What if i have put the same in new motherboard?You can clean it with a paper towel and rubbing alcohol.
Since you already put the CPU in the socket, you have already contaminated the socket contacts and those are far too delicate to recommend cleaning. If everything is working normally. then you may be better off continuing to use it as-is.
Yes i have cleaned it off with noctua cleaning wipesThe pads are gold-plated to protect them from corrosion. They should survive anything that isn't strong enough to dissolve gold or hard enough to scratch it. Just don't rub so hard that pads might snag in the wipes and rip off.