Browse by MODEL: Hybrid

SASDJ84 – Intimin D00-D0 domain

Intimin, D00-D0 domain (6xHis tagged) experimental SAS data
EOM/RANCH model
Sample: Intimin, D00-D0 domain (6xHis tagged) monomer, 23 kDa Escherichia coli O127:H6 … protein
Buffer: 10 mM HEPES, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2019 Jul 12
The extracellular juncture domains in the intimin passenger adopt a constitutively extended conformation inducing restraints to its sphere of action. Sci Rep 10(1):21249 (2020)
Weikum J, Kulakova A, Tesei G, Yoshimoto S, Jægerum LV, Schütz M, Hori K, Skepö M, Harris P, Leo JC, Morth JP
RgGuinier 3.1 nm
Dmax 8.3 nm
VolumePorod 32 nm3

SASDGX9 – Nucleolar RNA helicase 2 (DDX21) fragment 186-620

Nucleolar RNA helicase 2 fragment 186-620 experimental SAS data
SWISSMODEL model
Sample: Nucleolar RNA helicase 2 fragment 186-620 dimer, 98 kDa Homo sapiens protein
Buffer: 20 mM HEPES, 500 mM NaCl, 10 % Glycerol, 2 mM TCEP, pH: 7.5
Experiment: SAXS data collected at BM29, ESRF on 2018 Mar 4
The Human RNA Helicase DDX21 Presents a Dimerization Interface Necessary for Helicase Activity iScience 23(12):101811 (2020)
Marcaida M, Kauzlaric A, Duperrex A, Sülzle J, Moncrieffe M, Adebajo D, Manley S, Trono D, Dal Peraro M
RgGuinier 4.4 nm
Dmax 16.9 nm
VolumePorod 150 nm3

SASDH89 – Mitochondrial TIM8·13 chaperone in complex with the Tim23 membrane protein precursor

Mitochondrial import inner membrane translocase subunit TIM8Mitochondrial import inner membrane translocase subunit TIM13Mitochondrial import inner membrane translocase subunit TIM23 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Mitochondrial import inner membrane translocase subunit TIM8 trimer, 29 kDa Saccharomyces cerevisiae protein
Mitochondrial import inner membrane translocase subunit TIM13 trimer, 34 kDa Saccharomyces cerevisiae protein
Mitochondrial import inner membrane translocase subunit TIM23 monomer, 24 kDa Saccharomyces cerevisiae protein
Buffer: 50 mM Tris, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2015 Apr 24
Structural basis of client specificity in mitochondrial membrane-protein chaperones. Sci Adv 6(51) (2020)
Sučec I, Wang Y, Dakhlaoui O, Weinhäupl K, Jores T, Costa D, Hessel A, Brennich M, Rapaport D, Lindorff-Larsen K, Bersch B, Schanda P
RgGuinier 3.1 nm
Dmax 11.3 nm

SASDJP4 – Mitochondrial import inner membrane translocase subunits TIM9-TIM10 in complex with TIM23

Mitochondrial import inner membrane translocase subunit TIM9Mitochondrial import inner membrane translocase subunit TIM10Mitochondrial import inner membrane translocase subunit TIM23 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Mitochondrial import inner membrane translocase subunit TIM9 trimer, 31 kDa Saccharomyces cerevisiae protein
Mitochondrial import inner membrane translocase subunit TIM10 trimer, 31 kDa Saccharomyces cerevisiae protein
Mitochondrial import inner membrane translocase subunit TIM23 monomer, 24 kDa Saccharomyces cerevisiae protein
Buffer: 50 mM Tris, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2017 May 18
Structural basis of client specificity in mitochondrial membrane-protein chaperones. Sci Adv 6(51) (2020)
Sučec I, Wang Y, Dakhlaoui O, Weinhäupl K, Jores T, Costa D, Hessel A, Brennich M, Rapaport D, Lindorff-Larsen K, Bersch B, Schanda P
RgGuinier 3.2 nm
Dmax 7.7 nm
VolumePorod 146 nm3

SASDJQ4 – Mitochondrial import inner membrane translocase subunits TIM8-TIM13

Mitochondrial import inner membrane translocase subunit TIM8Mitochondrial import inner membrane translocase subunit TIM13 experimental SAS data
CUSTOM IN-HOUSE model
Sample: Mitochondrial import inner membrane translocase subunit TIM8 trimer, 29 kDa Saccharomyces cerevisiae protein
Mitochondrial import inner membrane translocase subunit TIM13 trimer, 34 kDa Saccharomyces cerevisiae protein
Buffer: 50 mM Tris, 150 mM NaCl, pH: 7.4
Experiment: SAXS data collected at BM29, ESRF on 2017 Apr 21
Structural basis of client specificity in mitochondrial membrane-protein chaperones. Sci Adv 6(51) (2020)
Sučec I, Wang Y, Dakhlaoui O, Weinhäupl K, Jores T, Costa D, Hessel A, Brennich M, Rapaport D, Lindorff-Larsen K, Bersch B, Schanda P
RgGuinier 3.1 nm
Dmax 10.9 nm
VolumePorod 136 nm3

