Hi Andy, hi everyone,

if you only want a few water molecules in a different size you can always 
change the size by altering their van-der-Waals radii. For example, if you 
want to change water number 3:

alter r. hoh & i. 3, vdw=vdw+3

The CA atoms could be changed similarly, but if you want to change of all them 
you might want to change the b value column and adjust the vdWs by the "B" 
column by:

alter n. ca, vdw=b (you might want to adjust the values by e.g. dividing with 
a constant)

I hope this answers your question sufficiently.

Regards,
Mark

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