PFRMAT AL 
TARGET T0052 
AUTHOR 7278-7379-8158 
METHOD Insert references and an abstract 
METHOD The method is based on a combination of hidden Markov models and 	 
METHOD secondary structure prediction. Each HMM represents a structural family  
METHOD of proteins and it is trained from known secondary structure sequences  
METHOD of proteins belonging to the structural family. 
METHOD Secondary structure prediction is performed for the target sequence  
METHOD using several types of prediction algorithms (GOR, QL, PHD, etc.). The  
METHOD predicted fold of the target protein is the fold described by the HMM  
METHOD that fits one (or most) of the predicted secondary structure sequences  
METHOD the best. 
METHOD At present the library consists of about 300 HMMs 
METHOD Di Francesco et al. JMB (1997) 267, 446-463 
METHOD Di Francesco et al. Proteins, Supplement 1 (1997) 123-128 
REMARK Chosen model: 1sxl, Crambin  
REMARK GOR prediction used for the alignment 
MODEL 2 
PARENT 1sxl  
Q       14      K     12 
G       15      D     13 
S       16      T     14 
V       17      N     15 
L       18      L     16 
T       19      Y     17 
S       20      V     18 
T       21      T     19 
C       22      N     20 
E       23      L     21 
R       24      P     22 
T       25      R     23 
N       26      T     24 
G       27      I     25 
G       28      T     26 
Y       29      D     27 
N       30      D     28 
T       31      Q     29 
S       32      L     30 
S       33      D     31 
I       34      T     32 
D       35      I     33 
L       36      V     41 
N       37      Q     42 
S       38      K     43 
V       39      N     44 
I       40      I     45 
E       41      L     46 
N       42      R     47 
V       43      D     48 
D       44      K     49 
G       45      L     50 
S       46      T     51 
L       47      G     52 
K       48      R     53 
W       49      P     54 
Q       50      R     55 
P       51      G     56 
S       52      V     57 
N       53      A     58 
F       54      F     59 
I       55      V     60 
E       56      R     61 
G       65      Y     62 
S       66      N     63 
S       67      K     64 
E       68      R     65 
L       69      E     66 
A       70      E     67 
A       71      A     68 
E       72      Q     69 
C       73      E     70 
K       74      A     71 
T       75      I     72 
R       76      S     73 
A       77      A     74 
Q       78      L     75 
Q       79      N     76 
F       80      N     77 
V       81      V     78 
S       82      I     79 
T       83      P     80 
K       84      E     81 
TER 
END 
