The antibiotic cyclomarin blocks arginine-phosphate-induced millisecond dynamics in the N-terminal domain of ClpC1 from Mycobacterium tuberculosis.

Weinhäupl K, Brennich M, Kazmaier U, Lelievre J, Ballell L, Goldberg A, Schanda P, Fraga H, J Biol Chem 293(22):8379-8393 (2018) PubMed

SASDD93 – ATP-dependent Clp protease ATP-binding subunit ClpC1

ATP-dependent Clp protease ATP-binding subunit ClpC1
MWexperimental 1250 kDa
MWexpected 95 kDa
VPorod 2156 nm3
log I(s) 4.45×101 4.45×100 4.45×10-1 4.45×10-2
ATP-dependent Clp protease ATP-binding subunit ClpC1 small angle scattering data  s, nm-1
ln I(s)
ATP-dependent Clp protease ATP-binding subunit ClpC1 Guinier plot ln 4.46×101 Rg: 7.6 nm 0 (7.6 nm)-2 s2
(sRg)2I(s)/I(0)
ATP-dependent Clp protease ATP-binding subunit ClpC1 Kratky plot 1.104 0 3 sRg
p(r)
ATP-dependent Clp protease ATP-binding subunit ClpC1 pair distance distribution function Rg: 7.7 nm 0 Dmax: 25 nm

Experimental data validation


Fits and models


log I(s)
 s, nm-1
ATP-dependent Clp protease ATP-binding subunit ClpC1 OTHER model
log I(s)
 s, nm-1
ATP-dependent Clp protease ATP-binding subunit ClpC1 DAMMIF model
Synchrotron SAXS data from solutions of ATP-dependent Clp protease ATP-binding subunit ClpC1 in 50 mM HEPES, pH 7.5, 100 mM KCl, 10% v/v glycerol, 4 mM MgCl2 and 1 mM ATP were collected on the BM29 beam line at the ESRF storage ring (Grenoble, France) using a Pilatus 1M detector at a sample-detector distance of 2.9 m and at a wavelength of λ = 0.099 nm (l(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Size-exclusion chromatography SEC-SAXS was performed on a sample at at 20°C. 49 successive 1 second frames were collected through the corresponding SEC elution peak. Each data frame was normalized to the intensity of the transmitted beam and radially averaged (2D- to 1D data reduction). The scattering of the solvent-blank (reduced data obtained from the elution buffer) was subtracted from each sample frame and the resulting subtracted SAXS profiles were scaled and averaged to generate the data displayed in this entry.

ATP-dependent Clp protease ATP-binding subunit ClpC1 (ClpC1)
Mol. type   Protein
Organism   Mycobacterium tuberculosis (strain ATCC 25618 / H37Rv)
Olig. state   Unknown
Mon. MW   94.5 kDa
 
UniProt   P9WPC9
Sequence   FASTA
 
PDB code   6EM9