Civil Aviation Authority

Total operating ban in Europe:

Ariana Afghan Airlines (Afghanistan)
Blue Wing Airlines (Suriname)
Meridian Airways (Ghana)
Siem Reap Airways International (Cambodia)
Silverback Cargo Freight (Rwanda)

All airlines from the following countries: (total 278 airlines)

Angola
Benin
Democratic Republic of Congo
Djibouti
Equatorial Guinea
Gabon (with three exceptions)
Indonesia (with six exceptions)
Kazakhstan (with one exception)
Kyrgyzstan
Liberia
Philippines
Congo
Sierra Leone
Sao Tome & Principe
Sudan
Swaziland
Zambia

Can fly in Europe with restrictions:

Air Astana (Kazakhstan)
Air Koryo (North Korea)
Airlift International (Ghana)
Air Service Comores (Comoros)
Gabon Airlines (Gabon)
Afrijet (Gabon)
SN2AG (Gabon)
Iran Air (Iran)
TAAG Angola Airlines (Angola)
Ukraine Mediterranean Airlines (Ukraine)

Source: EU Commission