Structural and biochemical characterization of RNA polymerase core and UvrD complex: a key component in transcription coupled DNA repair

Ravishankar Ramachandran Submitted to SASBDB: 2020 Jun 10
Published in SASBDB:

SASDJK4 – RNA polymerase core complex

DNA-directed RNA polymerase subunit alphaDNA-directed RNA polymerase subunit betaDNA-directed RNA polymerase subunit beta'DNA-directed RNA polymerase subunit omega experimental SAS data
DAMFILT model
Sample: DNA-directed RNA polymerase subunit alpha dimer, 78 kDa Mycobacterium tuberculosis protein
DNA-directed RNA polymerase subunit beta monomer, 129 kDa Mycobacterium tuberculosis protein
DNA-directed RNA polymerase subunit beta' monomer, 147 kDa Mycobacterium tuberculosis protein
DNA-directed RNA polymerase subunit omega monomer, 12 kDa Mycobacterium tuberculosis protein
Buffer: 10 mM Tris-Cl, 100 mM NaCl, 10 mM MgCl2, 0.1 mM EDTA, 5% Glycerol, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2018 Mar 8
RgGuinier 5.1 nm
Dmax 19.3 nm
VolumePorod 262 nm3

SASDJL4 – RNA polymerase core subunit in complex with ATP-dependent DNA helicase UvrD1

DNA-directed RNA polymerase subunit alphaDNA-directed RNA polymerase subunit betaDNA-directed RNA polymerase subunit beta'DNA-directed RNA polymerase subunit omegaATP-dependent DNA helicase UvrD1 experimental SAS data
DAMMIF model
Sample: DNA-directed RNA polymerase subunit alpha dimer, 75 kDa Mycobacterium tuberculosis protein
DNA-directed RNA polymerase subunit beta monomer, 129 kDa Mycobacterium tuberculosis protein
DNA-directed RNA polymerase subunit beta' monomer, 147 kDa Mycobacterium tuberculosis protein
DNA-directed RNA polymerase subunit omega monomer, 12 kDa Mycobacterium tuberculosis protein
ATP-dependent DNA helicase UvrD1 monomer, 85 kDa Mycobacterium tuberculosis protein
Buffer: 10 mM Tris-Cl, 100 mM NaCl, 10 mM MgCl2, 0.1 mM EDTA, 5% Glycerol, pH: 8
Experiment: SAXS data collected at BM29, ESRF on 2018 Mar 11
RgGuinier 7.5 nm
Dmax 22.2 nm
VolumePorod 898 nm3

SASDJM4 – ATP-dependent DNA helicase UvrD1 (Apo-UvrD)

ATP-dependent DNA helicase UvrD1 experimental SAS data
DAMFILT model
Sample: ATP-dependent DNA helicase UvrD1 monomer, 85 kDa Mycobacterium tuberculosis protein
Buffer: 10 mM Tris-Cl, 100 mM NaCl, 10 mM MgCl2, 0.1 mM EDTA, 5% Glycerol, pH: 8
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR-Central Drug Research Institute on 2020 Feb 28
RgGuinier 3.4 nm
Dmax 8.4 nm
VolumePorod 132 nm3

SASDJN4 – ATP-dependent DNA helicase UvrD-ATP complex

ATP-dependent DNA helicase UvrD1 experimental SAS data
DAMFILT model
Sample: ATP-dependent DNA helicase UvrD1 monomer, 85 kDa Mycobacterium tuberculosis protein
Buffer: 10 mM Tris-Cl, 100 mM NaCl, 10 mM MgCl2, 0.1 mM EDTA, 5% Glycerol, pH: 8
Experiment: SAXS data collected at Anton Paar SAXSpace, CSIR-Central Drug Research Institute on 2020 Feb 28
RgGuinier 3.5 nm
Dmax 9.5 nm
VolumePorod 101 nm3