SASDJR7 – Mouse cysteine sulphinic acid decarboxylase (CSAD)

Cysteine sulfinic acid decarboxylase experimental SAS data
SREFLEX model
Sample: Cysteine sulfinic acid decarboxylase dimer, 117 kDa Mus musculus protein
Buffer: 20 mM HEPES, 200 mM NaCl, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2018 Feb 4
Structure and substrate specificity determinants of the taurine biosynthetic enzyme cysteine sulphinic acid decarboxylase. J Struct Biol :107674 (2020)
Mahootchi E, Raasakka A, Luan W, Muruganandam G, Loris R, Haavik J, Kursula P
RgGuinier 3.4 nm
Dmax 15.0 nm
VolumePorod 198 nm3

SASDJQ7 – Human Cathepsin X

Cathepsin Z experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Cathepsin Z dimer, 54 kDa Homo sapiens protein
Buffer: 20 mM sodium acetate, 1 mM EDTA, pH: 5.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2016 Dec 6
Human cathepsin X/Z is a biologically active homodimer. Biochim Biophys Acta Proteins Proteom :140567 (2020)
Dolenc I, Štefe I, Turk D, Taler-Verčič A, Turk B, Turk V, Stoka V
RgGuinier 2.6 nm
Dmax 6.5 nm
VolumePorod 89 nm3

SASDJG5 – SARS-CoV-2 Main Protease

3C-like proteinase from SARS-CoV-2 replicase polyprotein 1a experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: 3C-like proteinase from SARS-CoV-2 replicase polyprotein 1a dimer, 68 kDa Severe acute respiratory … protein
Buffer: 50 mM Tris, 1 mM DTT, 1 mM EDTA, pH: 7.4
Experiment: SAXS data collected at Rigaku BioSAXS-2000, University of British Columbia on 2020 Jun 1
Crystallographic structure of wild-type SARS-CoV-2 main protease acyl-enzyme intermediate with physiological C-terminal autoprocessing site. Nat Commun 11(1):5877 (2020)
Lee J, Worrall LJ, Vuckovic M, Rosell FI, Gentile F, Ton AT, Caveney NA, Ban F, Cherkasov A, Paetzel M, Strynadka NCJ
RgGuinier 2.7 nm
Dmax 8.8 nm
VolumePorod 93 nm3

SASDJH5 – SARS-CoV-2 Main Protease, P9T mutant

3C-like proteinase from SARS-CoV-2 replicase polyprotein 1a, PT9 mutant experimental SAS data
SREFLEX model
Sample: 3C-like proteinase from SARS-CoV-2 replicase polyprotein 1a, PT9 mutant monomer, 34 kDa Severe acute respiratory … protein
Buffer: 50 mM Tris, 1 mM DTT, 1 mM EDTA, pH: 7.4
Experiment: SAXS data collected at Rigaku BioSAXS-2000, University of British Columbia on 2020 Jun 1
Crystallographic structure of wild-type SARS-CoV-2 main protease acyl-enzyme intermediate with physiological C-terminal autoprocessing site. Nat Commun 11(1):5877 (2020)
Lee J, Worrall LJ, Vuckovic M, Rosell FI, Gentile F, Ton AT, Caveney NA, Ban F, Cherkasov A, Paetzel M, Strynadka NCJ
RgGuinier 2.4 nm
Dmax 7.2 nm
VolumePorod 54 nm3

SASDJF4 – Synthetic nanobody Sybody 23 (Sy23)

Synthetic nanobody Sybody 23 experimental SAS data
CORAL model
Sample: Synthetic nanobody Sybody 23 monomer, 16 kDa synthetic construct protein
Buffer: 50 mM Tris 100 mM NaCl, pH: 7.5
Experiment: SAXS data collected at EMBL P12, PETRA III on 2020 May 5
Selection, biophysical and structural analysis of synthetic nanobodies that effectively neutralize SARS-CoV-2 Nature Communications 11(1) (2020)
Custódio T, Das H, Sheward D, Hanke L, Pazicky S, Pieprzyk J, Sorgenfrei M, Schroer M, Gruzinov A, Jeffries C, Graewert M, Svergun D, Dobrev N, Remans K, Seeger M, McInerney G, Murrell B, Hällberg B, Löw C
RgGuinier 2.1 nm
Dmax 8.0 nm
VolumePorod 22 nm3