I store my cameras, lenses and accessories in several Think Tank Airport and Tenba Air cases. These are soft cases with reinforcement to protect the equipment inside. Both are large suitcase type cases with wheels. If I'm shipping equipment I use the Tenbas. If I need one case to take on board the aircraft I use the Think Tank as they look just like another piece of luggage and meet the maximum dimensions for carry-ons.
Superteles like my 600mm and 400mm stay in their metal case for storage, but when I travel I move them into a Think Tank case. No need to advertise a big, bold Nikon logo and and let everyone know that I have an expensive piece of equipment for the taking. The Think Tanks also have side straps and pouches to attach a tripod. I have Gitzo tripods and monopods so I use the black bag they came in to cover them up (I keep the logo on the bag facing against the side of the case to minimize broadcasting it's photo equipment like the larger lenses.)
Big strobes, monolights,stands and over sized tripods stay in a long Tenba Air case similar to the ones I use for my cameras and lenses. The Tenba Air cases are the best for overnighting your equipment to your location. I've never had a problem with the TSA, Fedex or the airlines to ship overnight. I use a TSA approved lock so they have access to the content inside.(These are locks designed for the the TSA master key) I also enclose an extra cable and lock inside the case in the event that the TSA cuts the cable I'm currently using to lock the case. I have a note attached to the extra cable and lock asking them to use it to relock the case after inspection. This is an extra precaution in the event that the inspector doesn't recognized the approved lock. I've never had to use it. The large clear window on the front pouch of the Tenba Air cases are designed to hold all the shipping paperwork and have it clearly visible. This will avoid delays, especially with international travel. These bags are pricey (I spent $550 each for my two camera cases and another $450 for my lighting equipment case) but if you are doing a lot of traveling with your gear, you get what you pay for.
For day use, look at the bags by Larson Enterprises for lighting equipment. They have several soft carry bags for their folded up soft boxes, reflectors, starfishes, stands, etc. They're designed to hold their equipment, but they work with most brands of fold up studio lighting gear.
All that being said, I have two Domke J-1 for my day trips and light travel. Get the FA-031 U.S. Post Office type shoulder pads for the Domkes. They will save your shoulders and neck! Best $20 investment, especially if you plan to carry your cameras and lenses around all day. I suffered for a year before getting the pads. What a difference.
All my equipment are in cases. The Domkes are empty until I need them. I find keeping everything in bags and cases minimizes the dust and dirt on the camera and lenses and keeps them safe, secure and organized. I always know were everything is when I need them.