PFRMAT AL 
TARGET T0043 
AUTHOR 7397-8542-2481 
METHOD Blast and Psi-Blast searches with HPPK_ECOLI yielded a group of 15 
METHOD homologues including two distantly related sequences from parasitic 
METHOD protozoans containing large insertions. After alignment in MACAW, we 
METHOD obtained a consensus secondary structure prediction from the JPred 
METHOD server. In MAP, this prediction yielded top hits among proteins with a 
METHOD ferredoxin fold. Comparison of the conserved domains in HPPKs and 
METHOD proteins of the ferredoxin fold indicated some regions of 
METHOD incompatibility, leading us to search for related protein folds with a 
METHOD better match, and eventually to the thioredoxin fold.  
MODEL  1 
PARENT 1FVK_A 
T   1    P  20 
V   2    Q  21 
A   3    V  22 
Y   4    L  23 
I   5    E  24 
A   6    F  25 
I   7    F  26 
G   8    S  27 
S   9    F  28 
N  10    F  29 
L  11    C  30 
A  12    P  31 
S  13    H  32 
P  14    C  33 
L  15    Y  34 
E  16    Q  35 
Q  17    F  36 
V  18    E  37 
N  19    E  38 
A  20    I  42 
A  21    S  43 
L  22    D  44 
K  23    N  45 
A  24    V  46 
L  25    K  47 
G  26    K  48 
D  27    K  49 
I  28    L  50 
P  29    P  51 
E  30    E  52 
S  31    G  53 
H  32    V  54 
I  33    K  55 
L  34    M  56 
T  35    T  57 
V  36    K  58 
S  37    Y  59 
S  38    H  60 
F  39    V  61 
Q  50    L  68 
P  51    G  69 
D  52    K  70 
Y  53    D  71 
L  54    L  72 
N  55    T  73 
A  56    Q  74 
A  57    A  75 
V  58    W  76 
A  59    A  77 
L  60    V  78 
A  65    S 128 
P  66    F 129 
E  67    V 130 
E  68    V 131 
L  69    K 132 
L  70    S 133 
N  71    L 134 
H  72    V 135 
T  73    A 136 
Q  74    Q 137 
R  75    Q 138 
I  76    E 139 
E  77    K 140 
L  78    A 141 
Q  79    A 142 
Q  80    A 143 
G  81    D 144 
R  82    V 145 
D  95    V 150 
L  96    P 151 
D  97    A 152 
I  98    M 153 
M  99    F 154 
L 100    V 155 
F 101    N 156 
F 123    Y 159 
M 124    Q 160 
L 125    L 161 
W 126    N 162 
P 127    P 163 
L 128    Q 164 
F 129    G 165 
E 130    M 166 
I 131    D 167 
A 132    T 168 
E 134    S 169 
L 135    N 170 
V 136    M 171 
F 137    D 172 
P 138    V 173 
D 139    F 174 
G 140    V 175 
E 141    Q 176 
M 142    Q 177 
L 143    Y 178 
R 144    A 179 
Q 145    D 180 
I 146    T 181 
L 147    V 182 
H 148    K 183 
T 149    Y 184 
R 150    L 185 
A 151    S 186 
F 152    E 187 
D 153    K 188 
TER 
END 
