Left-arm seamer Thushara grabbed two wickets in four balls to give Sri Lanka a solid start in their bid to sweep the three-match series after winning the previous two matches.
But the third-wicket pair of Manzoor and Yousuf denied Sri Lanka further success till lunch on a barren wicket that appeared full of runs.
Manzoor, playing his fifth Test, was unbeaten at the break on 42, while the 82-match veteran Yousuf was on a fluent 36.
Openers Fawad Alam and Manzoor had put on 34 within the first hour when Thushara struck in his third over after replacing Nuwan Kulasekera.
Left-handed Alam, who hit a brilliant 168 on debut in the previous Test, made 16 when he edged Thushara to wicket-keeper Tillakaratne Dilshan.
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Three balls later, Pakistan captain Younus Khan chopped