Browse by MODEL: Ab initio only

SASDJS3 – Adenylate cyclase toxin CyaA RTX block II-V

Bifunctional hemolysin/adenylate cyclase experimental SAS data
DAMMIF model
Sample: Bifunctional hemolysin/adenylate cyclase monomer, 57 kDa Bordetella pertussis protein
Buffer: 10 mM Tris HCl, 150 mM NaCl, 10 mM CaCl₂, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Oct 31
Continuous Assembly of β-Roll Structures Is Implicated in the Type I-Dependent Secretion of Large Repeat-in-Toxins (RTX) Proteins. J Mol Biol (2020)
Motlova L, Klimova N, Fiser R, Sebo P, Bumba L
RgGuinier 4.0 nm
Dmax 13.3 nm
VolumePorod 94 nm3

SASDJT3 – Adenylate cyclase toxin CyaA RTX block III-V

Bifunctional hemolysin/adenylate cyclase experimental SAS data
DAMMIF model
Sample: Bifunctional hemolysin/adenylate cyclase monomer, 45 kDa Bordetella pertussis protein
Buffer: 10 mM Tris HCl, 150 mM NaCl, 10 mM CaCl₂, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Oct 31
Continuous Assembly of β-Roll Structures Is Implicated in the Type I-Dependent Secretion of Large Repeat-in-Toxins (RTX) Proteins. J Mol Biol (2020)
Motlova L, Klimova N, Fiser R, Sebo P, Bumba L
RgGuinier 3.4 nm
Dmax 12.1 nm
VolumePorod 85 nm3

SASDJU3 – Adenylate cyclase toxin CyaA RTX block IV-V

Bifunctional hemolysin/adenylate cyclase experimental SAS data
DAMMIF model
Sample: Bifunctional hemolysin/adenylate cyclase monomer, 32 kDa Bordetella pertussis protein
Buffer: 10 mM Tris HCl, 150 mM NaCl, 10 mM CaCl₂, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Oct 31
Continuous Assembly of β-Roll Structures Is Implicated in the Type I-Dependent Secretion of Large Repeat-in-Toxins (RTX) Proteins. J Mol Biol (2020)
Motlova L, Klimova N, Fiser R, Sebo P, Bumba L
RgGuinier 2.7 nm
Dmax 8.6 nm
VolumePorod 45 nm3

SASDHU9 – Solution structure of middle domain of the multi-domain GH18 chitinase ChiA from Flavobacterium johnsoniae

Chitinase ChiA experimental SAS data
DAMMIN model
Sample: Chitinase ChiA monomer, 70 kDa Flavobacterium johnsoniae protein
Buffer: 50 mM Tris, 250 mM NaCl, 0.25 mM DTT, pH: 8
Experiment: SAXS data collected at BL4-2, Stanford Synchrotron Radiation Lightsource (SSRL) on 2019 May 7
Structural insights of the enzymes from the chitin utilization locus of Flavobacterium johnsoniae. Sci Rep 10(1):13775 (2020)
Mazurkewich S, Helland R, Mackenzie A, Eijsink VGH, Pope PB, Brändén G, Larsbrink J
RgGuinier 4.7 nm
Dmax 16.3 nm
VolumePorod 99 nm3

SASDJE2 – Beta-ketoacyl synthase (Bamb_5925) C-terminal docking domain

Beta-ketoacyl synthase Bamb_5925 experimental SAS data
DAMMIN model
Sample: Beta-ketoacyl synthase Bamb_5925 monomer, 4 kDa Burkholderia ambifaria protein
Buffer: 20 mM Tris-HCl, 200 mM NaCl, 5% glycerol, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2019 Jan 23
Towards improved understanding of intersubunit interactions in modular polyketide biosynthesis: docking in the enacyloxin IIa polyketide synthase. J Struct Biol :107581 (2020)
Risser F, Collin S, Dos Santos-Morais R, Gruez A, Chagot B, Weissman KJ
RgGuinier 1.6 nm
Dmax 6.2 nm
VolumePorod 3 nm3

