Browse by MODEL: Hybrid

SASDJA4 – Endonuclease VIII from E. coli (size exclusion chromatography SAXS)

Endonuclease 8 experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Endonuclease 8 monomer, 31 kDa Escherichia coli protein
Buffer: 25 mM Bis-Tris, 150 mM NaCl, 2% glycerol, 1 mM TCEP, pH: 8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Mar 9
Unique Structural Features of Mammalian NEIL2 DNA Glycosylase Prime Its Activity for Diverse DNA Substrates and Environments. Structure (2020)
Eckenroth BE, Cao VB, Averill AM, Dragon JA, Doublié S
RgGuinier 2.3 nm
Dmax 7.8 nm
VolumePorod 45 nm3

SASDJC4 – Endonuclease VIII - Like 2 from Monodelphis domestica (size exclusion chromatography SAXS) MdoNEIL2 cut (Δ67-133)

Nei like DNA glycosylase 2 (Δ67-133) experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Nei like DNA glycosylase 2 (Δ67-133) monomer, 33 kDa Monodelphis domestica protein
Buffer: 25 mM Bis-Tris, 150 mM NaCl, 2% glycerol, 1 mM TCEP, pH: 8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Mar 9
Unique Structural Features of Mammalian NEIL2 DNA Glycosylase Prime Its Activity for Diverse DNA Substrates and Environments. Structure (2020)
Eckenroth BE, Cao VB, Averill AM, Dragon JA, Doublié S
RgGuinier 2.4 nm
Dmax 7.8 nm
VolumePorod 47 nm3

SASDJW5 – Plasminogen activator inhibitor-1 (PAI-1) W175F bound to nanobody Nb93

Plasminogen activator inhibitor 1VHH-s-a93 (Ig module Nb93) experimental SAS data
OTHER model
Sample: Plasminogen activator inhibitor 1 monomer, 43 kDa Homo sapiens protein
VHH-s-a93 (Ig module Nb93) monomer, 13 kDa Vicugna pacos protein
Buffer: 30 mM BIS-TRIS pH 5.5, 300 mM sodium chloride, 5% v/v glycerol, pH: 5.5
Experiment: SAXS data collected at SWING, SOLEIL on 2019 Dec 5
Structural Insights into the Mechanism of a Nanobody That Stabilizes PAI-1 and Modulates Its Activity International Journal of Molecular Sciences 21(16):5859 (2020)
Sillen M, Weeks S, Strelkov S, Declerck P
RgGuinier 2.9 nm
Dmax 9.7 nm
VolumePorod 80 nm3

SASDJ63 – Streptococcus pneumoniae NADPH oxidase - Tag-free SpNOX

FAD-binding FR-type domain-containing protein experimental SAS data
OTHER model
Sample: FAD-binding FR-type domain-containing protein monomer, 47 kDa Streptococcus pneumoniae protein
Buffer: 50 mM Tris-HCl pH 7, 300 mM NaCl, 5 mM LMNG, 10 µM FAD, 21.4% D₂O, pH: 7
Experiment: SANS data collected at D22, Institut Laue-Langevin (ILL) on 2018 Jun 26
Interdomain Flexibility within NADPH Oxidase Suggested by SANS Using LMNG Stealth Carrier. Biophys J 119(3):605-618 (2020)
Vermot A, Petit-Härtlein I, Breyton C, Le Roy A, Thépaut M, Vivès C, Moulin M, Härtlein M, Grudinin S, Smith SME, Ebel C, Martel A, Fieschi F
RgGuinier 3.0 nm
Dmax 10.0 nm
VolumePorod 89 nm3

SASDHJ4 – Dengue Virus 2 New Guinea C (DENV-2 C, capsid protein), apo form

Dengue Virus 2 New Guinea C experimental SAS data
CORAL model
Sample: Dengue Virus 2 New Guinea C dimer, 19 kDa Dengue virus 2 protein
Buffer: 100 mM NaCl, 25 mM HEPES, pH: 7.4
Experiment: SAXS data collected at Rigaku BioSAXS-1000, Sealy Center For Structural Biology, UTMB-G on 2018 Jul 5
A cocrystal structure of dengue capsid protein in complex of inhibitor. Proc Natl Acad Sci U S A 117(30):17992-18001 (2020)
Xia H, Xie X, Zou J, Noble CG, Russell WK, Holthauzen LMF, Choi KH, White MA, Shi PY
RgGuinier 1.8 nm
Dmax 5.4 nm
VolumePorod 52 nm3

SASDHK4 – Dengue Virus 2 New Guinea C (DENV-2 C, capsid protein) with saturating ST148 inhibitor

