If the clearance between seat stay bridge and seat tube are the same at bottom out, when comparing normal linkage with 165x40 to new linkage with 165x45, then the amount the rear wheel gets pushed down is the difference in travel. I guess we don't really know what that is. Let's say the original setup is 105mm (not sure if the actual travel has been settled) and new linkage setup is 120mm. Then the rear wheel will get pushed down 15mm. This will not be true if the position of the rear triangle sinks further into the travel on the new linkage setup (as if the clearance between seat stay bridge and seat tube was more similar to original linkage and 165x42.5mm shock), or if the travel achieved isn't actually 120mm. Since the rear triangle isn't changing, there's no way the rear wheel is only pushing 3mm downward, that would mean 3mm of travel gain, assuming similar bottom out clearance.
Bottom bracket location makes no difference to how the angles change. What if you put the BB in the middle of the fork axle, like a kids tricycle? If you extended the rear wheel downward, the bike would still change by the same angle. When extending the fork, the bike pivots around the rear axle. When changing the linkage and pushing the rear wheel down, the bike pivots around the front axle. Vertical wheel location change and wheelbase are all the matter. BB location only matters for BB height change. If we trust Carbonda's geo charts, then what I said is true. 40mm/old-linkage = 67/77deg. Use a geo calculator for 120mm fork with 40mm/old-linkage = 66/76deg (1 deg change to 120mm fork). 45mm/new-linkage and 120mm fork (from Carbonda chart) = 67/77deg. This if we trust their chart, original linkage to new linkage is a 1deg frame angle change. Thus you can interpret that new linkage with 100m fork would be 1deg the other way, 68/78.