There is no difference between the old model 41 Mag, 30 Carbine, 44 Mag or 45 Colt guns as far as strength goes. They all used the same sized frame. It is probably more economical to get an old model 44 for a conversion like this since there were more of those made then old model 41's.
As far as 5 shot 45 Colt vs 6 shot 45 Colt goes, I had this same discussion a few weeks ago with Ben Forkin of Forkin Custom Classics. I had sent Ben a bisley vaquero and a 357 Maximum cylinder to have a long cylinder, tight chambered 6 shot 45 Colt done. I called him to ask about the benefits of saving the Max cylinder and going with a new 5 shot 45 cylinder of the same length and he suggested against it. He has done some testing with chronograghs and the fps gains achieved with the 5 shot over the 6 shot are minute compared to the pressure increases and the battering the gun and shooter takes. He said if you are going to step up to a 5 shot cylinder then you might as well go big or go home as the saying goes and jump to the 475 or 500 Linebaugh.
Just something to think about.