Additions
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 09/2006 |  | Pablo Barrientos | MF |  | San Lorenzo | CASL |
| 07/2006 |  | Andrey Moiseenkov | MF | |||
| 02/2006 | | Sergey Semak | MF |  | Paris Saint-Germain | Paris SG |
| 01/2006 |  | Anton Amelichenko | GK | |||
| 01/2006 | | Petr Marshinskiy | DF | |||
| 01/2006 |  | Isaac Okoronkwo | DF |  | Spartak Vladikavkaz | Spartak |
| 01/2006 | | Aleksandr Ponomarev | DF | |||
| 01/2006 |  | Dilaver Zrnanovic | DF |  | Budućnost Banovici | Budućnost Banovici |
| 01/2006 |  | Ruslan Baltiev | MF |  | Shinnik Yaroslavl | Shinnik |
| 01/2006 | | Petr Bystrov | MF |  | FK Saturn | FK Saturn |
| 01/2006 |  | Tomáš Čížek | MF |  | Rubin Kazan | Kazan |
| 01/2006 |  | Sergey Kobzev | MF | |||
| 01/2006 |  | Dragan Tresnic | MF | |||
| 01/2006 | | Artem Varakin | MF | |||
| 01/2006 | | Roman Adamov | FW |  | Akhmat Grozny | Akhmat Grozny |
| 01/2006 | | Dzhambulat Ibragimov | FW | |||
| 01/2006 | | Aleksandr Borodkin | AS-CO |
Departures
| from | Name | Pos | Team | Team | ||
|---|---|---|---|---|---|---|
| 09/2006 | | Dmitriy Golubov | FW |  | Torpedo Moskva | Torpedo |
| 08/2006 |  | Stanton Fredericks | MF |  | Orlando Pirates | Orlando Pirates |
| 08/2006 | | Viktor Zemchenkov | FW |  | Kuban Krasnodar (1928-2018) | Kuban |
| 01/2006 | | Maksim Biletskiy | MF |  | FK Rostov | FK Rostov |
| 01/2006 |  | Vladimirs Kolesničenko | MF |  | FK Ventspils | FK Ventspils |
| 01/2006 |  | Andrey Movsisyan | FW |  | Luch Vladivostok | FC Luch |