Browse by DISSEMINATION: Published

SASDPB4 – SAXS data for the C-phycocyanin in 8 M urea solution

C-phycocyanin alpha subunitC-phycocyanin beta subunit experimental SAS data
GASBOR model
Sample: C-phycocyanin alpha subunit monomer, 18 kDa Arthrospira platensis protein
C-phycocyanin beta subunit monomer, 18 kDa Arthrospira platensis protein
Buffer: 8 M urea, 30 mM βME, pH: 7
Experiment: SAXS data collected at Rigaku MicroMax 007-HF, Moscow Institute of Physics and Technology (MIPT) on 2022 Apr 14
Anti-Stokes fluorescence excitation reveals conformational mobility of the C-phycocyanin chromophores Structural Dynamics 9(5):054701 (2022)
Tsoraev G, Protasova E, Klimanova E, Ryzhykau Y, Kuklin A, Semenov Y, Ge B, Li W, Qin S, Friedrich T, Sluchanko N, Maksimov E
RgGuinier 6.6 nm
Dmax 23.5 nm

SASDKX8 – Aedes aegypti Toll5A receptor ectodomain (T5A)

Toll-like receptor experimental SAS data
Toll-like receptor Kratky plot
Sample: Toll-like receptor dimer, 175 kDa Aedes aegypti protein
Buffer: 50 mM NaCl, 50 mM Tris-HCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Aug 2
Structure and dynamics of Toll immunoreceptor activation in the mosquito Aedes aegypti. Nat Commun 13(1):5110 (2022)
Saucereau Y, Wilson TH, Tang MCK, Moncrieffe MC, Hardwick SW, Chirgadze DY, Soares SG, Marcaida MJ, Gay NJ, Gangloff M
RgGuinier 5.4 nm
Dmax 20.5 nm
VolumePorod 370 nm3

SASDKY8 – Aedes aegypti Toll5A ectodomain in complex with Spz1C Cys-knot domain

Toll-like receptorAAEL013433-PA (Cystine-knot_cytokine) experimental SAS data
Toll-like receptor AAEL013433-PA (Cystine-knot_cytokine) Kratky plot
Sample: Toll-like receptor dimer, 175 kDa Aedes aegypti protein
AAEL013433-PA (Cystine-knot_cytokine) dimer, 26 kDa Aedes aegypti protein
Buffer: 50 mM NaCl, 50 mM Tris-HCl, pH: 7.5
Experiment: SAXS data collected at B21, Diamond Light Source on 2019 Aug 2
Structure and dynamics of Toll immunoreceptor activation in the mosquito Aedes aegypti. Nat Commun 13(1):5110 (2022)
Saucereau Y, Wilson TH, Tang MCK, Moncrieffe MC, Hardwick SW, Chirgadze DY, Soares SG, Marcaida MJ, Gay NJ, Gangloff M
RgGuinier 5.5 nm
Dmax 21.5 nm
VolumePorod 567 nm3

SASDN75 – TetR/AcrR-like repressor SCO3201 from Streptomyces coelicor

Putative tetR-family transcriptional regulator experimental SAS data
PDB (PROTEIN DATA BANK) model
Sample: Putative tetR-family transcriptional regulator dimer, 47 kDa Streptomyces coelicolor (strain … protein
Buffer: 20 mM Tris/HCl, 400 mM NaCl, 50 mM imidazole, 1 mM DTT, pH: 8.5
Experiment: SAXS data collected at BM29, ESRF on 2014 May 2
Crystal Structures of Free and Ligand-Bound Forms of the TetR/AcrR-Like Regulator SCO3201 from Streptomyces coelicolor Suggest a Novel Allosteric Mechanism. FEBS J (2022)
Werten S, Waack P, Palm GJ, Virolle MJ, Hinrichs W
RgGuinier 2.6 nm
Dmax 6.5 nm
VolumePorod 77 nm3

SASDEX6 – Cold-active AMS8 lipase in the presence of calcium (without polyhistidine affinity tag)

LipAMS8 experimental SAS data
DAMMIF model
Sample: LipAMS8 monomer, 50 kDa Pseudomonas sp. AMS8 protein
Buffer: 50 mM Tris HCl, 5 mM CaCl2, pH: 8
Experiment: SAXS data collected at BL1.3W, Synchrotron Light Research Institute (SLRI) on 2018 Mar 6
Structural interpretations of a flexible cold-active AMS8 lipase by combining small-angle X-ray scattering and molecular dynamics simulation (SAXS-MD). Int J Biol Macromol (2022)
Yaacob N, Kamonsutthipaijit N, Soontaranon S, Leow TC, Rahman RNZRA, Ali MSM
RgGuinier 2.9 nm
Dmax 9.8 nm
VolumePorod 87 nm3

SASDMD9 – 7SK small nuclear RNA stem loop-1 bound to the arginine rich motif of HIV-1 Tat Group M, Subtype G

Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNAProtein Tat experimental SAS data
Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNA Protein Tat Kratky plot
Sample: Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNA monomer, 18 kDa Homo sapiens RNA
Protein Tat monomer, 2 kDa Human immunodeficiency virus … protein
Buffer: 10 mM phosphate, 70 mM NaCl, 0.1 mM EDTA, pH: 5.6
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Nov 27
A structure-based mechanism for displacement of the HEXIM adapter from 7SK small nuclear RNA. Commun Biol 5(1):819 (2022)
Pham VV, Gao M, Meagher JL, Smith JL, D'Souza VM
RgGuinier 2.5 nm
Dmax 9.9 nm
VolumePorod 28 nm3

SASDME9 – 7SK stem-loop 1 with HEXIM Arginine Rich Motif

Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNAProtein HEXIM1 experimental SAS data
Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNA Protein HEXIM1 Kratky plot
Sample: Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNA monomer, 18 kDa Homo sapiens RNA
Protein HEXIM1 monomer, 2 kDa Homo sapiens protein
Buffer: 10 mM phosphate, 70 mM NaCl, 0.1 mM EDTA, pH: 5.6
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2018 Nov 27
A structure-based mechanism for displacement of the HEXIM adapter from 7SK small nuclear RNA. Commun Biol 5(1):819 (2022)
Pham VV, Gao M, Meagher JL, Smith JL, D'Souza VM
RgGuinier 2.2 nm
Dmax 8.2 nm
VolumePorod 26 nm3

SASDMF9 – 7SK small nuclear RNA stem loop-1 bound to the arginine rich motif of HIV-1 Tat Group M, Subtype B (Isolate A18188)

Protein TatHomo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNA experimental SAS data
Protein Tat Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNA Kratky plot
Sample: Protein Tat monomer, 2 kDa Human immunodeficiency virus … protein
Homo sapiens RNA component of 7SK nuclear ribonucleoprotein (RN7SK), small nuclear RNA monomer, 18 kDa Homo sapiens RNA
Buffer: 10 mM phosphate, 70 mM NaCl, 0.1 mM EDTA, pH: 5.6
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2019 Sep 9
A structure-based mechanism for displacement of the HEXIM adapter from 7SK small nuclear RNA. Commun Biol 5(1):819 (2022)
Pham VV, Gao M, Meagher JL, Smith JL, D'Souza VM
RgGuinier 2.3 nm
Dmax 9.7 nm
VolumePorod 28 nm3

SASDPZ3 – Complex of XPA1-239 and RPAΔ32NΔ70N complex engaged on 3’ss-ds DNA junction NER substrate

DNA repair protein complementing XP-A cellsReplication protein A 70 kDa DNA-binding subunitReplication protein A 32 kDa subunitReplication protein A 14 kDa subunit3-prime ss-ds DNA junction NER model substrate experimental SAS data
MES-FOXS model
Sample: DNA repair protein complementing XP-A cells monomer, 27 kDa Homo sapiens protein
Replication protein A 70 kDa DNA-binding subunit monomer, 49 kDa Homo sapiens protein
Replication protein A 32 kDa subunit monomer, 25 kDa Homo sapiens protein
Replication protein A 14 kDa subunit monomer, 14 kDa Homo sapiens protein
3-prime ss-ds DNA junction NER model substrate monomer, 17 kDa DNA
Buffer: 20 mM Tris pH 8.0, 150 mM NaCl, 2% glycerol, 1 mM DTT, pH: 8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2020 Mar 4
Two interaction surfaces between XPA and RPA organize the preincision complex in nucleotide excision repair Proceedings of the National Academy of Sciences 119(34) (2022)
Kim M, Kim H, D’Souza A, Gallagher K, Jeong E, Topolska-Wós A, Ogorodnik Le Meur K, Tsai C, Tsai M, Kee M, Tainer J, Yeo J, Chazin W, Schärer O
RgGuinier 4.3 nm
Dmax 14.7 nm
VolumePorod 189 nm3

SASDP24 – Complex of XPA1-239 and RPAΔ32NΔ70N complex engaged on 5’ss-ds DNA junction NER substrate

Replication protein A 14 kDa subunitDNA repair protein complementing XP-A cellsReplication protein A 70 kDa DNA-binding subunitReplication protein A 32 kDa subunit5-prime ss-ds DNA junction NER model substrate experimental SAS data
MES-FOXS model
Sample: Replication protein A 14 kDa subunit monomer, 14 kDa Homo sapiens protein
DNA repair protein complementing XP-A cells monomer, 27 kDa Homo sapiens protein
Replication protein A 70 kDa DNA-binding subunit monomer, 49 kDa Homo sapiens protein
Replication protein A 32 kDa subunit monomer, 25 kDa Homo sapiens protein
5-prime ss-ds DNA junction NER model substrate monomer, 17 kDa DNA
Buffer: 20 mM Tris pH 8.0, 150 mM NaCl, 2% glycerol, 1 mM DTT, pH: 8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2020 Mar 4
Two interaction surfaces between XPA and RPA organize the preincision complex in nucleotide excision repair Proceedings of the National Academy of Sciences 119(34) (2022)
Kim M, Kim H, D’Souza A, Gallagher K, Jeong E, Topolska-Wós A, Ogorodnik Le Meur K, Tsai C, Tsai M, Kee M, Tainer J, Yeo J, Chazin W, Schärer O
RgGuinier 4.6 nm
Dmax 16.5 nm
VolumePorod 220 nm3