The grant from Allchurches Trust has been given to focus on work with children and young people.
50 leaders from estates will get access to training over the next three years, doubling the support given by the church.
It comes after the Church's governing body, General Synod, backed a motion to bring about a flourishing church presence on every significant social housing estate in the country.
Jeremy Noles, Allchurches trust grants officer, said: "At the heart of our grant-giving is connecting churches with their communities and equipping them to meet the physical and spiritual needs of local people.
"Our grant to the National Estate Churches Network is aimed at resourcing the growing network of estate church groups across the country, and developing leaders who will act as catalysts for building impactful community partnerships on estates in Birmingham and London, with the learnings from these pilots then providing a blueprint for a national network.
"The focus on encouraging ministry with children and young people is also a great fit with our new Growing Lives programme, which offers funding to churches and Christian organisations to help them connect with local families."
The Bishop of Burnley, Philip North, who heads the Church of England's Estates Evangelism Task Group, said: "We are enormously grateful to Allchurches Trust for this generous grant which will be vital in helping us support those people, both lay and ordained, who are leading transformative work on housing estates, bringing the Good News of the gospel to all.
"This is yet more evidence of the Church of England's commitment to carrying through its pledge at the General Synod to establish a loving, serving and worshipping Christian community on every significant social housing estate in country."
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