Large part of church starts in the centre (5)
I believe the answer is:
navel
'the centre' is the definition.
(navel is a kind of centre)
'large part of church starts' is the wordplay.
'large' becomes 'L' (eg in clothes sizes).
'part of church' becomes 'nave' (area of a church building).
'starts' is a charade indicator (letters next to each other).
'l' after 'nave' is 'NAVEL'.
'in' acts as a link.
(Other definitions for navel that I've seen before include "Where the umbilical cord was once attached" , "Variety of orange" , "Part of body; sort of orange" , "Scar on the stomach (for gazing at?)" , "Tummy button" .)