l - People

!
!
1
(l " k)
A(k,l) =
2
%
' $ C(i, j)
'
k l
'
'
+
We then generate a matrix W by weighting this matrix to favor pairs k,l that are
maximally distant from each other, and are likely the endpoints of a structural domain:
W (k,l) = " l " k # A(k,l) . [4]
Lastly, we treat
!
169
[3]
W (k,l) as a two-dimensional discrete function of
!
k,l and identify its
minima using the algorithm described for FlexOracle. hNMb (Continuous Domain
Boundary Identifier), hNMc and hNMd (Excluded Region Identifier) all use this list of
minima, but treat it differently. hNMb ranks the minima by the value of
minimum. The particular values of the indices
!
k,l, where
!
!
W (k,l) at the
k < l at the location of the
global minimum are taken as the residue numbers of a pair of hinge points. If
within five residues of the N(C) terminus, then
!
!
k(l) is
k(l) is dropped and the other index is
reported as the sole hinge point. The last modification is that for the hinge point at
the hinge is reported as consisting of the two residues
!
!
k "1 and
!
k (
!
l "1 and
!
l).
k(l)