The preference signature of the SARS-CoV-2 Nucleocapsid NTD for its 5'-genomic RNA elements

Karthikeyan Dhamotharan Submitted to SASBDB: 2023 Jan 20
Published in SASBDB:

SASDR83 – N-terminal RNA-binding domain (NTD) of nucleocapsid protein (N) complexed with 5'-genomic RNA Stem loop 2 and 3 of SARS-CoV-2 in HEPES conditions

Stem loop 2 and 3 in the 5'-genomic end of SARS-CoV-2Nucleoprotein experimental SAS data
Stem loop 2 and 3 in the 5'-genomic end of SARS-CoV-2 Nucleoprotein Kratky plot
Sample: Stem loop 2 and 3 in the 5'-genomic end of SARS-CoV-2 monomer, 14 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
RgGuinier 2.9 nm
Dmax 10.5 nm
VolumePorod 69 nm3

SASDR93 – N-terminal RNA-binding domain (NTD) of nucleocapsid protein (N) complexed with 5'-genomic RNA Stem loop 4 with AU extension of SARS-CoV-2 in HEPES conditions

NucleoproteinStem loop 4 with AU extension in the 5'-genomic end of SARS-CoV-2 experimental SAS data
Nucleoprotein Stem loop 4 with AU extension in the 5'-genomic end of SARS-CoV-2 Kratky plot
Sample: Nucleoprotein monomer, 15 kDa Severe acute respiratory … protein
Stem loop 4 with AU extension in the 5'-genomic end of SARS-CoV-2 monomer, 22 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
RgGuinier 3.2 nm
Dmax 11.8 nm
VolumePorod 50 nm3

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
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
RgGuinier 2.7 nm
Dmax 10.0 nm
VolumePorod 46 nm3