Browse by MODEL: Ab initio only

SASDMN3 – Wild type E3 ubiquitin-protein ligase LRSAM1

E3 ubiquitin-protein ligase LRSAM1 experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 monomer, 84 kDa Homo sapiens protein
Buffer: 25 mM Tris-HCl pH 8.0, 150 mM NaCl, 1 mM TCEP, pH: 8
Experiment: SAXS data collected at BL-10C, Photon Factory (PF), High Energy Accelerator Research Organization (KEK) on 2019 Dec 7
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 6.1 nm
Dmax 19.4 nm
VolumePorod 250 nm3

SASDMP3 – Wild type E3 ubiquitin-protein ligase LRSAM1 (1-632): C-terminal PTAP/PSAP motif and RING domain deletion mutant, ΔPTAP/PSAP-RING

E3 ubiquitin-protein ligase LRSAM1 - ΔPTAP/PSAP-RING experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 - ΔPTAP/PSAP-RING monomer, 74 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl pH 8.0, 300 mM NaCl, 1 mM TCEP, 5% w/v glycerol, pH: 8
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2017 Oct 24
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 5.5 nm
Dmax 18.0 nm
VolumePorod 322 nm3

SASDMQ3 – Wild type E3 ubiquitin-protein ligase LRSAM1 (1-307): N-terminal LRR containing domain

E3 ubiquitin-protein ligase LRSAM1 - LRR containing N-terminal domain experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 - LRR containing N-terminal domain monomer, 35 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl pH 8.0, 300 mM NaCl, 1 mM TCEP, 5% w/v glycerol, pH: 8
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2017 Oct 23
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 3.4 nm
Dmax 8.2 nm
VolumePorod 105 nm3

SASDMR3 – Wild type E3 ubiquitin-protein ligase LRSAM1 (561-632): SAM domain

E3 ubiquitin-protein ligase LRSAM1 - SAM domain experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 - SAM domain monomer, 8 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl pH 8.0, 150 mM NaCl, 1 mM TCEP, pH: 8
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2019 Apr 4
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 1.4 nm
Dmax 4.3 nm
VolumePorod 11 nm3

SASDMS3 – Wild type E3 ubiquitin-protein ligase LRSAM1 (80-171): domains LRR3-6 in the Repebody scaffold

E3 ubiquitin-protein ligase LRSAM1 experimental SAS data
DAMFILT model
Sample: E3 ubiquitin-protein ligase LRSAM1 monomer, 30 kDa Homo sapiens protein
Buffer: 50 mM Tris-HCl pH 8.0, 150 mM NaCl, 1 mM TCEP, pH: 8
Experiment: SAXS data collected at 4C, Pohang Accelerator Laboratory on 2019 Apr 4
Leucine Rich Repeat And Sterile Alpha Motif Containing 1 (LRSAM1)
Si Hoon Park
RgGuinier 2.5 nm
Dmax 8.3 nm
VolumePorod 43 nm3

SASDU84 – Calcium-gelsolin and the G-form of actin at a 1:2 molar ratio in low ionic strength (SEC-SAXS)

GelsolinActin, cytoplasmic 1 experimental SAS data
GASBOR model
Sample: Gelsolin monomer, 84 kDa Homo sapiens protein
Actin, cytoplasmic 1 monomer, 42 kDa Gallus gallus protein
Buffer: 2 mM Tris-Cl, pH 8.0, 0.2 mM ATP, 1 mM NaN3, 0.1 mM CaCl2, 0.5 mM DTT, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Aug 31
Visualizing the nucleating and capped states of f-actin by Ca(2+)-gelsolin: Saxs data based structures of binary and ternary complexes. Int J Biol Macromol :134556 (2024)
Sagar A, Peddada N, Choudhary V, Mir Y, Garg R, Ashish
RgGuinier 4.4 nm
Dmax 25.0 nm
VolumePorod 241 nm3

SASDU94 – Calcium-gelsolin and the G-form of actin at a 1:1 molar ratio in low ionic strength (SEC-SAXS)

GelsolinActin, cytoplasmic 1 experimental SAS data
GASBOR model
Sample: Gelsolin monomer, 84 kDa Homo sapiens protein
Actin, cytoplasmic 1 monomer, 42 kDa Gallus gallus protein
Buffer: 2 mM Tris-Cl, pH 8.0, 0.2 mM ATP, 1 mM NaN3, 0.1 mM CaCl2, 0.5 mM DTT, pH: 8
Experiment: SAXS data collected at EMBL P12, PETRA III on 2013 Sep 1
Visualizing the nucleating and capped states of f-actin by Ca(2+)-gelsolin: Saxs data based structures of binary and ternary complexes. Int J Biol Macromol :134556 (2024)
Sagar A, Peddada N, Choudhary V, Mir Y, Garg R, Ashish
RgGuinier 4.6 nm
Dmax 25.0 nm
VolumePorod 243 nm3

SASDU39 – Nearly full-length monomeric Human Ubiquitin carboxyl-terminal hydrolase 8 (USP8) (7-1110)

Ubiquitin carboxyl-terminal hydrolase 8 experimental SAS data
DAMMIF model
Sample: Ubiquitin carboxyl-terminal hydrolase 8 monomer, 127 kDa Homo sapiens protein
Buffer: 25 mM Tris, 150 mM NaCl, pH: 7.5
Experiment: SAXS data collected at BioCAT 18ID, Advanced Photon Source (APS), Argonne National Laboratory on 2022 Jun 18
Autoinhibition of ubiquitin-specific protease 8: insights into domain interactions and mechanisms of regulation Journal of Biological Chemistry :107727 (2024)
Caba C, Black M, Liu Y, DaDalt A, Mallare J, Fan L, Harding R, Wang Y, Vacratsis P, Huang R, Zhuang Z, Tong Y
RgGuinier 8.4 nm
Dmax 31.8 nm
VolumePorod 327 nm3

SASDV54 – YdaS, a cro-type repressor from Escherichai coli O157:H7 cryptic prophage CP-933 bound to a 22 base pair dsDNA.

Phage antirepressor protein CroIR1 22 base pair dsDNA experimental SAS data
OTHER [STATIC IMAGE] model
Sample: Phage antirepressor protein Cro dimer, 24 kDa Escherichia coli O157:H7 protein
IR1 22 base pair dsDNA monomer, 14 kDa DNA
Buffer: 20 mM sodium acetate, 150 mM NaCl, 1 mM TCEP, pH: 5.5
Experiment: SAXS data collected at BM29, ESRF on 2021 Apr 13
Structural-function relationship of YdaS, a Cro-type repressor in the cryptic prophage CP-933P from Escherichia coli O157:H7
Marusa Prolic Kalinsek
RgGuinier 2.8 nm
Dmax 10.1 nm
VolumePorod 53 nm3

SASDUA2 – The Z-DNA binding domains Zαβ of Z-DNA binding protein 1 (monomer)

Z-DNA-binding protein 1 experimental SAS data
DAMMIF model
Sample: Z-DNA-binding protein 1 monomer, 18 kDa Homo sapiens protein
Buffer: 20 mM Tris, 100 mM NaCl, pH: 7.5
Experiment: SAXS data collected at BL19U2, Shanghai Synchrotron Radiation Facility (SSRF) on 2018 Mar 23
ZBP1 condensate formation synergizes Z-NAs recognition and signal transduction. Cell Death Dis 15(7):487 (2024)
Xie F, Wu D, Huang J, Liu X, Shen Y, Huang J, Su Z, Li J
RgGuinier 2.1 nm
Dmax 9.0 nm
VolumePorod 19 nm3