User:TheLarry/Notebook/Larrys Notebook/2010/09/08

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New Neck length and persistence length and amino acid length

After fiddlig all morning, I finally have a neck linker that gives me good values,

neck linker length 13 amino acids (4.94 nm)
full neck length 26 aa (9.88 nm)
persistence length .8 nm
10 aa dock to head (after neck docks 16 aa contour length = 6.08 nm)
.38 nm per aa

This gives an average velocity of like 1100 nm/s and an average run time of 1.1 s.

Here are some pictures

This here is the run length markov analysis versus histogram of simulation
run time
Michaelis Menten curve with a michaelis-menten constant of 15 micromoles. that's pretty good