Many thanks Igor, I had no idea there was a such command
Checking the Plesk database using the native database server tools .. [OK]
Checking the structure of the Plesk database
Extra table: helix ................................................ [WARNING]
Delete table 'helix'? [Y/n] y
Creating a database dump ........................................ [OK]
A dump of the database was created before an attempt to repair the database: /home/backup/dumps/mysql.preresolve.20180316-113355.dump.gz
Deleting table 'helix' .......................................... [FIXED]
Extra table: helix_asuser ......................................... [WARNING]
Delete table 'helix_asuser'? [Y/n] y
Deleting table 'helix_asuser' ................................... [FIXED]
Extra table: WordpressInstanceProperties .......................... [WARNING]
Delete table 'WordpressInstanceProperties'? [Y/n] y
Deleting table 'WordpressInstanceProperties' .................... [FIXED]
Extra table: WordpressInstances ................................... [WARNING]
Delete table 'WordpressInstances'? [Y/n] y
Deleting table 'WordpressInstances' ............................. [FIXED]
Extra table: WordpressInstancesDomains ............................ [WARNING]
Delete table 'WordpressInstancesDomains'? [Y/n] y
Deleting table 'WordpressInstancesDomains' ...................... [FIXED]
Checking the consistency of the Plesk database
Inconsistency in the table 'DomainServices' for the column dom_id:
No rows in the table 'domains' with = 84 ......................... [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Remove unnecessary rows from the table 'DomainServices'? [Y/n] y
Removing unnecessary rows ....................................... [FIXED]
Inconsistency in the table 'DomainServices' for the column dom_id:
No rows in the table 'domains' with = 278 ........................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Remove unnecessary rows from the table 'DomainServices'? [Y/n] y
Removing unnecessary rows ....................................... [FIXED]
Inconsistency in the table 'DomainServices' for the column dom_id:
No rows in the table 'domains' with = 519 ........................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Remove unnecessary rows from the table 'DomainServices'? [Y/n] y
Removing unnecessary rows ....................................... [FIXED]
Inconsistency in the table 'hosting' for the column dom_id: No rows
in the table 'domains' with = 278 ................................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Remove unnecessary rows from the table 'hosting'? [Y/n] y
Removing unnecessary rows ....................................... [FIXED]
Inconsistency in the table 'hosting' for the column dom_id: No rows
in the table 'domains' with = 519 ................................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Remove unnecessary rows from the table 'hosting'? [Y/n] y
Removing unnecessary rows ....................................... [FIXED]
Inconsistency in the table 'smb_users' for the column
subscriptionDomainId: No rows in the table 'domains' with = -1 (31
broken references) ................................................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Fix broken references in the table 'smb_users'? [Y/n] y
Fixing broken references ........................................ [FIXED]
Inconsistency in the table 'smb_users' for the column
subscriptionDomainId: No rows in the table 'domains' with = 48 ... [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Fix broken references in the table 'smb_users'? [Y/n] y
Fixing broken references ........................................ [FIXED]
Inconsistency in the table 'smb_users' for the column
subscriptionDomainId: No rows in the table 'domains' with = 58 (2
broken references) ................................................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Fix broken references in the table 'smb_users'? [Y/n] y
Fixing broken references ........................................ [FIXED]
Inconsistency in the table 'smb_users' for the column
subscriptionDomainId: No rows in the table 'domains' with = 94 (3
broken references) ................................................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Fix broken references in the table 'smb_users'? [Y/n] y
Fixing broken references ........................................ [FIXED]
Inconsistency in the table 'smb_users' for the column
subscriptionDomainId: No rows in the table 'domains' with = 371 (4
broken references) ................................................ [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Fix broken references in the table 'smb_users'? [Y/n] y
Fixing broken references ........................................ [FIXED]
Inconsistency in the table 'smb_users' for the column
subscriptionDomainId: No rows in the table 'domains' with = 479 .. [WARNING]
To see more details, run the command in the verbose mode: plesk repair db -verbose
Fix broken references in the table 'smb_users'? [Y/n] y
Fixing broken references ........................................ [FIXED]
Error messages: 0; Warnings: 16; Errors resolved: 16
BRB, I'll try to re-create that web site..