Payment Gateway vs Merchant Account

Updated: April 25, 2017

If you want to sell something online you need both a payment gateway and a merchant account. But, do you know the difference between a payment gateway and a merchant account? If you don’t, setting up an e-commerce website can get confusing and you could get hit with unexpected fees.

What is a payment gateway?

A payment gateway is the service that processes credit card transactions for you. When your customers are buying something from your online store they enter ther credit card numbers during the checkout process. Your e-commerce site sends that credit card information to your payment gateway to authorize the transaction and process the payment. If the credit card information submitted to the payment gateway matches the information on file with the credit card company and the charge is approved the payment gateway will then transfer the money from your customers credit card into your merchant account.

What is a merchant account?

Everybody talks about payment gateways but merchant accounts are really the more complicated of the two. The merchant account is basically an online bank account that will temporarily hold your money (you are the merchant) until it is moved into your actual bank account. After a successful sale, money will me transferred into your merchant account and it will sit there for a few days, usually between 2 and 7 days, then, in most cases, it will automatically be transferred into your bank account – the one that you actually think of as your bank account where you deposit checks and so forth. You can sort of think of your merchant account as a temporary holding tank for the money that comes in from online sales.

Dedicated vs aggregate merchant accounts

There are two different types of merchant accounts. A dedicated merchant account is an account set up just for you, the merchant. This is like your very own online bank account set up just for your online business. If you set up an account with a payment gateway like or PayLeap you will also get a dedicated merchant account. With a dedicated merchant account you can often negotiate custom rates for your sales. The rates are based on the volume of sales you process and the types of products you sell.

If you like the idea of having more control over your money and the ability to negotiate custom rates, you may want a dedicated merchant account. To get a dedicated merchant account you and your company will need to go through a fairly in depth credit check and underwriting process. This takes time and involves faxing over bank records and other information about yourself and your business.

An aggregate merchant account is one where your money gets dropped in a pool with a large number of other companies. Stripe and PayPal are examples of services that provide aggregate merchant accounts. You still need to provide some information about your company and the types of products you intend to sell, but the process of getting connected with an aggregate merchant account is far less complicated and faster. The downside is you have a little bit less control over how long it takes to get your money and you generally can’t negotiate the rates.

Getting your money

With a dedicated merchant account most of the time will get your money in about 2 days. That means 2 days after the sale on your website, the money will be sitting in your normal, business bank account. With an aggregate merchant account it will usually take longer. For example, Stripe holds your money for 7 days before transferring it into your bank account. PayPal will hold your money in your PayPal account indefinitely until you either spend the money by paying for something with the money in your PayPal account or you request the money to be transferred to your bank account. Once you request the money to be transferred, it takes about 5 business days to arrive in your bank account.

Our Recommendation

Having worked with a large number of e-commerce stores, it is our opinion that the minor amount of savings you get from having your own dedicated merchant account is not at worth the lengthy amount of time and trouble you have to go through to get one. The rate structures are very complicated with qualified and non-qualified rates and other confusing ways you get charged. It is very hard to predict what your actual expenses are going to be and you almost always end up paying more than you think you are paying.

Our suggestion is to use a payment gateway that offers an aggregate merchant account as part of their service like Stripe. With Stripe there is no monthly fee, a single flat rate of 2.9% + $0.30 per transaction, and you can be up and running ready to accept live credit card payments in less than 10 minutes. No faxing of bank records or anything like that. You just sign up and go. If you’ve ever gone through the underwriting process for a dedicated merchant account you won’t believe how easy it is to get a Stripe account!

PCI Compliance No Matter What Gateway You Choose

No matter what payment gateway you choose, you still need to make sure you shopping cart and website are PCI compliant. Cart66 supports over 100 different payment gateways including Stripe,, PayPal, and Braintree. Whichever payment gateway you choose, Cart66 makes your PCI compliance as easy as possible by providing a secure hosted checkout page that looks exactly like the rest of your website.

Watch this quick 6 minute video that explains PCI compliance and what it means for your business.

PCI Compliant Hosted Payment Page

We have extended the security of Cart66 to other ecommerce platforms. So, if you are using an ecommerce system like WooCommerce or PrestaShop you can still enjoy all the benefits of secure hosted payments using CloudSwipe -Secure Hosted Payment Pages.

CloudSwipe gives you a PCI compliant hosted payment page that looks EXACTLY like the rest of your website and has built in support for over 170 payment gateways.

CloudSwipe is all about freedom!

  • Freedom to choose from over 170 integrated payment gateways.
  • Freedom to choose the ecommerce system you want to use.
  • Freedom from the stress of ecommerce security and PCI compliance.

Here is a video explaining how it works.