Browse by MODEL: Ab initio only

SASDC55 – Plasmodium falciparum p23A

CS domain protein, putative experimental SAS data
DAMFILT model
Sample: CS domain protein, putative monomer, 19 kDa Plasmodium falciparum protein
Buffer: 25 mM Tris-HCl, 100 mM NaCl, 2 mM EDTA, 1 mM B-mercaptoethanol, pH: 7.4
Experiment: SAXS data collected at SAXS2 Beamline, Brazilian Synchrotron Light Laboratory on 2015 May 26
Comparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome. Int J Biol Macromol 108:193-204 (2018)
Silva NSM, Seraphim TV, Minari K, Barbosa LRS, Borges JC
RgGuinier 2.5 nm
Dmax 8.5 nm

SASDC65 – Plasmodium falciparum p23B

Co-chaperone p23 experimental SAS data
DAMFILT model
Sample: Co-chaperone p23 monomer, 31 kDa Plasmodium falciparum protein
Buffer: 25 mM Tris-HCl, 100 mM NaCl, 2 mM EDTA, 1 mM B-mercaptoethanol, pH: 7.4
Experiment: SAXS data collected at SAXS2 Beamline, Brazilian Synchrotron Light Laboratory on 2015 May 26
Comparative studies of the low-resolution structure of two p23 co-chaperones for Hsp90 identified in Plasmodium falciparum genome. Int J Biol Macromol 108:193-204 (2018)
Silva NSM, Seraphim TV, Minari K, Barbosa LRS, Borges JC
RgGuinier 3.7 nm
Dmax 13.0 nm

SASDCX6 – T2 SapNP (SapA:POPS) (SEC-SAXS)

saposin-a1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-L-serineMechanosensitive channel T2 experimental SAS data
DAMMIF model
Sample: Saposin-a monomer, 9 kDa Homo sapiens protein
1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-L-serine, 47 kDa synthetic construct
Mechanosensitive channel T2 heptamer, 230 kDa Thermoplasma volcanium protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 May 4
Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research. Structure 26(2):345-355.e5 (2018)
Flayhan A, Mertens HDT, Ural-Blimke Y, Martinez Molledo M, Svergun DI, Löw C
RgGuinier 5.4 nm
Dmax 18.0 nm
VolumePorod 686 nm3

SASDCY6 – T2 in b-DDM micelle (SEC-SAXS)

Mechanosensitive channel T2n-Dodecyl-β-D-Maltopyranoside experimental SAS data
DAMMIF model
Sample: Mechanosensitive channel T2 heptamer, 230 kDa Thermoplasma volcanium protein
N-Dodecyl-β-D-Maltopyranoside, 77 kDa synthetic construct
Buffer: 20 mM Tris 150 mM NaCl 5 % glycerol 0.03 % DDM, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 May 29
Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research. Structure 26(2):345-355.e5 (2018)
Flayhan A, Mertens HDT, Ural-Blimke Y, Martinez Molledo M, Svergun DI, Löw C
RgGuinier 5.6 nm
Dmax 16.5 nm
VolumePorod 896 nm3

SASDCZ6 – DtpA SapNP (SapA:POPS) (SEC-SAXS)

saposin-a1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-L-serineDipeptide and tripeptide permease A experimental SAS data
DAMMIF model
Sample: Saposin-a monomer, 9 kDa Homo sapiens protein
1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-L-serine, 47 kDa synthetic construct
Dipeptide and tripeptide permease A monomer, 51 kDa Escherichia coli protein
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2017 May 4
Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research. Structure 26(2):345-355.e5 (2018)
Flayhan A, Mertens HDT, Ural-Blimke Y, Martinez Molledo M, Svergun DI, Löw C
RgGuinier 4.0 nm
Dmax 13.5 nm
VolumePorod 288 nm3

