The following scores are used to measure threading prediction accuracy
note: most tables contain only a subset of these scores):
P_MMT P-value of structural alignemnt of medel and
experimental structures assigned by program
MAMMOTH
Z_CE Z-score of structural alignment of model and
experimental structures assigned by program CE
Q_LG1 quality score for structural alignemnt of medel and
experimental structures assigned by program LG1
Q_LG2 quality score for structural alignemnt of medel and
experimental structures assigned by program LG1
NXA_Gbl% percentage of equivalent residues within a distance
of X Angstroms in a global superposition of model
and experimental structures
NXA_ext_CE% percentage of target residues found within a distance
of X Angstroms in structural alignment of model and
target structures seeded by CE and extended iteratively
ModN% percent of target residues in model produced by method
pairwise score Let Nb - number of times server is signinficantly better
than other servers.
Let Nw - number of times server is signinficantly worse
than other servers.
Let N -number of times a comparison can be made.
Than: score = 10 * ( Nb - Nw )/N .
The significance is computed using Student t-distribution
ROC curves plots of true positives vs false positives for prediction
sets ordered according to internal score of a method.
Cutoff values for true and false positives are defined
by "Sgnf(measure)" values above
CE classification Classifcation into Family, Superfamily and Twilight
zone is based on z-score from CE statistical model.
>4.5- family level similarity;
4.0-4.5 - superfamily level similarities, strong
function related similarities or strong
recurring fold;
3.7-4.0 - twilight zone where some similarities
of biological significance can be seen;
<3.7 - similarities of low significance, but still
some biologically important similarities
can be revealed, but interpretation normally
requires additional evidence.
We take scores above 3.7 as significant