PFRMAT AL 
TARGET T0054 
AUTHOR 6795-8227-6214 
REMARK CASP3 Prediction by Michael Bass on 6/23/98 
METHOD AmgenThread.  Gapped alignments with no end penalties. 
METHOD Uses residue-based statistical potentials.  Specific 
METHOD potentials include exposed surface area, inter-residue 
METHOD distance-dependent contacts, and backbone dihedral 
METHOD angle preferences.  The search database is against the 
METHOD Hobohm PDB-SELECT list, Oct 97, at the 45% identity or 
METHOD less level containing 1,247 structures. 
METHOD This is an automatic prediction method. 
REMARK Results from database search: 
REMARK Sequence "t0054" has a significant match 
REMARK pdb1ad2       5.502     0.174    20.395  MOLECULE: RIBOSOMAL PROTEIN L1; 
REMARK                                          SCOP: Multi; Ribosomal protein L1 
REMARK pdb1l68       3.981     0.137    -1.765  LYSOZYME (E.C.3.2.1.17) (MUTANT WITH SER 44 REPLACED BY ALA, 
REMARK                                          SCOP: A+B; Lysozyme-like 
REMARK pdb1isc_A     3.813     0.132   -10.707  IRON(III) SUPEROXIDE DISMUTASE (E.C.1.15.1.1) COMPLEXED 
REMARK                                          SCOP: 1-82: Alpha; Long alpha-hairpin 
REMARK                                          SCOP: 83-192: A+B; Fe,Mn superoxide dismutase (SOD), C-terminal domain 
REMARK pdb2bb2       3.721     0.130     6.845  BETA-B2-CRYSTALLIN 
REMARK pdb1mng_A     3.616     0.128   -13.578  MANGANESE SUPEROXIDE DISMUTASE (E.C.1.15.1.1) COMPLEXED 
REMARK                                          SCOP: 1-92: Alpha; Long alpha-hairpin 
REMARK                                          SCOP: 93-203: A+B; Fe,Mn superoxide dismutase (SOD), C-terminal domain 
REMARK pdb1ofv       3.517     0.125   -13.048  FLAVODOXIN (OXIDIZED FORM) 
REMARK                                          SCOP: A/B; Flavodoxin-like 
REMARK pdb1amm       3.466     0.124    -3.047  MOLECULE: GAMMA B-CRYSTALLIN; 
REMARK                                          SCOP: 1-85: Beta; Crystallins/protein S 
REMARK                                          SCOP: 86-174: Beta; Crystallins/protein S 
REMARK pdb2mcm       3.426     0.123     0.886  MACROMOMYCIN 
REMARK                                          SCOP: Beta; Immunoglobulin-like beta-sandwich 
REMARK pdb2tct       3.425     0.123     1.478  MOLECULE: TETRACYCLINE REPRESSOR; 
REMARK                                          SCOP: Alpha; Tetracyclin repressor (Tet-repressor, TetR) 
MODEL  1 
REMARK Sequence alignment follows: 
REMARK t0054        ......................................MEIGFTFLDEI. 
REMARK                                                    |:|#| |  |   
REMARK pdb1ad2      KRYRALLEKVDPNKIYTIDEAAHLVKELATAKFDETVEVHAKLGIDPRRS 
REMARK  
REMARK t0054        ...VHGVRWDAKYATWDNFTGKPVDGYEVNRIVGTYELAESLLKAKELAA 
REMARK                 |||. :|:.|:     :|||:: |    ||::#|. | | |.  |#  
REMARK pdb1ad2      DQNVRGT.VSLPHG.....LGKQVRVL....AIAKGEKIKEAEEAG.ADY 
REMARK  
REMARK t0054        TQGYGLL..LWDGYRPKRAVNCFMQWAAQPENNLTKESYYPNIDRTEMIS 
REMARK                |  ||  | |||.|   ||:|  || .|#..  :|:|   |.:      
REMARK pdb1ad2      VGGEEIIQKILDGWMD...FDAV..VATPDVMGAVGSKLGRILGP..... 
REMARK  
REMARK t0054        KGYVASKSSHSRGSAIDLTLYRLDTGELVPMGSRFDFMDERSHHAANGIS 
REMARK              .|::.||.|:..|:.|#  | :|.:|..     :|.| ::#:.||.#| | 
REMARK pdb1ad2      RGLLPNPKAGTVGFNIGEIIREIKAGRI.....EFRNDKTGAIHAPVG.K 
REMARK  
REMARK t0054        CNEAQNR..RRLRSIMENSGFEAYSLE.....WWHYV.LRDEPYPNSYFD 
REMARK               | ..::  : ||.|||   ||.|.||     |: .| |.# ::|.  |: 
REMARK pdb1ad2      ACFPPEKLADNIRAFIRA..LEAHKPEGAKGTFLRSVYVTTTMGPSVRIN 
REMARK  
REMARK t0054        FPVK 
REMARK              ...  
