 
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 1tnt 
H 15  M 1 
K 16  E 2 
A 17  L 3 
Q 18  W 4 
A 19  V 5 
S 21  S 6 
W 22  P 7 
K 23  K 8 
D 24  E 9 
T 25  L 10 
A 26  A 11 
H 27  N 12 
A 28  L 13 
K 29  P 14 
A 30  G 15 
M 31  L 16 
E 32  P 17 
S 33  K 18 
L 34  T 19 
K 35  S 20 
P 36  A 21 
N 37  G 22 
V 38  V 23 
K 39  I 24 
K 40  Y 25 
E 41  V 26 
A 42  A 27 
K 43  K 28 
Q 44  K 29 
K 45  Q 30 
K 47  G 31 
L 48  W 32 
D 49  Q 33 
P 50  R 35 
A 51  T 36 
K 52  R 37 
D 53  A 38 
Y 54  G 39 
T 55  V 40 
Q 56  K 41 
D 57  G 42 
K 58  G 43 
D 59  K 44 
C 60  A 45 
V 61  I 46 
G 62  E 47 
C 63  Y 48 
H 64  N 49 
V 65  A 50 
D 66  N 51 
G 67  S 52 
F 68  L 53 
G 69  P 54 
Q 70  V 55 
K 71  E 56 
G 72  A 57 
G 73  K 58 
Y 74  A 59 
T 75  A 60 
I 76  L 61 
E 77  L 62 
S 78  L 63 
P 79  R 64 
K 80  Q 65 
TER 
END 
