The Chlamydia pneumoniae effector SemD exploits its host’s endocytic machinery by structural and functional mimicry

Kocher F, Applegate V, Reiners J, Port A, Spona D, Hänsch S, Mirzaiebadizi A, Ahmadian M, Smits S, Hegemann J, Mölleken K, Nature Communications 15(1) (2024) DOI

SASDTT5 – SemDΔAPH bound to Sorting nexin-9, N-terminus - SNX9-SH3

Uncharacterized protein
Sorting nexin-9
MWexperimental 53 kDa
MWexpected 54 kDa
VPorod 94 nm3
log I(s) 7.33×10-3 7.33×10-4 7.33×10-5 7.33×10-6
Uncharacterized protein Sorting nexin-9 small angle scattering data  s, nm-1
ln I(s)
Uncharacterized protein Sorting nexin-9 Guinier plot ln 7.34×10-3 Rg: 3.4 nm 0 (3.4 nm)-2 s2
(sRg)2I(s)/I(0)
Uncharacterized protein Sorting nexin-9 Kratky plot 1.104 0 √3 sRg
p(r)
Uncharacterized protein Sorting nexin-9 pair distance distribution function Rg: 3.5 nm 0 Dmax: 12.2 nm

Data validation

Fits and models

log I(s)
 s, nm-1
Uncharacterized protein Sorting nexin-9 CORAL model
Synchrotron SAXS data from solutions of SemDΔAPH bound to SNX9-SH3 in 137 mM NaCl, 2.7 mM KCl, 10 mM Na2HPO4, 1.8 mM KH2PO4, 3% glycerol, pH 8.5 were collected on the EMBL P12 beam line at PETRA III (DESY; Hamburg, Germany) using a Pilatus 6M detector at a sample-detector distance of 3 m and at a wavelength of λ = 0.124 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). In-line size-exclusion chromatography (SEC) SAS was employed. The SEC parameters were as follows: A 100.00 μl sample at 3.3 mg/ml was injected at a 0.60 ml/min flow rate onto a GE Superdex 200 Increase 10/300 column at 20°C. 2400 successive 0.995 second frames were collected. The data were normalized to the intensity of the transmitted beam and radially averaged; the scattering of the solvent-blank was subtracted.

Uncharacterized protein (SemDΔAPH)
Mol. type   Protein
Organism   Chlamydia pneumoniae
Olig. state   Monomer
Mon. MW   35.1 kDa
 
UniProt   Q9Z7M7 (67-382)
Sequence   FASTA
 
Sorting nexin-9 (SNX9-SH3)
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   18.8 kDa
 
UniProt   Q9Y5X1 (1-160)
Sequence   FASTA