Sherwood and Jesus clashed a number of times on the touchline last week as Spurs suffered a 3-1 defeat at White Hart Lane in the first leg of their last-16 tie.
The Spurs boss took exception to Jesus's exuberant celebrations before the pair failed to shake hands after the match.
"I know exactly where he was coming from and I know what I saw," Sherwood told the club's official website. "I have got no respect for the man. I've got respect for the football club and I've got respect for his players.
"The club is a huge club and we've had a lot of emails from Benfica fans apologising for their manager's behaviour. At the end of the day, I will shake his hand, because they are a giant of a club."
Spurs head into Thursday's match on the back of last weekend's 1-0 defeat at home to Arsenal in the Premier League.