
PFRMAT SS
TARGET T0102
AUTHOR 3670-4530-6947
REMARK We found a known secondary structure for this target published
REMARK in J. Biomol. NMR12, 173-175 (1998)
REMARK The reported secondary structure was:
REMARK MAKEFGIPAA VAGTVLNVVE AGGWVTTIVS ILTAVGSGGL SLLAAAGRES IKAYLKKEIK
REMARK HHHCCCCCHH HHHHHHHHHH HCCCHHHHHH HHHHCCCCCH HHHHHHHCCC HHHHHHHHHC 
REMARK
REMARK KKGKRAVIAW
REMARK CCCCHHHHHH
REMARK
REMARK Our prediction is:
REMARK MAKEFGIPAA VAGTVLNVVE AGGWVTTIVS ILTAVGSGGL SLLAAAGRES IKAYLKKEIK
REMARK CHHHHCCCHH HHHHHHEEEH CCCCEHHHHH HHHECCCCHH HHHHHHCCHH HHHHHHHHHH
REMARK
REMARK KKGKRAVIAW
REMARK HHCCEEEEEC
REMARK
METHOD Using neural net overrep-2500-IDaa13-5-10-7-10-5-10-11-ehl2-seeded9-stride-trained.net
METHOD This is a 4-layer network, with 
METHOD	window	units
METHOD	    5	   10
METHOD	    7	   10
METHOD	    5	   10
METHOD	   11	    3 (1 EHL2 )
METHOD The input amino acid frequencies were determined from
METHOD alignment T0102.t2k.a2m.gz
METHOD with weighted counts, using EntropyWeight(1.4 bits/column, 10)
METHOD The weighting was determined by the posterior distribution
METHOD after regularizing with /projects/compbio/lib/recode3.20comp.
METHOD Counts were regularized to probabilities using
METHOD /projects/compbio/lib/recode3.20comp
METHOD Total sequence weight for alignment was 1.95347
METHOD
MODEL 1
M C 0.577
A H 0.683
K H 0.744
E H 0.780
F H 0.727
G C 0.947
I C 0.935
P C 0.765
A H 0.426
A H 0.627
V H 0.524
A H 0.538
G H 0.369
T H 0.412
V H 0.418
L E 0.472
N E 0.476
V E 0.483
V E 0.487
E E 0.358
A C 0.541
G C 0.806
G C 0.799
W C 0.473
V E 0.447
T H 0.422
T H 0.455
I H 0.464
V H 0.497
S E 0.465
I E 0.428
L H 0.451
T H 0.474
A E 0.362
V C 0.465
G C 0.706
S C 0.729
G C 0.605
G H 0.548
L H 0.680
S H 0.705
L H 0.766
L H 0.811
A H 0.820
A H 0.793
A H 0.677
G C 0.850
R C 0.621
E H 0.540
S H 0.665
I H 0.889
K H 0.911
A H 0.957
Y H 0.939
L H 0.953
K H 0.952
K H 0.944
E H 0.946
I H 0.940
K H 0.916
K H 0.841
K H 0.662
G C 0.945
K C 0.702
R E 0.597
A E 0.803
V E 0.868
I E 0.817
A E 0.587
W C 0.776
END

