isn't there any workaround how to sync users from LDAP but have Directory URI for user set manually?

I need to set it up due IM and Presence as I have domain in email format for Lync Server 2013 and now I need another domain for CUCM and IM and Presence as it couldn't coexist on same domain. Or it could?

Oh, sure, you can go to the extension and scroll down to the Directory URI section and assign it there manually.

so the best choose jabber device extension which is assigned in controlled devices on end user configuration?

Not sure I understand but if you assign the Directory URI to an individual extension, that Directory URI automatically gets associated to all the devices that has that extension. As to which extensions the Directory URI needs to be assigned will be determined by what extensions a user has. 

I'm not sure if that is what I want. I want then End User could be dialed by URI - from WAN partners and also from LAN jabber clients. So I need that this URI is unique for users.