Excess paid after tds

Made expense entry with actual value and vendor balance with total amount paid so the balance kept available in ledger of vendor.

@ Dinesh,

Say present invoice is for 100000/- Book the payment entry for full amount.

Vendor A/c Dr 100000
Bank

Tds A/c 10000

To Bank

If the next bill is 100000/- then deduct 20000/- for Tds and pay only 80000/- to vendor

Exp a/c Dr. 100000
To Tds 20000
To Vendor 80000

Vendor A/c Dr 80000
To Bank

Tds A/c Dr 10000
To Bank

You can also do it in another way