Browse by ORGANISM: other species

SASDRA3 – N-terminal RNA-binding domain (NTD) of nucleocapsid protein (N) complexed with 5'-genomic RNA AU extension of SARS-CoV-2 in HEPES conditions

AU extension in the 5'-genomic end of SARS-CoV-2Nucleoprotein experimental SAS data
AU extension in the 5'-genomic end of SARS-CoV-2 Nucleoprotein Kratky plot
Sample: AU extension in the 5'-genomic end of SARS-CoV-2 monomer, 7 kDa Severe acute respiratory … RNA
Nucleoprotein dimer, 30 kDa Severe acute respiratory … protein
Buffer: 25 mM HEPES, 75 mM KCl, 2.5 mM NaNO3, pH: 7.2
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Nov 29
The preference signature of the SARS-CoV-2 Nucleocapsid NTD for its 5'-genomic RNA elements
Karthikeyan Dhamotharan
RgGuinier 2.6 nm
Dmax 9.0 nm
VolumePorod 46 nm3

SASDRB3 – N-terminal RNA-binding domain (NTD) of nucleocapsid protein (N) complexed with 5'-genomic RNA Stem loop 4 of SARS-CoV-2 in HEPES conditions

NucleoproteinStem loop 4 in the 5'-genomic end of SARS-CoV-2 experimental SAS data
Nucleoprotein Stem loop 4 in the 5'-genomic end of SARS-CoV-2 Kratky plot
Sample: Nucleoprotein monomer, 15 kDa Severe acute respiratory … protein
Stem loop 4 in the 5'-genomic end of SARS-CoV-2 monomer, 14 kDa Severe acute respiratory … RNA
Buffer: 25 mM HEPES, 75 mM KCl, 2.5 mM NaNO3, pH: 7.2
Experiment: SAXS data collected at EMBL P12, PETRA III on 2022 Nov 29
The preference signature of the SARS-CoV-2 Nucleocapsid NTD for its 5'-genomic RNA elements
Karthikeyan Dhamotharan
RgGuinier 2.7 nm
Dmax 10.0 nm
VolumePorod 46 nm3

SASDRG2 – Ligand free Xenosiderophore Utilization System B (XusB)

DUF4374 domain-containing protein experimental SAS data
Sample: DUF4374 domain-containing protein monomer, 46 kDa Bacteroides thetaiotaomicron (strain … protein
Buffer: 20 mM Tris 150 mM NaCl, pH: 8
Experiment: SAXS data collected at 12.3.1 (SIBYLS), Advanced Light Source (ALS) on 2021 May 9
Iron acquisition by a commensal bacterium modifies host nutritional immunity during Salmonella infection. Cell Host Microbe 31(10):1639-1654.e10 (2023)
Spiga L, Fansler RT, Perera YR, Shealy NG, Munneke MJ, David HE, Torres TP, Lemoff A, Ran X, Richardson KL, Pudlo N, Martens EC, Folta-Stogniew E, Yang ZJ, Skaar EP, Byndloss MX, Chazin WJ, Zhu W
RgGuinier 2.3 nm
Dmax 7.4 nm
VolumePorod 74 nm3

SASDRH2 – Ligand bound Xenosiderophore Utilization System B (XusB)

DUF4374 domain-containing protein experimental SAS data
Sample: DUF4374 domain-containing protein monomer, 46 kDa Bacteroides thetaiotaomicron (strain … protein
Buffer: 20 mM Tris 150 mM NaCl, pH: 8
Experiment: SAXS data collected at 12-ID-B, Advanced Photon Source (APS), Argonne National Laboratory on 2021 May 9
Iron acquisition by a commensal bacterium modifies host nutritional immunity during Salmonella infection. Cell Host Microbe 31(10):1639-1654.e10 (2023)
Spiga L, Fansler RT, Perera YR, Shealy NG, Munneke MJ, David HE, Torres TP, Lemoff A, Ran X, Richardson KL, Pudlo N, Martens EC, Folta-Stogniew E, Yang ZJ, Skaar EP, Byndloss MX, Chazin WJ, Zhu W
RgGuinier 2.4 nm
Dmax 7.4 nm
VolumePorod 77 nm3

SASDRT6 – Wild type frameshifting pseudoknot from SARS CoV2 virus

Frameshifting pseudoknot from SARS CoV2, wild type experimental SAS data
Frameshifting pseudoknot from SARS CoV2, wild type Kratky plot
Sample: Frameshifting pseudoknot from SARS CoV2, wild type monomer, 23 kDa RNA
Buffer: 50 mM MOPS, 130 mM KCl, pH: 7.5
Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2020 May 15
Atomistic structure of the SARS-CoV-2 pseudoknot in solution from SAXS-driven molecular dynamics. Nucleic Acids Res (2023)
He W, San Emeterio J, Woodside MT, Kirmizialtin S, Pollack L
RgGuinier 2.7 nm
Dmax 10.5 nm
VolumePorod 40 nm3

