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BQ40Z80: Not able to establish SMBus communication from custom designed board using bq40z80

Part Number: BQ40Z80
Other Parts Discussed in Thread: BQSTUDIO, EV2400

Tool/software:

Trying it communicate with external MCU. Tried pressing wake up pin, were getting voltage at the output but not getting detected in the MCU. SMBus pins were pulled up.
Tried using our own custom MCU board with EVM it is working fine.
Tried to use custom MCU with custom bq40z80 board it's not able to detect it.
What could be the reason for it.
Can share the schematic personally but not on the forum.