diff --git a/erpnext/accounts/doctype/payment_entry/payment_entry.py b/erpnext/accounts/doctype/payment_entry/payment_entry.py
index f98cd659503..49ca76ed4f6 100644
--- a/erpnext/accounts/doctype/payment_entry/payment_entry.py
+++ b/erpnext/accounts/doctype/payment_entry/payment_entry.py
@@ -1073,8 +1073,8 @@ class PaymentEntry(AccountsController):
 
 				gle.update(
 					{
-						dr_or_cr: allocated_amount_in_company_currency,
-						dr_or_cr + "_in_account_currency": d.allocated_amount,
+						dr_or_cr: abs(allocated_amount_in_company_currency),
+						dr_or_cr + "_in_account_currency": abs(d.allocated_amount),
 						"against_voucher_type": against_voucher_type,
 						"against_voucher": against_voucher,
 						"cost_center": cost_center,