Yes, you can nominate different accounts that will be paid into depending on the clinic or practitioner. To set up automatic payments for different bank accounts:
Click Settings > Payments.
In the Auto Payments Settings section, click Add New under Deposits.
To nominate payments for specific clinics (or all clinics), select Clinic; to nominate payments for an individual practitioner's account, select Individual. You can select more than one practitioner for an account.
Enter the Bank Account details.
Select whether payments should be Batched or received as Separate transactions.
From here you can also choose the details of your Statement Descriptor that appears on patients' bank statements.