PFRMAT AL 
TARGET T0053 
AUTHOR 7397-8542-2481 
METHOD Searches of the nr database yielded no homologs, so we searched the  
METHOD unfinished genomes at NCBI, and retrieved three contigs from  
METHOD Clostridium and Porphyromonas.  After alignment, we submitted them to the 
METHOD JPRED server.  The resulting secondary structure prediction was  
METHOD strongly indicative of a parellel, doubly wound, seven stranded fold 
METHOD with a helical hairpin inserted between strands 1 and 2.  We  
METHOD chose a template from the SCOP database to match our expected fold. 
METHOD The alignment was made by maximum overlap of predicted and observed 
METHOD secondary structure.   
MODEL  1 
PARENT 1xel 
A   4    M   1 
L   5    R   2 
L   6    V   3 
V   7    L   4 
V   8    V   5 
S   9    T   6 
E  19    G  10 
K  20    Y  11 
N  21    I  12 
I  22    G  13 
V  23    S  14 
A  24    H  15 
C  25    T  16 
E  26    C  17 
R  27    V  18 
D  28    Q  19 
L  29    L  20 
A  30    L  21 
A  31    Q  22 
S  32    N  23 
C  33    G  24 
Q  75    D  26 
D  76    V  27 
V  77    I  28 
A  78    I  29 
I  79    L  30 
Q  80    D  31 
S  81    N  32 
V  97    L  41 
Q  98    P  42 
L  99    V  43 
L 100    I  44 
R 101    E  45 
P 102    R  46 
L 103    L  47 
F 104    G  48 
P 112    P  52 
L 113    T  53 
L 114    F  54 
S 115    V  55 
S 116    E  56 
H 117    G  57 
D 119    N  61 
Y 120    E  62 
V 121    A  63 
Q 122    L  64 
L 123    M  65 
M 124    T  66 
Q 125    E  67 
A 126    I  68 
L 127    L  69 
R 128    H  70 
Q 129    D  71 
Q 130    H  72 
K 139    D  75 
V 140    T  76 
V 141    V  77 
F 142    I  78 
M 143    H  79 
A 151    N 100 
F 152    V 101 
A 153    N 102 
A 154    G 103 
Y 155    T 104 
A 156    L 105 
C 157    R 106 
L 158    L 107 
D 159    I 108 
H 160    S 109 
M 161    A 110 
M 162    M 111 
T 163    R 112 
A 164    A 113 
Q 165    A 114 
R 166    N 115 
F 167    V 116 
P 168    K 117 
A 169    N 118 
R 170    F 119 
V 171    I 120 
G 172    F 121 
A 173    S 122 
V 174    S 123 
E 175    S 124 
E 179    S 152 
V 180    K 153 
D 181    L 154 
I 182    M 155 
L 183    V 156 
I 184    E 157 
D 185    Q 158 
S 186    I 159 
L 187    L 160 
R 188    T 161 
D 189    D 162 
E 190    L 163 
G 191    Q 164 
V 192    K 165 
T 193    A 166 
L 197    S 171 
M 198    I 172 
P 199    A 173 
L 200    L 174 
M 201    L 175 
L 202    R 176 
V 203    Y 177 
D 218    D 241 
S 219    G 242 
W 220    H 243 
K 221    V 244 
M 222    V 245 
R 223    A 246 
F 224    M 247 
N 225    E 248 
A 226    K 249 
A 227    L 250 
P 230    P 254 
A 231    G 255 
T 232    V 256 
P 233    H 257 
W 234    I 258 
L 235    Y 259 
S 236    N 260 
G 237    L 261 
L 238    G 262 
TER 
END 
