Biology Reference
In-Depth Information
Table 11.11 The catalytic function of the
evolutionary information
carried by conformons
generated in different conformers of an enzyme consisting of
n
amino acids. The numerical data
appearing in Columns (2), (4), and (5) are experimental values read off from the
x
- and
y
-
coordinates of the three pairs of p(w) values centered at the
x
-coordinate of 56 in the lower
panel of Fig.
11.24
, except the numbers in parentheses in Column (5).N
the number of amino
acid residues in Cox. The numbers in Column (3) indicate the position of the (arbitrarily chosen)
amino acids in a protein that are thought to constitute a conformon. The number in green indicates
the amino acid residue thought to be common to the conformons belonging to a set of functionally
related conformers. The numbers in the parentheses in Column (5) are hypothetical
¼
4. Deterministic
component
of p(w)
b
5. Nondeterministic
component
of p(w)
2. Conformers
(w)
1. Configuration
a
3. Conformons
a
1, 2, 3,
...
,
n
(1, 2, 3,
...
,
n
)
A
(51)
(
...
12, 35, 60,
100, 120,
...
)
A
20
(+1.9)
(
...
10, 35, 60,
100, 120,
...
)
A
20
+2.0
(
...
10, 35, 60,
100, 125,
...
)
A
20
(+1.8)
(1,2, 3,
...
,
n
)
B
(56)
(
...
45, 55, 60,
111, 128,
...
)
B
18
(0)
(
...
45, 55, 60,
111, 155,
18
0
...
)
B
(
...
50, 55, 60,
111, 155,
18
(0)
...
)
B
(1, 2, 3,
...
,
n
)
C
(
...
6, 10, 60, 125,
142,
15
(
1.3)
...
)
C
(63)
(
...
6, 10, 60, 125,
110,
15
2.0
...
)
C
(
...
9, 10, 60, 125,
110,
15
(
1.9)
...
)
C
a
See Sect.
3.2
for the definitions of “configurations” and “conformations”
b
Read off from Fig.
11.24
information
carried by conformons depicted as different patterns of amino acid
sequences organized in the active site of an enzyme in a given conformation, as
illustrated in Column (3). The following points are important to note in connec-
tion with Column (3):
(a) A protein consisting of n amino acid residues can generate more than one
conformers, designated as (1, 2, 3,
,n)
B
, etc., in Columns
(2) and (3) in Table
11.11
, where values within parentheses symbolize the
three-dimensional arrangement of the amino acid residues.
(b)
A conformer can generate more than one conformon
, each generated by
activating or spatiotemporally ordering a set of, say, five amino acid residues
at the active site (see the different sets of five numbers listed within the
parentheses in Column 3). All the conformons belonging to a conformer
share a subset of say three amino acid residues in common (residues 35, 60,
and 100 for Conformer A; residues 55, 60, and 111 for Conformer B; etc.).
The conformons belonging to the set of functionally related conformers given
in Column (2) share one amino acid residue in common, i.e., residue 60.
...
,n)
A
, (1, 2, 3,
...
