 
PFRMAT AL 
TARGET T0085 
AUTHOR 6795-8227-6214 
REMARK CASP3 Prediction by Michael Bass on 9/11/98 
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 of N-term (1-90): 
REMARK Sequence "t0085e" has a significant match 
REMARK pdb1tnt       5.156     0.246     9.561  MU TRANSPOSASE (DNA-BINDING DOMAIN) (NMR, 33 STRUCTURES) 
REMARK                                          SCOP: Alpha; Mu transposase, DNA-binding domain 
REMARK pdb1hst_A     4.240     0.211     1.151  HISTONE H5 (GLOBULAR DOMAIN) 
REMARK                                          SCOP: Alpha; DNA-binding 3-helical bundle 
REMARK pdb1wfb_A     4.056     0.204    14.118  ANTIFREEZE PROTEIN ISOFORM HPLC6 (-180 DEGREES C) 
REMARK                                          SCOP: Peptides; Antifreeze polypeptide HPLC-6 
REMARK pdb1hcr_A     3.815     0.195     6.963  HIN RECOMBINASE (DNA-BINDING DOMAIN) COMPLEXED WITH DNA 
REMARK                                          SCOP: Alpha; DNA-binding 3-helical bundle 
REMARK pdb1ery       3.741     0.193    11.395  MOLECULE: PHEROMONE ER-11; 
REMARK pdb1cei       3.560     0.186    -0.423  MOLECULE: COLICIN E7 IMMUNITY PROTEIN; 
REMARK                                          SCOP: Alpha; Acyl carrier protein 
REMARK pdb1ps2       3.528     0.184     2.149  MOLECULE: PS2; 
REMARK pdb1bct       3.525     0.184    14.788  BACTERIORHODOPSIN (FRAGMENT 163-231) (NMR, 14 STRUCTURES) 
REMARK pdb1hmf       3.416     0.180    13.404  HIGH MOBILITY GROUP PROTEIN FRAGMENT-B (HMGB) (DNA-BINDING 
REMARK pdb1btn       3.357     0.178     2.345  MOLECULE: BETA-SPECTRIN; 
REMARK                                          SCOP: Beta; PH domain-like 
REMARK pdb1hyp       3.185     0.171    -1.499  HYDROPHOBIC PROTEIN FROM SOYBEAN 
REMARK                                          SCOP: Alpha; Bifunctional inhibitor/lipid-transfer protein/seed storage 2S 
REMARK pdb2ifo       3.156     0.170    11.211  INOVIRUS (FILAMENTOUS BACTERIOPHAGE) STRAIN XF MAJOR 
REMARK                                          SCOP: Alpha; Oligomers of long helices 
REMARK 
REMARK Prediction combined with model 1 (2ccy_A). 
MODEL  2 
REMARK Sequence alignment follows: 
REMARK t0085e       ADAPFEGRKKCSSCHKAQAQSWKDTAHAKAMESLKPNVKKEAKQKAKLD. 
REMARK                            .|... .:|: .. ..| .#.|.|:|:||.: :||  
REMARK pdb1tnt      ..............MELWV.SPKELANLPGLPKTSAGVIYVAKKQ.GWQN 
REMARK  
REMARK t0085e       PAKDYTQDKDCVGCHVDGFGQKGGYTIESPK........... 
REMARK              | :| .||:|: .||..#|:::    |: |             
REMARK pdb1tnt      RTRAGVKGGKAIEYNANSLPVEAKAALLLRQGEIETSLGYFE 
REMARK  
REMARK Sequence alignment follows: 
REMARK t0085h       ...................DHRKSGQAFEKSGKKTPRKDLAKKGQDFHFE 
REMARK                                 ::.|.#.:| : ||..| |||::. ::|    
REMARK pdb2ccy_A    QSKPEDLLKLRQGLMQTLKSQWVPIAGFAA.GKADLPADAAQRAENMA.. 
REMARK  
REMARK t0085h       ERCSACHLNY.EGSP.WKGAKAPYTPFTPEVDAKYTFKFDEMVKEVKAMH 
REMARK              :  :|.   | || | |:|:. |  :| .|#..:..#:|::|.|:::.|  
REMARK pdb2ccy_A    MVAKLAPIGWAKGTEALPNGETK.PEAFGSKSAEFLEGWKALATESTKLA 
REMARK  
REMARK t0085h       EHYKLEGVFEGEPKFKFHDEFQASAKPAKKGK...... 
REMARK              | .|     |||.||:  ..:|. :|#||:..       
REMARK pdb2ccy_A    AAAK.....AGPDALK..AQAAATGKVCKACHEEFKQD 
REMARK  
PARENT 2ccy_A 
D 101  S 21 
H 102  Q 22 
R 103  W 23 
K 104  V 24 
S 105  P 25 
G 106  I 26 
Q 107  A 27 
A 108  G 28 
F 109  F 29 
E 110  A 30 
K 111  A 31 
G 113  G 32 
K 114  K 33 
K 115  A 34 
T 116  D 35 
P 117  L 36 
R 118  P 37 
K 119  A 38 
D 120  D 39 
L 121  A 40 
A 122  A 41 
K 123  Q 42 
K 124  R 43 
G 125  A 44 
Q 126  E 45 
D 127  N 46 
F 128  M 47 
H 129  A 48 
E 132  M 49 
R 133  V 50 
C 134  A 51 
S 135  K 52 
A 136  L 53 
C 137  A 54 
H 138  P 55 
L 139  I 56 
N 140  G 57 
Y 141  W 58 
E 142  K 60 
G 143  G 61 
S 144  T 62 
P 145  E 63 
W 146  L 65 
K 147  P 66 
G 148  N 67 
A 149  G 68 
K 150  E 69 
A 151  T 70 
P 152  K 71 
T 154  P 72 
P 155  E 73 
F 156  A 74 
T 157  F 75 
P 158  G 76 
E 159  S 77 
V 160  K 78 
D 161  S 79 
A 162  A 80 
K 163  E 81 
Y 164  F 82 
T 165  L 83 
F 166  E 84 
K 167  G 85 
F 168  W 86 
D 169  K 87 
E 170  A 88 
M 171  L 89 
V 172  A 90 
K 173  T 91 
E 174  E 92 
V 175  S 93 
K 176  T 94 
A 177  K 95 
M 178  L 96 
H 179  A 97 
E 180  A 98 
H 181  A 99 
Y 182  A 100 
K 183  K 101 
E 189  A 102 
G 190  G 103 
E 191  P 104 
P 192  D 105 
K 193  A 106 
F 194  L 107 
K 195  K 108 
D 198  A 109 
E 199  Q 110 
F 200  A 111 
Q 201  A 112 
A 202  A 113 
S 203  T 114 
A 204  G 115 
K 205  K 116 
P 206  V 117 
A 207  C 118 
K 208  K 119 
K 209  A 120 
G 210  C 121 
K 211  H 122 
TER 
END 
