Jimellys

No one can tell you what colours to use, it entirely depends on your business, what mood or feel you need to give it ( I say need because it should not be about your choice it should be about what is best for the business based on audience research )
 
There is something that can help you a bit, it's called the colour wheel which encompasses colour theory, read about it here http://www.colormatters.com/color-and-design/basic-color-theory
 
Personally I wouldn't be too impressed with that logo anyway to be honest, unless you are a diner, pub or other traditional type of food business? Then it might be suitable, but referring to your business as a 'company' puts doubt into my mind that is what you do hence my remarks. Of course I don't know, you might be and I could be completely wrong.

The best idea after looking at colour theory is to look at other websites, your problem is that you are doing things backwards, as that logo seems totally inappropriate for your business I would start there and then deal with the website a little later.
 
Are you only online or are you based in a shop as well?
 
If you are in a shop as well I would deal with the branding first as a matter of urgency only then will you get the chance to have a website build that is actually suitable for your needs.
 
The colours you use need to express something about the business and yourself in order to give clients that personal touch, brown just would not cut it in your case, you need brighter colours, I am not taking rainbow, I am talking colours like this http://www.rabbitdigital.com/2443/cake-shop-website-design ( the cake shop images ) might be more suitable, of course I don't know your business but the type of people you need to attract will not come to a brown website and stick around with any interest.

The logo is the fastest form of communiction you have with your target audience. People should be able to decode your message/brand identity from the logo in a fraction of a second. That's why most logo's are very simple and stylized.
The colours in the logo should macth the rest of your brands identity colours.
Depending on your branding strategy all the graphic elements in your visual identity should either:
Stand out (unique branding strategies) Have appeal (emotional, relational strategies) If you are positioning your brand with the first strategy you might want to use colors with strong contrast in hue, value and saturation, for the other you probably should use a more harmonic and pleasing colour scheme.
Here's a tool to develop colour schemes based on colour theory
http://colorschemedesigner.com/