HELP! Change to exclusive IP to enable an SSL certificate causing nameserver problems

I am using a dedicated Linux server with Plesk Control Panel through GoDaddy.  I am trying to enable my first SSL certificate which requres an exclusive IP address.  I am running a nameserver on the dedicated Linux machine and (I think) am running into nameserver problems with the new IP address.  Here is the layout:

ns1.domain.com.   A   Shared-IP-Address-1
ns2.domain.com.   A   Shared-IP-Address-1

TYPICAL DOMAIN SETUP THAT WORKS RIGHT NOW FOR SHARED IP:
domain2.com.   A   Shared-IP-Address-1
domain2.com.   NS   ns1.domain.com.
domain2.com.   NS   ns2.domain.com.

THIS DNS SETUP DOESN'T WORK FOR EXCLUSIVE IP:
domain3.com.   A   Exclusive-IP-Address-2
domain3.com.   NS   ns1.domain.com.
domain3.com.   NS   ns2.domain.com.


Every domain hosted on the shared IP (Shared-IP-Address-1) has been working great.  Will my nameserver only point to domains on the shared IP since it is pointing to that IP only?