Elucidating Collagen Degradation Synergy between Col G and Col H from Hathewaya (Clostridium) histolytica and Identifying novel structural features in HPT and REC domains from VarS histidine kinase in V. alginolyticus

Perry Caviness, University of Arkansas PhD thesis 28030553 (2020) URL

SASDJT6 – Collagenase H C-terminal non-catalytic segments Polycystic Kidney disease domain 1, Polycystic Kidney disease domain 2 and Collagen binding domain (CBD) with Y689S, F712S, Y780S, H782S, Y796S and Y801S bound to collagen like-peptide

Collagen like-peptide [GPRG(POG)13]
Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801)
MWexperimental 44 kDa
MWexpected 44 kDa
VPorod 61 nm3
log I(s) 1.09×101 1.09×100 1.09×10-1 1.09×10-2
Collagen like-peptide [GPRG(POG)13] Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801) small angle scattering data  s, nm-1
ln I(s)
Collagen like-peptide [GPRG(POG)13] Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801) Guinier plot ln 1.09×101 Rg: 4.0 nm 0 (4.0 nm)-2 s2
(sRg)2I(s)/I(0)
Collagen like-peptide [GPRG(POG)13] Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801) Kratky plot 1.104 0 3 sRg
p(r)
Collagen like-peptide [GPRG(POG)13] Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801) pair distance distribution function Rg: 4.6 nm 0 Dmax: 22 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Collagen like-peptide [GPRG(POG)13] Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801) DAMFILT model
Collagen like-peptide [GPRG(POG)13] Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801) DAMFILT model

Synchrotron SAXS data from solutions of Collagenase H C-terminal non-catalytic segments Polycystic Kidney disease domain 1, Polycystic Kidney disease domain 2 and Collagen binding domain (CBD) with Y689S, F712S, Y780S, H782S, Y796S and Y801S bound to collagen like-peptide in 50 mM HEPES, 100 mM NaCl, 5 mM CaCl2, pH 7.5 were collected on the 12.3.1 (SIBYLS) beam line at the Advanced Light Source (ALS) storage ring (Berkeley, CA, USA) using a Pilatus3 X 2M detector at a sample-detector distance of 1.5 m and at a wavelength of λ = 0.1127 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). One solute concentration of 4.00 mg/ml was measured at 10°C. 33 successive 0.300 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.

Storage temperature = UNKNOWN

Collagen like-peptide [GPRG(POG)13]
Mol. type   Protein
Olig. state   Trimer
Mon. MW   3.7 kDa
Sequence   FASTA
 
Collagenase ColH (Polycystic kidney disease 1 (PKD1), Polycystic kidney disease domain 2 (PKD2) and Collagen binding domain (CBD) with Tyr689Ser, Phe712Ser, Tyr780Ser, His782Ser, Tyr796Ser and Tyr801) (ColH)
Mol. type   Protein
Organism   Hathewaya histolytica
Olig. state   Monomer
Mon. MW   33.2 kDa
 
UniProt   Q46085 (718-1021)
Sequence   FASTA