REMARK pdb1ad2      PHS. 
REMARK  
PARENT 1ad2 
M 1  V 43 
E 2  H 44 
I 3  A 45 
G 4  K 46 
F 5  L 47 
T 6  G 48 
F 7  I 49 
L 8  D 50 
D 9  P 51 
E 10  R 52 
I 11  R 53 
V 12  V 58 
H 13  R 59 
G 14  G 60 
V 15  T 61 
W 17  V 62 
D 18  S 63 
A 19  L 64 
K 20  P 65 
Y 21  H 66 
A 22  G 67 
T 28  L 68 
G 29  G 69 
K 30  K 70 
P 31  Q 71 
V 32  V 72 
D 33  R 73 
G 34  V 74 
Y 35  L 75 
I 40  A 76 
V 41  I 77 
G 42  A 78 
T 43  K 79 
Y 44  G 80 
E 45  E 81 
L 46  K 82 
A 47  I 83 
E 48  K 84 
S 49  E 85 
L 50  A 86 
L 51  E 87 
K 52  E 88 
A 53  A 89 
K 54  G 90 
L 56  A 91 
A 57  D 92 
A 58  Y 93 
T 59  V 94 
Q 60  G 95 
G 61  G 96 
Y 62  E 97 
G 63  E 98 
L 64  I 99 
L 65  I 100 
L 66  I 103 
W 67  L 104 
D 68  D 105 
G 69  G 106 
Y 70  W 107 
R 71  M 108 
P 72  D 109 
V 76  F 110 
N 77  D 111 
C 78  A 112 
F 79  V 113 
W 82  V 114 
A 83  A 115 
A 84  T 116 
Q 85  P 117 
P 86  D 118 
E 87  V 119 
N 88  M 120 
N 89  G 121 
L 90  A 122 
T 91  V 123 
K 92  G 124 
E 93  S 125 
S 94  K 126 
Y 95  L 127 
Y 96  G 128 
P 97  R 129 
N 98  I 130 
I 99  L 131 
D 100  G 132 
R 101  P 133 
K 107  R 134 
G 108  G 135 
Y 109  L 136 
V 110  L 137 
A 111  P 138 
S 112  N 139 
K 113  P 140 
S 114  K 141 
S 115  A 142 
H 116  G 143 
S 117  T 144 
R 118  V 145 
G 119  G 146 
S 120  F 147 
A 121  N 148 
I 122  I 149 
D 123  G 150 
L 124  E 151 
T 125  I 152 
L 126  I 153 
Y 127  R 154 
R 128  E 155 
L 129  I 156 
D 130  K 157 
T 131  A 158 
G 132  G 159 
E 133  R 160 
L 134  I 161 
R 140  E 162 
F 141  F 163 
D 142  R 164 
F 143  N 165 
M 144  D 166 
D 145  K 167 
E 146  T 168 
R 147  G 169 
S 148  A 170 
H 149  I 171 
H 150  H 172 
A 151  A 173 
A 152  P 174 
N 153  V 175 
G 154  G 176 
S 156  K 177 
C 157  A 178 
N 158  C 179 
E 159  F 180 
A 160  P 181 
Q 161  P 182 
N 162  E 183 
R 163  K 184 
R 164  D 187 
R 165  N 188 
L 166  I 189 
R 167  R 190 
S 168  A 191 
I 169  F 192 
M 170  I 193 
E 171  R 194 
N 172  A 195 
F 175  L 196 
E 176  E 197 
A 177  A 198 
Y 178  H 199 
S 179  K 200 
L 180  P 201 
E 181  E 202 
W 182  F 208 
W 183  L 209 
H 184  R 210 
Y 185  S 211 
V 186  V 212 
L 187  V 214 
R 188  T 215 
D 189  T 216 
E 190  T 217 
P 191  M 218 
Y 192  G 219 
P 193  P 220 
N 194  S 221 
S 195  V 222 
Y 196  R 223 
F 197  I 224 
D 198  N 225 
F 199  P 226 
P 200  H 227 
V 201  S 228 
TER 
END 