Dengue Virus 2 New Guinea C experimental SAS data
CORAL model
Sample: Dengue Virus 2 New Guinea C dimer, 19 kDa Dengue virus 2 protein
Buffer: 100 mM NaCl, 25 mM HEPES, pH 7.4, 10 µM ST148, pH: 7.4
Experiment: SAXS data collected at Rigaku BioSAXS-1000, Sealy Center For Structural Biology, UTMB-G on 2018 Jul 26
A cocrystal structure of dengue capsid protein in complex of inhibitor. Proc Natl Acad Sci U S A 117(30):17992-18001 (2020)
Xia H, Xie X, Zou J, Noble CG, Russell WK, Holthauzen LMF, Choi KH, White MA, Shi PY
RgGuinier 1.9 nm
Dmax 6.0 nm
VolumePorod 52 nm3

SASDHR8 – Mosquito-larvicidal binary toxin receptor (Cqm1) protein

Synthetic construct (mutant, His-tagged): Mosquito-larvicidal BinAB toxin receptor protein (Neutral and basic amino acid transport protein rBAT) experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Synthetic construct (mutant, His-tagged): Mosquito-larvicidal BinAB toxin receptor protein (Neutral and basic amino acid transport protein rBAT) dimer, 129 kDa Culex quinquefasciatus protein
Buffer: PBS buffer (10 mM Na2HPO4, 1.8 mM KH2PO4, 137 mM NaCl, 2.7 mM KCl), pH: 7.4
Experiment: SAXS data collected at BL-18, INDUS-2 on 2020 Feb 24
Liposome-Based Study Provides Insight into Cellular Internalization Mechanism of Mosquito-Larvicidal BinAB Toxin. J Membr Biol (2020)
Sharma M, Kumar A, Kumar V
RgGuinier 4.0 nm
Dmax 9.2 nm
VolumePorod 97 nm3

SASDHS8 – Mosquito-larvicidal BinB protein

Binary larvicide subunit BinB experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Binary larvicide subunit BinB monomer, 53 kDa Lysinibacillus sphaericus protein
Buffer: PBS buffer (10 mM Na2HPO4, 1.8 mM KH2PO4, 137 mM NaCl, 2.7 mM KCl), pH: 7.4
Experiment: SAXS data collected at BL-18, INDUS-2 on 2020 Feb 24
Liposome-Based Study Provides Insight into Cellular Internalization Mechanism of Mosquito-Larvicidal BinAB Toxin. J Membr Biol (2020)
Sharma M, Kumar A, Kumar V
RgGuinier 2.9 nm
Dmax 9.7 nm
VolumePorod 48 nm3

SASDHT8 – Complex of mosquito-larvicidal BinB protein and the Mosquito-larvicidal binary toxin receptor (Cqm1)

Binary larvicide subunit BinBSynthetic construct (mutant, His-tagged): Mosquito-larvicidal BinAB toxin receptor protein (Neutral and basic amino acid transport protein rBAT) experimental SAS data
OTHER model
Sample: Binary larvicide subunit BinB monomer, 53 kDa Lysinibacillus sphaericus protein
Synthetic construct (mutant, His-tagged): Mosquito-larvicidal BinAB toxin receptor protein (Neutral and basic amino acid transport protein rBAT) monomer, 65 kDa Culex quinquefasciatus protein
Buffer: PBS buffer (10 mM Na2HPO4, 1.8 mM KH2PO4, 137 mM NaCl, 2.7 mM KCl), pH: 7.4
Experiment: SAXS data collected at BL-18, INDUS-2 on 2020 Feb 24
Liposome-Based Study Provides Insight into Cellular Internalization Mechanism of Mosquito-Larvicidal BinAB Toxin. J Membr Biol (2020)
Sharma M, Kumar A, Kumar V
RgGuinier 4.6 nm
Dmax 11.7 nm
VolumePorod 290 nm3

SASDHU8 – SANS study of the complex between mosquito-larvicidal BinB protein and the mosquito-larvicidal binary toxin receptor (Cqm1)

Binary larvicide subunit BinBSynthetic construct (mutant, His-tagged): Mosquito-larvicidal BinAB toxin receptor protein (Neutral and basic amino acid transport protein rBAT) experimental SAS data
OTHER model
Sample: Binary larvicide subunit BinB monomer, 53 kDa Lysinibacillus sphaericus protein
Synthetic construct (mutant, His-tagged): Mosquito-larvicidal BinAB toxin receptor protein (Neutral and basic amino acid transport protein rBAT) monomer, 65 kDa Culex quinquefasciatus protein
Buffer: 25 mM HEPES, pH 7.5, 25 mM NaCl, in 100% D2O, pH: 7.5
Experiment: SANS data collected at SANS-I facility, Dhruva Reactor, Bhabha Atomic Research Centre on 2019 Apr 26
Liposome-Based Study Provides Insight into Cellular Internalization Mechanism of Mosquito-Larvicidal BinAB Toxin. J Membr Biol (2020)
Sharma M, Kumar A, Kumar V
RgGuinier 3.7 nm
Dmax 12.9 nm
VolumePorod 174 nm3