Molecular mechanism for the action of the anti-CD44 monoclonal antibody MEM-85.

Škerlová J, Král V, Kachala M, Fábry M, Bumba L, Svergun DI, Tošner Z, Veverka V, Řezáčová P, J Struct Biol 191(2):214-23 (2015) Europe PMC

SASDAG7 – CD44 HABD scFv MEM-85 complex

Hyaluronate binding domain of CD44 antigen
Single-chain Variable Fragment of Antibody MEM-85
MWexperimental 44 kDa
MWexpected 46 kDa
VPorod 57 nm3
log I(s) 8.23×103 8.23×102 8.23×101 8.23×100
Hyaluronate binding domain of CD44 antigen Single-chain Variable Fragment of Antibody MEM-85 small angle scattering data  s, nm-1
ln I(s)
Hyaluronate binding domain of CD44 antigen Single-chain Variable Fragment of Antibody MEM-85 Guinier plot ln 8.24×103 Rg: 2.7 nm 0 (2.7 nm)-2 s2
(sRg)2I(s)/I(0)
Hyaluronate binding domain of CD44 antigen Single-chain Variable Fragment of Antibody MEM-85 Kratky plot 1.104 0 3 sRg
p(r)
Hyaluronate binding domain of CD44 antigen Single-chain Variable Fragment of Antibody MEM-85 pair distance distribution function Rg: 2.8 nm 0 Dmax: 9.4 nm

Data validation


Fits and models


log I(s)
 s, nm-1
Hyaluronate binding domain of CD44 antigen Single-chain Variable Fragment of Antibody MEM-85 DAMMIN model

log I(s)
 s, nm-1
Hyaluronate binding domain of CD44 antigen Single-chain Variable Fragment of Antibody MEM-85 SASREF model

Synchrotron SAXS data from solutions of CD44 HABD scFv MEM-85 complex in PBS, pH 7.4 were collected on the EMBL P12 beam line at the PETRA III storage ring (DESY; Hamburg, Germany) using a Pilatus 2M detector at a sample-detector distance of 3.1 m and at a wavelength of λ = 0.12 nm (I(s) vs s, where s = 4πsinθ/λ, and 2θ is the scattering angle). Solute concentrations ranging between 1.3 and 5 mg/ml were measured at 10°C. 20 successive 0.050 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. The low angle data collected at lower concentrations were extrapolated to infinite dilution and merged with the higher concentration data to yield the final composite scattering curve.

Hyaluronate binding domain of CD44 antigen (CD44 HABD)
Mol. type   Protein
Organism   Homo sapiens
Olig. state   Monomer
Mon. MW   17.9 kDa
Sequence   FASTA
 
Single-chain Variable Fragment of Antibody MEM-85 (scFv MEM-85)
Mol. type   Protein
Organism   Mus musculus
Olig. state   Monomer
Mon. MW   28.5 kDa
Sequence   FASTA