The United States has asked Pakistan to ensure that its territory is not used for planning attacks in India, after Prime Minister Narendra Modi said terrorism is being "incubated in India's neighbourhood".
The NGO is said to be shutting down its India operations after allegations that the charity was engaging in religious conversion.
India made a strong pitch at the United Nations for isolating nations who nurture, paddle and export terror.
The United States respects Pakistan's sovereignty but will carry out strikes to eliminate terrorists who are targeting its forces, the Obama Administration said on Monday as Islamabad expressed concern over the drone strike by American forces on its territory to kill Taliban chief Mullah Akhtar Mansour.
He said Pakistan was working with the international community to ensure the security of its nuclear installations, which were always in safe hands.
Seddique said he has no idea why his son took such a action of killing people.
Kerry discussed progress in bilateral engagement since Prime Minister Modi's visit to US in June 2016.
The United States has said that the threat from terrorist groups, in particular the Haqqani network, continues to emanate from inside Pakistan, dismissing top Pakistani diplomat's claim that the dreaded group responsible for audacious attacks in Afghanistan has been wiped out.
The statements raised eyebrows in the Obama administration and is seen as "irresponsible" behaviour by top Pakistani leadership.
The online petition launched by Indian Americans last week has become the third most popular petition on the White House website with nearly 110,000 people signing the petition. The Obama administration is expected to respond to it within 60 days
The United States has said it will continue to press Pakistan to take "additional steps" to deal with terror groups seeking refuge within its borders, hours after Prime Minister Nawaz Sharif sought American help to resolve bilateral issues between India and Pakistan.
India has demanded the United Nations to slap sanctions against the new Taliban leader in Afghanistan, saying it is "sheer folly" that the leader of a proscribed entity is not yet designated as a terrorist individual.
The Pakistani-origin gunman who carried out the massacre of 14 people in California along with his Pakistani wife may have been radicalised as he was in touch with extremists, officials said.
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