PFRMAT AL 
TARGET T0055 
AUTHOR 8120-3487-1357 
REMARK Matrix Used: BS_30_25% 
REMARK Alignment Method Used: Quasi-Global Dynamic Programming 
METHOD Sequence-Structure alignment based on the environments 
METHOD published in: Deerfield, Holland-Minkley, Geigel, and 
METHOD Nicholas 1997. "Classification of the Environment of 
METHOD Protein Residues" J. Prot. Chem. 16:441-446. 
METHOD 
METHOD This test uses our latest (unpublished) environment 
METHOD classifications and extentions. 
MODEL  2 
PARENT 1kjd 
Y    3 W    1 
E    4 T    2 
I    5 Y    3 
L    6 H    4 
F    7 Y    5 
S    8 S    6 
D    9 T    7 
E   10 K    8 
T   11 A    9 
M   12 Y   10 
N   13 S   11 
Y   14 W   12 
A   15 N   13 
D   16 I   14 
A   17 S   15 
G   18 R   16 
T   19 K   17 
Y   20 Y   18 
C   21 C   19 
Q   22 Q   20 
S   23 N   21 
R   24 R   22 
G   25 Y   23 
M   26 T   24 
A   27 D   25 
L   28 L   26 
V   29 V   27 
S   30 A   28 
S   31 N   31 
A   32 K   32 
M   33 N   33 
R   34 E   34 
D   35 I   35 
S   36 D   36 
T   37 Y   37 
M   38 L   38 
V   39 N   39 
K   40 K   40 
A   41 V   41 
I   42 L   42 
E   47 P   43 
V   48 Y   44 
K   49 Y   45 
G   50 S   46 
H   51 S   47 
D   52 Y   48 
Y   53 Y   49 
W   54 W   50 
V   55 I   51 
G   56 G   52 
D   58 I   53 
N   59 R   54 
L   60 K   55 
Q   61 N   56 
D   62 N   57 
G   63 K   58 
A   64 T   59 
Y   65 W   60 
N   66 T   61 
F   67 W   62 
L   68 V   63 
N   70 G   64 
D   71 T   65 
G   72 K   66 
V   73 K   67 
S   74 A   68 
L   75 L   69 
P   76 T   70 
T   77 N   71 
D   78 E   72 
S   79 A   73 
D   80 E   74 
L   81 N   75 
W   82 W   76 
S   83 A   77 
P   84 D   78 
N   85 N   79 
E   86 E   80 
P   87 P   81 
S   88 N   82 
N   89 N   83 
P   90 K   84 
Q   91 R   85 
S   92 N   86 
W   93 N   87 
Q   94 E   88 
L   95 D   89 
C   96 C   90 
V   97 V   91 
Q   98 E   92 
I   99 I   93 
W  100 Y   94 
S  101 G  102 
K  102 K  103 
Y  103 W  104 
N  104 N  105 
L  105 D  106 
L  106 E  107 
D  107 H  108 
C  111 C  109 
G  112 L  110 
G  113 K  111 
A  114 K  112 
R  115 K  113 
R  116 H  114 
V  117 A  115 
I  118 L  116 
C  119 C  117 
E  120 Y  118 
K  121 T  119 
E  122 A  120 
TER 
END 
