smikolaj,
The reason for two different scales, latitude for the motor, and elevation for the dish is to ensure that the setup will track the satellites that are positioned in the Clarke belt correctly.
The motor, set to your actual physical latitude, working in conjunction with the angle of the driven shaft of the motor will enable the dish to roll in a perfect path along the arc of the stationary orbit that the satellites are in.
When your confident that the motors latitude is set accurately tighten the bolts down and you should never have to adjust the latitude again.
The dish elevation is set strictly to focus the incoming microwave signals onto the feed horn of the LNB.
Keep in mind, that for the elevation of the dish to be accurate that the 'built-in' offset angle (available from the manuf. or dealer) has to be factored in with the actual line of sight angle for the satellite your aiming at.
The dishs' elevation (up and down) and azimuth (East, West / left,right) will need to be tweaked by hand on occasion to obtain the strongest S&Q.
The dish elevation and azimuth settings aren't as critical as the motors latitude settings (and a Plumb mount) and will need to be adjusted to compensate for irregularities in the dishs' reflective surface. As an example, my dish elevation is 13 degrees off from where the manufacturer says it should be, I'm guessing the dish might be bent slightly.
Hope this information doesn't confuse you needlessly. And most of all I hope it's accurate (I'm just a beginner) and helpful.