In their first game since reaching the semi-finals in Russia, England were denied a point when Makkelie awarded a foul in favour of Spanish goalkeeper David de Gea for minimal contact with Danny Welbeck.
Saul Niguez did not play at the World Cup but was handed a starting berth at Wembley and duly responded with a goal, whilst Iago Aspas also started in London but could be replaced by Alvaro Morata after an ineffectual performance.
"We are under no illusion that Spain were the better team for long periods", he said.
"If I was a club manager I would have no choice but to bring players back when they did otherwise I could not field a team and get off to a good start".
The second half was overshadowed by a nasty-looking head injury sustained by England left back Luke Shaw who needed lengthy treatment after an accidental clash.
Kieran Trippier says there is no reason for alarm after England slipped to their third consecutive defeat in their Nations League opener against Spain. "In the big moments you need a firm referee who doesn't get decisions wrong under pressure".
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"My focus most importantly is on tomorrow night, and building this team to be as competitive as it can be, to keep improving them. These are the teams we want to play against".
"As the game wore on, we started to work that our and I thought Eric (Dier) provided some stability for us, and him and John (Stones) being able to rotate positions allowed us to play through midfield better". "There were stages when they had the ball and it was hard for us, but we had a good spell throughout the game as well".
When asked what he thought about the referee decision after the game, Enrique told Sky Sports "I couldn't see, it was hard, David De Gea told me he was fouled".
The last two World Cups have not helped at all and neither did Euro 2016 as Spain were disappointing. "There's a lot of stuff we can learn from but I think we can hold our heads up high".
Playing at Leeds before the World Cup was one of my favourite memories of the summer.
"But there is a level for us to go to and that is a really good challenge for us over the next couple of years".
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