[Zinc-fans] help

[Filippo Marchioni]

Dear ZINC users,
I am new on this mailing list and I hope my question will be
appropriate. 

I notice that in compounds like ZINC01607240 
(3-[4-[(4-amino-1,2-dimethyl-6-quinolyl)amino]-1,6-dimethyl-pyrimidin-2-yl]-1-(4-methoxyphenyl)-guanidine)

the pyrimidin and the quinolin group are positively charged but the
charge assigned in the mol2 file for these two nitrogen still negative.
Am I completely missing the point or there is a problem?

Thanks for your help

best
Filippo