If you are integrating your email to Zoho CRM with IMAP, you can only integrate one mailbox per CRM account. However, a mailbox can have multiple alias emails -

For example - contact.person@company.com may have an alias set up as info@company.com - for which the emails come into the same mailbox.

In CRM, first create the email integration via the preferred method - when integrated you need to select the alias you wish to use to send emails from CRM (receipt is done via the same mailbox - so your  inbox folder is available in CRM regardless to which alias was used by the sender).