On 24 July 2020, Natanael renewed his contract until December 2023.[3] He made his Série A debut on 12 August, starting in a 0–1 loss at Bahia.
Natanael scored his first professional goal on 20 January 2021, netting his team's second in a 3–3 home draw against Fluminense.[4] On 11 February, despite the club's relegation, he further extended his link until the end of 2025.[5]
Despite starting the 2021 campaign as a first-choice, Natanael became a backup to Igor during the 2021 Paranaense. He regained his starting spot in the 2021 Série B,[6] being an important unit as the club achieved promotion back to the top tier.