To record bank charges, first you have to create an account with the name of bank charges.

For creation of account go to Accounting > Charts of account and click on new account and fill the details as shown in below image and save it.
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Now you can record Bank charges via following steps:
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Expenses > Record Expense > New Expense

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Click on Cash Expense.
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Fill in the details:
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1) Paid from Account - Select the account from the drop down
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2) Expense Record Date- Select the date on which the bank charges are paid
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3) Select project - You can select if you want to group the transactions.
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4) Expense - Select Bank Charges from the drop down, enter the description, tax if any applicable and enter the amount.
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5) Attach a scanned proof (image or pdf document) - You can attach the bank charge receipt
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6) Narration - In case anything specific that needs to be mentioned
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Click on Save and its Done !!
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