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last post i said that i found an expectation value for k of about 300/s. That was wrong. I forgot i was took only every 100 time points so that value should have been about 3/s. Which is way worse and horrible.
So i've been thinking about what is wrong. and hoping that this whole processes wasn't a waste of time. And i realized my diffusion constant was wrong. my unites were in pN and nm but my viscosity was in N/m^2. So when i changed my viscosity, my diffusion constant increased by a factor of 10^7. Now with this my expectation value for k is around 10^7 which again is fantastic. However, i don't know how to deal with the probability. You see that is the rate constant to reach the binding point about 4.5 nm away, but to reach -8 nm away it has about the same except it's probability doesn't peak above 10^-10 or so. So it is extremely unlikely to reach there. So i need to think of how to deal with the overall probability. Maybe multiply it by the expected time it takes to reach the point.