SASDJG2 – Beta-ketoacyl synthase (Bamb_5920) C-terminal docking domain

Beta-ketoacyl synthase Bamb_5920 experimental SAS data
DAMMIN model
Sample: Beta-ketoacyl synthase Bamb_5920 monomer, 2 kDa Burkholderia ambifaria protein
Buffer: 20 mM Tris-HCl, 200 mM NaCl, 5% glycerol, pH: 7.5
Experiment: SAXS data collected at SWING, SOLEIL on 2019 Jan 23
Towards improved understanding of intersubunit interactions in modular polyketide biosynthesis: docking in the enacyloxin IIa polyketide synthase. J Struct Biol :107581 (2020)
Risser F, Collin S, Dos Santos-Morais R, Gruez A, Chagot B, Weissman KJ
RgGuinier 1.2 nm
Dmax 4.9 nm
VolumePorod 3 nm3

SASDHD9 – Full-length Plasmodium falciparum Heat shock protein 90 (PfHsp90)

Plasmodium falciparum Heat shock protein 90 experimental SAS data
DAMMIN model
Sample: Plasmodium falciparum Heat shock protein 90 dimer, 177 kDa Plasmodium falciparum protein
Buffer: 25 mM Tris-HCl, 100 mM KCl, 1 mM β-mercaptoethanol, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at SAXS1 Beamline, Brazilian Synchrotron Light Laboratory on 2018 May 11
Solution structure of Plasmodium falciparum Hsp90 indicates a high flexible dimer Archives of Biochemistry and Biophysics :108468 (2020)
Silva N, Torricillas M, Minari K, Barbosa L, Seraphim T, Borges J
RgGuinier 5.7 nm
Dmax 19.0 nm
VolumePorod 350 nm3

SASDHF9 – Plasmodium falciparum Heat shock protein 90 (PfHsp90) M-domain

Plasmodium falciparum Heat shock protein 90 middle domain experimental SAS data
DAMMIN model
Sample: Plasmodium falciparum Heat shock protein 90 middle domain monomer, 33 kDa Plasmodium falciparum protein
Buffer: 25 mM Tris-HCl, 100 mM KCl, 1 mM β-mercaptoethanol, 1 mM EDTA, pH: 7.5
Experiment: SAXS data collected at SAXS1 Beamline, Brazilian Synchrotron Light Laboratory on 2018 May 11
Solution structure of Plasmodium falciparum Hsp90 indicates a high flexible dimer Archives of Biochemistry and Biophysics :108468 (2020)
Silva N, Torricillas M, Minari K, Barbosa L, Seraphim T, Borges J
RgGuinier 2.4 nm
Dmax 8.5 nm
VolumePorod 47 nm3

SASDJQ6 – Full-length Collagenase H containing N-terminal Catalytic domain and C-terminal Non-Catalytic domains Polycystic Kidney disease domain 1 (PKD1), Polycystic Kidney disease domain 2 (PKD2) and Collagen Binding Domain (CBD)

Collagenase ColH (Full-length) experimental SAS data
DAMFILT model
Sample: Collagenase ColH (Full-length) monomer, 112 kDa Hathewaya histolytica protein
Buffer: 10 mM HEPES, 100 mM NaCl, 0.4 mM EGTA, 2.4 mM CaCl2, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2019 Dec 12
Elucidating Collagen Degradation Synergy between Col G and Col H from Hathewaya (Clostridium) histolytica and Identifying novel structural features in HPT and REC domains from VarS histidine kinase in V. alginolyticus University of Arkansas PhD thesis 28030553 (2020)
Perry Caviness
RgGuinier 4.1 nm
Dmax 14.0 nm
VolumePorod 198 nm3

SASDJR6 – Collagenase H C-terminal non-catalytic segments Polycystic Kidney disease domain 2 (PKD2) and Collagen binding domain (CBD)

Collagenase ColH (Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD)) experimental SAS data
DAMFILT model
Sample: Collagenase ColH (Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD)) monomer, 23 kDa Hathewaya histolytica protein
Buffer: 10 mM HEPES, 100 mM NaCl, 0.4 mM EGTA, 2.4 mM CaCl2, pH: 7.5
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2015 Sep 25
Elucidating Collagen Degradation Synergy between Col G and Col H from Hathewaya (Clostridium) histolytica and Identifying novel structural features in HPT and REC domains from VarS histidine kinase in V. alginolyticus University of Arkansas PhD thesis 28030553 (2020)
Perry Caviness
RgGuinier 2.6 nm
Dmax 8.7 nm
VolumePorod 29 nm3