Captain Misbahul Haq was batting on 90 as centurion Younus Khan departed on what proved to be the final delivery of the day.
Younus, who was making his comeback after missing out in the first day-night Test as he was recovering from dengue fever, scored his 33rd Test ton, and got out after scoring 127 off 205 balls, where he struck 10 boundaries and one massive six.
Openers Azhar Ali (nought) and Sami Aslam (six) were dismissed in the first session while Asad Shafiq fell for 68 after lunch.
Pakistan wary of dangerous West Indies
Pakistan, who lead the three-match series 1-0 after winning the first Test in Dubai by 56 runs, brought in Younus, Zulfiqar Babar and Rahat Ali as three changes to the first Test line-up. They left out Wahab Riaz, Mohammad Amir (both rested) and Babar Azam.
West Indies were forced to leave out unfit wicket-keeper batsman Shane Dowrich, bringing in Shai Hope.
West Indies earn plaudits for second innings fightback
The third and final Test starts in Sharjah from October 30.
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