
PFRMAT AL
TARGET T0125
AUTHOR 6305-9733-7289
REMARK similar to 3lyn.
METHOD PSI-BLAST (Altschul et al., Nucl. Acids Res. 25, 3389-3402, 1997)
METHOD (-h 0.0005 -j 20) and iterative SCANPS
METHOD (Barton et al., 2000, http://barton.ebi.ac.uk/scanps/)
METHOD were run against a combined search set comprising the SWALL, PDB and ENSEMBL
METHOD sequence databases. In these runs, 3lyn (chain B) was identified as a
METHOD homologue. All sequences hit with an E-val of less than 0.0005
METHOD were collected and aligned all_against_all using AMPS
METHOD (Barton, G. J., Methods in Enzymology 183, 403-428, 1990)
METHOD and one sequence was removed from any pair sharing greater than 75%
METHOD identity. These sequences were combined with t0125 and 3lyn_B, and
METHOD a multiple alignment was constructed by CLUSTALW (Higgins et al.,
METHOD Methods in Enz.266,383-402,1996.) The alignment between t0125
METHOD and 3lyn_B was extracted, and then edited by hand in the
METHOD Jalview alignment editor
METHOD (M. Clamp, URL: http://www2.ebi.ac.uk/~michele/jalview/contents.html).
MODEL  1
PARENT 3lyn_B
V 6 I B11
S 7 N B12
R 8 K B13
Q 9 A B14
E 10 Y B15
Q 11 E B16
S 12 V B17
Y 13 T B18
V 14 M B19
Q 15 K B20
R 16 I B21
G 17 Q B22
M 18 I B23
V 19 I B24
N 20 S B25
F 21 G B26
L 22 F B27
D 23 D B28
E 24 R B29
E 25 Q B30
M 26 L B31
H 27 T B32
K 28 A B33
L 29 W B34
V 30 L B35
K 31 R B36
R 32 V B37
F 33 H B38
G 43 N B45
F 44 Q B46
V 45 K B47
F 46 K B48
L 47 T B49
L 48 L B50
K 49 F B51
K 50 F B52
V 51 V B53
N 52 N B54
R 53 R B55
E 54 R B56
R 55 Y B57
M 56 M B58
M 57 Q B59
R 58 T B60
Y 59 H B61
C 60 W B62
M 61 Q B63
D 62 N B64
Y 63 Y B65
A 64 M B66
R 65 L B67
Y 66 W B68
S 67 V B69
K 68 K B70
K 69 R B71
I 70 K B72
L 71 I B73
Q 72 K B74
L 73 A B75
K 74 L B76
H 75 G B77
L 76 R B78
P 77 P B79
V 78 A B80
N 79 A B81
K 80 V B82
K 81 G B83
T 82 D B84
L 83 Y B85
T 84 T B86
K 85 R B87
M 86 L B88
G 87 G B89
R 88 A B90
F 89 E B91
V 90 I B92
G 91 G B93
Y 92 R B94
R 93 R B95
V 97 M B98
I 98 V B99
R 99 F B100
E 100 F B101
L 101 Y B102
Y 102 N B103
A 103 F B104
D 104 L B105
V 105 S B106
F 106 G B107
R 107 R B108
T 118 S B115
A 119 A B116
A 120 Y B117
M 121 M B118
R 122 A B119
K 123 K B120
Y 124 L B121
S 125 N B122
S 126 A B123
K 127 L B124
D 128 R B125
P 129 P B126
G 130 A B127
T 131 D B128
F 132 V B129
P 133 P B130
C 134 V B131
K 135 K B132
N 136 N B133
TER
END


