data
CUSTOM IN-HOUSE model
Sample: Transposon Tn3 resolvase dimer, 43 kDa Escherichia coli protein
Tn3 res, resolvase binding site II monomer, 32 kDa DNA
Buffer: 25 mM Tris, 150 mM NaCl, 10 mM MgCl2, 1% glycerol, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2014 Nov 6
Structural basis for topological regulation of Tn3 resolvase. Nucleic Acids Res (2022)
Montaño SP, Rowland SJ, Fuller JR, Burke ME, MacDonald AI, Boocock MR, Stark WM, Rice PA
RgGuinier 5.0 nm
Dmax 14.9 nm
VolumePorod 217 nm3

SASDP39 – apo Saccharomyces cerevisiae Arginyltransferase-1

Arginyl-tRNA--protein transferase 1 experimental SAS data
ALPHAFOLD model
Sample: Arginyl-tRNA--protein transferase 1 monomer, 60 kDa Saccharomyces cerevisiae (strain … protein
Buffer: 2% glycerol, 100 mM KCl, 50 mM Tris-HCl, 1mM DTT, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 May 12
The Structure of Saccharomyces cerevisiae Arginyltransferase 1 (ATE1). J Mol Biol 434(21):167816 (2022)
Van V, Ejimogu NE, Bui TS, Smith AT
RgGuinier 2.8 nm
Dmax 8.3 nm
VolumePorod 105 nm3

SASDNN5 – Meiosis protein TEX12 (Testis-expressed protein 12) – wild-type

Testis-expressed protein 12 experimental SAS data
DAMMIF model
Sample: Testis-expressed protein 12 dimer, 18 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM KCl, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jan 10
Coiled-coil structure of meiosis protein TEX12 and conformational regulation by its C-terminal tip Communications Biology 5(1) (2022)
Dunce J, Salmon L, Davies O
RgGuinier 2.1 nm
Dmax 6.6 nm
VolumePorod 27 nm3

SASDNP5 – Meiosis protein TEX12 (Testis-expressed protein 12) – delta Ctip

Testis-expressed protein 12 experimental SAS data
DAMMIF model
Sample: Testis-expressed protein 12 tetramer, 32 kDa Homo sapiens protein
Buffer: 20 mM Tris, 150 mM KCl, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2018 Jan 10
Coiled-coil structure of meiosis protein TEX12 and conformational regulation by its C-terminal tip Communications Biology 5(1) (2022)
Dunce J, Salmon L, Davies O
RgGuinier 3.0 nm
Dmax 11.0 nm
VolumePorod 44 nm3