SASDRU6 – Non frameshifting variant of SARS CoV2 frameshifting pseudoknot

Variant: non frameshifting pseudoknot from SARS CoV2 genome experimental SAS data
Variant: non frameshifting pseudoknot from SARS CoV2 genome Kratky plot
Sample: Variant: non frameshifting pseudoknot from SARS CoV2 genome monomer, 23 kDa RNA
Buffer: 50 mM MOPS, 130 mM KCl, pH: 7.5
Experiment: SAXS data collected at 16-ID (LiX), National Synchrotron Light Source II (NSLS-II) on 2020 Jun 12
Atomistic structure of the SARS-CoV-2 pseudoknot in solution from SAXS-driven molecular dynamics. Nucleic Acids Res (2023)
He W, San Emeterio J, Woodside MT, Kirmizialtin S, Pollack L
RgGuinier 2.8 nm
Dmax 13.5 nm
VolumePorod 38 nm3

SASDRV4 – Mycobacterium marinum phosphoserine phosphatase (MmSerB2) dimer

phosphoserine phosphatase experimental SAS data
phosphoserine phosphatase Kratky plot
Sample: Phosphoserine phosphatase dimer, 88 kDa Mycobacterium marinum (strain … protein
Buffer: 50 mM Tris, 150 mM NaCl, 1 mM TCEP, pH: 7.4
Experiment: SAXS data collected at SWING, SOLEIL on 2021 Oct 6
A morpheein equilibrium regulates catalysis in phosphoserine phosphatase SerB2 from Mycobacterium tuberculosis. Commun Biol 6(1):1024 (2023)
Pierson E, De Pol F, Fillet M, Wouters J
RgGuinier 3.2 nm
Dmax 9.9 nm
VolumePorod 138 nm3

SASDRW4 – Mycobacterium avium phosphoserine phosphatase (MaSerB) dimer

Phosphoserine phosphatase (G31R, G152E) experimental SAS data
DADIMODO model
Sample: Phosphoserine phosphatase (G31R, G152E) dimer, 88 kDa Mycobacterium avium (strain … protein
Buffer: 50 mM Tris, 150 mM NaCl, 1 mM TCEP, pH: 7.4
Experiment: SAXS data collected at SWING, SOLEIL on 2021 Oct 6
A morpheein equilibrium regulates catalysis in phosphoserine phosphatase SerB2 from Mycobacterium tuberculosis. Commun Biol 6(1):1024 (2023)
Pierson E, De Pol F, Fillet M, Wouters J
RgGuinier 3.3 nm
Dmax 10.1 nm
VolumePorod 138 nm3

SASDLC7 – Polyribonucleotide nucleotidyltransferase (PNPase): apo form

Polyribonucleotide nucleotidyltransferase experimental SAS data
DAMFILT model
Sample: Polyribonucleotide nucleotidyltransferase trimer, 246 kDa Campylobacter jejuni subsp. … protein
Buffer: 20 mM Tris-HCl, 10 mM NAH2PO4, 60 mM KCl, 1 mM MgCl2, 2 mM DTT, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2020 Mar 17
Structure and function of Campylobacter jejuni polynucleotide phosphorylase (PNPase): Insights into the role of this RNase in pathogenicity. Biochimie (2023)
Bárria C, Athayde D, Hernandez G, Fonseca L, Casinhas J, Cordeiro TN, Archer M, Arraiano CM, Brito JA, Matos RG
RgGuinier 3.9 nm
Dmax 11.0 nm
VolumePorod 310 nm3

SASDLD7 – Polyribonucleotide nucleotidyltransferase (PNPase): 2-AMP complex

Polyribonucleotide nucleotidyltransferase experimental SAS data
DAMFILT model
Sample: Polyribonucleotide nucleotidyltransferase trimer, 237 kDa Campylobacter jejuni subsp. … protein
Buffer: 20 mM Tris.HCl, 10 mM NAH2PO4, 60 mM KCl, 1 mM MgCl2, 2 mM DTT, pH: 8
Experiment: SAXS data collected at B21, Diamond Light Source on 2020 Mar 17
Structure and function of Campylobacter jejuni polynucleotide phosphorylase (PNPase): Insights into the role of this RNase in pathogenicity. Biochimie (2023)
Bárria C, Athayde D, Hernandez G, Fonseca L, Casinhas J, Cordeiro TN, Archer M, Arraiano CM, Brito JA, Matos RG
RgGuinier 3.9 nm
Dmax 11.0 nm
VolumePorod 315 nm3