
PFRMAT AL
TARGET T0126
AUTHOR 7770-2312-5826
REMARK GROUP NAME: SHESTOPALOV.
REMARK GROUP LEADER: Shestopalov Boris V. TEAM: NO.
REMARK E-mail: shest@mail.cytspb.rssi.ru
METHOD Secondary structures predicted by DOUBLET CODE METHOD
METHOD (see SHESTOPALOV, ab initio secondary structure category)
METHOD and also various information from protein data bases are used.
METHOD Predicted secondary structure is used for search in PDB
METHOD similar secondary structures. BLAST and FASTA data for target
METHOD sequence are used to restrict this search. For this purpose
METHOD SCOP, CATH, PRODOM, CD-BLAST, SWISSPROT and other databases
METHOD are used also. Crucially fruitful tools for the target are
METHOD mentioned especially. Alignment is constructed manually, using,
METHOD when it is possible, Yale structural alignments for PARENT and
METHOD its homologues.
METHOD Here BLAST-2 service has been fruitful (Yan P. Yuan, 
METHOD Eulenstein, O., Vingron, M. & Bork, P. 1998. Towards 
METHOD detection of orthologues in sequence databases. Bioinformatics, 
METHOD 14, 285-289), EMBL installation, EXPECT 1000.  
MODEL  1
PARENT 1guk_A
D 4 G 83
G 5 K 84
P 6 D 85
Q 7 L 86
K 8 K 87
Q 9 E 88
Q 10 R 89
L 11 V 90
E 12 R 91
M 13 I 92
P 14 D 93
L 15 M 94
V 16 Y 95
L 17 A 96
D 18 D 97
Q 19 Q 100
D 20 D 101
L 21 L 102
Q 24 M 103
M 25 M 104
R 26 M 105
L 27 I 106
R 28 A 107
V 29 V 108
E 30 A 109
S 31 P 110
L 32 P 114
K 33 K 115
Q 34 E 116
R 35 K 117
G 36 E 118
E 37 E 119
K 38 S 120
K 39 Y 121
Q 40 D 122
E 43 L 123
K 44 I 124
L 45 L 125
I 46 S 126
R 47 R 127
F 57 F 133
I 58 P 134
Q 59 V 135
Q 60 F 136
Q 61 E 137
K 62 K 138
L 63 I 139
Q 64 L 140
F 65 K 141
D 66 D 142
H 67 H 143
G 76 G 144
K 77 E 145
V 78 A 146
T 79 F 147
I 80 L 148
T 81 V 149
G 82 G 150
T 83 N 151
S 84 Q 152
Q 85 L 153
N 86 S 154
W 87 W 155
T 88 A 156
D 90 D 157
L 91 I 158
Q 98 Q 159
L 99 L 160
L 100 L 161
D 101 E 162
A 104 A 163
I 105 I 164
F 106 L 165
W 107 M 166
R 108 V 167
K 109 E 168
E 110 E 169
D 111 L 170
S 112 S 171
A 114 A 172
M 115 P 173
D 116 V 174
W 117 L 175
N 118 S 176
D 121 P 179
A 122 L 180
L 123 L 181
E 124 Q 182
F 125 F 184
G 126 K 185
E 127 T 186
R 128 R 187
L 129 I 188
S 130 S 189
D 131 N 190
L 132 I 191
A 133 P 192
K 134 T 193
I 135 I 194
R 136 K 195
K 137 K 196
V 138 F 197
M 139 L 198
G 146 K 205
E 147 P 206
G 148 P 207
V 149 P 208
E 150 D 209
P 151 G 210
A 152 P 211
N 153 Y 212
L 154 V 213
K 155 E 214
A 156 V 215
S 157 V 216
V 158 R 217
V 159 I 218
F 160 V 219
TER
END