SASDC27 – Saposin nanoparticle (SapNP) SapA:DOPC

saposin-a1,2-dioleoyl-sn-glycero-3-phosphocholine experimental SAS data
DAMMIF model
Sample: Saposin-a monomer, 9 kDa Homo sapiens protein
1,2-dioleoyl-sn-glycero-3-phosphocholine, 47 kDa synthetic construct
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Dec 15
Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research. Structure 26(2):345-355.e5 (2018)
Flayhan A, Mertens HDT, Ural-Blimke Y, Martinez Molledo M, Svergun DI, Löw C
RgGuinier 4.1 nm
Dmax 11.5 nm
VolumePorod 96 nm3

SASDC37 – Saposin nanoparticle (SapNP) SapA:SoyPI

saposin-aL-α-phosphatidylinositol (soy) experimental SAS data
DAMMIF model
Sample: Saposin-a monomer, 9 kDa Homo sapiens protein
L-α-phosphatidylinositol (soy), 52 kDa Glycine max
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Dec 15
Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research. Structure 26(2):345-355.e5 (2018)
Flayhan A, Mertens HDT, Ural-Blimke Y, Martinez Molledo M, Svergun DI, Löw C
RgGuinier 3.6 nm
Dmax 8.5 nm
VolumePorod 68 nm3

SASDC47 – Saposin nanoparticle (SapNP) SapA:POPG (SEC-SAXS)

saposin-a1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-(1'-rac-glycerol) experimental SAS data
DAMMIF model
Sample: Saposin-a monomer, 9 kDa Homo sapiens protein
1-palmitoyl-2-oleoyl-sn-glycero-3-phospho-(1'-rac-glycerol), 46 kDa synthetic construct
Buffer: PBS, pH: 7.4
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Dec 15
Saposin Lipid Nanoparticles: A Highly Versatile and Modular Tool for Membrane Protein Research. Structure 26(2):345-355.e5 (2018)
Flayhan A, Mertens HDT, Ural-Blimke Y, Martinez Molledo M, Svergun DI, Löw C
RgGuinier 4.1 nm
Dmax 10.5 nm
VolumePorod 69 nm3

SASDCB3 – Methylated C-terminal ZBTB38 binding sequence (mCZ38BS)

methylated C-terminal ZBTB38 binding sequence experimental SAS data
DAMMIN model
Sample: Methylated C-terminal ZBTB38 binding sequence monomer, 17 kDa DNA
Buffer: 10 mM Tris, 1 mM tris(2-carboxy-ethyl)phosphine (TCEP), 0.05% NaN3, 10% D2O, pH: 6.8
Experiment: SAXS data collected at Anton Paar SAXSess, Department of Chemistry, University of Utah on 2016 Oct 27
The C-Terminal Zinc Fingers of ZBTB38 are Novel Selective Readers of DNA Methylation. J Mol Biol 430(3):258-271 (2018)
Pozner A, Hudson NO, Trewhella J, Terooatea TW, Miller SA, Buck-Koehntop BA
RgGuinier 2.5 nm
Dmax 9.2 nm
VolumePorod 23 nm3

SASDCZ4 – RNase E 603-850/ATP-dependent RNA helicase (RhlB) binary complex

RNase E 603-850ATP-dependent RNA helicase RhlB experimental SAS data
GASBOR model
Sample: RNase E 603-850 monomer, 30 kDa Escherichia coli protein
ATP-dependent RNA helicase RhlB monomer, 47 kDa Escherichia coli protein
Buffer: 50 mM Tris HCl, 100 mM NaCl, 100 mM KCl, 10 mM MgCl2, 10 mM DTT and 5 % glycerol (v/v), pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2016 Feb 11
Analysis of the natively unstructured RNA/protein-recognition core in the Escherichia coli RNA degradosome and its interactions with regulatory RNA/Hfq complexes. Nucleic Acids Res 46(1):387-402 (2018)
Bruce HA, Du D, Matak-Vinkovic D, Bandyra KJ, Broadhurst RW, Martin E, Sobott F, Shkumatov AV, Luisi BF
RgGuinier 5.4 nm
Dmax 29.5 nm
VolumePorod 183 nm3