A novel Porphyromonas gingivalis enzyme: An atypical dipeptidyl peptidase III with an ARM repeat domain.

Hromić-Jahjefendić A, Jajčanin Jozić N, Kazazić S, Grabar Branilović M, Karačić Z, Schrittwieser JH, Das KMP, Tomin M, Oberer M, Gruber K, Abramić M, Tomić S, PLoS One 12(11):e0188915 (2017) Europe PMC

SASDC58 – Dipeptidyl peptidase III: pgDPP3_FL

Peptidase, M49 family

MW^I(0)	101	kDa
MW^expected	102	kDa
V^Porod	116	nm³

log I(s) 7.02×10¹ 7.02×10⁰ 7.02×10^-1 7.02×10^-2

Peptidase, M49 family small angle scattering data

s, nm^-1

Log plot Log-Log plot

ln I(s)

ln 7.02×10¹ R_g: 3 nm 0 (3 nm)^-2 s²

(sR_g)²I(s)/I(0)

1.104 0 √3 sR_g

p(r)	R_g: 3.1 nm 0 D_max: 11.3 nm

Data validation

Experimental data range

p(r) fit to data

Metric

Value

s_min D_max / π

0.8

N_Shannon

Worse

Better

Metric

Value

p_cormap

χ²

0.056
0.661

Worse

Better

Fits and models

log I(s)	s, nm^-1
+3 Δ/σ -3	s, nm^-1

Synchrotron SAXS data from solutions of Dipeptidyl peptidase III: pgDPP3_FL in 50mM Tris,100mM NaCl, pH 8, 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 2.5 m (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 1.0 and 8.8 mg/ml were measured . Eight successive 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 and the different curves were scaled for protein concentration. The low angle data collected at lower concentration were merged with the highest concentration high angle data to yield the final composite scattering curve.

X-ray Exposure time = UNKNOWN

Peptidase, M49 family (PgDPP3)
Mol. type		Protein
Organism		Porphyromonas gingivalis
Olig. state		Monomer
Mon. MW		101.7 kDa

UniProt		Q7MX92
Sequence		FASTA