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Evidentally...
the
microtubule structure is energetically favorable for tubulin dimers
near the ends and unfavorable for those in the bulk. Thus, all models
of dynamic instability to date invoke a so-called "cap"
mechanism.
The idea is that dimers at the microtubule ends act like a cap that
prevents the otherwise unstable dimers in the bulk from escaping
into solution. Stochastic loss of this cap is supposed to occur
when a chemical reaction in the body of the microtubule overtakes
a growing end. Bulk-type dimers are then free to escape and the
microtubule disassembles. Disassembly stops, by definition, when
a cap somehow reforms.
At first, it was conjectured that the chemical reaction competing
with microtubule growth was GTP hydrolysis (the GTP-cap model).
However, experiments found that GTP hydrolysis is practically co-incident
with tubulin binding, so that the GTP-cap does not vary with growth
rate, as the rate of catastrophe is known to do.
Next, it was suggested that release of the phosphate ion product
of hydrolysis might be the transforming step (a Pi -cap model),
but large concentrations of phosphate ions in solution did not have
the predicted stabilizing effect.
What remains is a conformational-cap model, which says that GTP
hydrolysis and/or phosphate release induce a time-delayed conformational
change in the tubulin dimers. However, without greater insight into
the nature of the conformational change, the model has little predictive
power and is almost tautological.
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Suppose the simplest conformational change...
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That is, suppose the
conformational change of tubulin involves a portion of b-tubulin
unfolding into a random coil. The random coil domain would be a
volume of radius r centered on the surface of the b-tubulin sphere
(which itself excludes a portion of the volume).
In the microtubule, a row of b-tubulins wraps around the cylinder
(radius Rµ) at an angle f. If random coils unfold into the
microtubule interior, and if r > b (1 - b cos f /Rµ), their
domains will overlap and they will sterically hinder one another.
In other words, a polymer brush will form inside the microtubule.
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...unfolding
Unfolding is
simple from a physical point of view in that it is completely characterized
by a scalar property of the polymer, its density, and does not constrain
the detailed geometry of the folded or unfolded states.
It is likewise simple from a biological point of view, where the
lack of geometrical constraints implies only a weak dependence on
sequence, making it an easily evolved and mutationally robust feature.
Finally, it is simple from a chemical point of view, since the relative
stability of the folded and unfolded states can be reversed by a
single, simple chemical reaction such as (de)phosphorylation or
(de)methylation.
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Then...
The polymer
brush generates a pressure radially outward. Stress on the longitudinal
bonds is not as great, because a-tubulins (which do not hydrolyze
GTP) do not release random coils. If r > b (÷5 - 1) ª
1.2 b, random coil domains on b-tubulins will overlap with neighboring
a-tubulins instead.
If the tubulin-tubulin lateral bonds fail, the geomtery of this
polymer brush suggests that a microtubule will disassemble into
individual protofilaments which curl back and away from the microtubule
axis.
This is consistent with the morphology of shortening microtubules,
often observed by electron microscopy. Protofilaments do separate
from one another and curl back, away from the microtubule axis,
forming "blossoms" at the microtubule ends.
Thus, the first prediction is that the radius of protofilament curvature
Rpf should relate to the size of the random coil domain as
r = b ((5 + 4b/Rpf)1/2- 1).
Electron micrographs indicate Rpf = 19 nm. Taking b= 2 nm gives
r = 2.7 nm.
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Several
other predictions
concerning structure are supported by data in the literature.
For example, release of the random coil domains should cause the pair
of protofilaments that define the seam to slip. Slipping would change
the amount of "supertwist" in the microtubule surface lattice.
The direction and magnitude estimated are consistent with published measurements
on microtubules "before" and "after" hydrolysis.
Furthermore, although they slip, protofilaments at the seam are not expected
to separate when a microtubule disassembles. Instead, they are predicted
to curl away from the microtubule axis as a pair. Occasionally they might
create a nested spiral. The estimated structure of such a spiral is consistent
with that of the double-ring tubulin oligomers found among the products
of microtubule disassembly.
(A preprint detailing these results is available .)
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Given
this characteristic size of the random coil domain, it is possible
to estimate the number of amino acids that comprise it from the radius
of gyration of a self-avoiding random walk, r = N3/5a. Taking a =
0.3 nm, gives N ~ 40.
Referencing the known structure of b-tubulin (PDB entry TUB1), a plausible
random coil domain locus emerges. At the N-terminus (which faces the
microtubule interior) after the first a-helix, there are several large,
disordered loops (residues 24-64, 80-92, 97-110). The first two face
the lumen; the last tucks into the dimer-dimer interface and approaches
(res. 97-103) the bound nucleotide. One other location between the
loops (res. 71-73) also comes close enough to interact with the nucleotide.
Thus, the second prediction
is that the random coil domain involves this sparsely structured region
(res. 24-110), an 84 amino acid polypeptide which projects into the
microtubule lumen while remaining tethered to the tubulin surface
at two points approximately 3 nm apart. |
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