PFRMAT AL 
TARGET T0084 
AUTHOR 6795-8227-6214 
REMARK CASP3 Prediction by Michael Bass on 9/10/98 
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 "t0084" has a significant match 
REMARK pdb1gcm_A     5.187     0.293    10.901  MOLECULE: GCN4P-II; 
REMARK                                          SCOP: Alpha; Oligomers of long helices 
REMARK pdb1wfb_A     5.158     0.292     6.179  ANTIFREEZE PROTEIN ISOFORM HPLC6 (-180 DEGREES C) 
REMARK                                          SCOP: Peptides; Antifreeze polypeptide HPLC-6 
REMARK pdb1aik_N     5.061     0.287    11.040  MOLECULE: HIV-1 GP41 GLYCOPROTEIN; 
REMARK                                          SCOP: Membrane; stalk segment of viral fusion proteins 
REMARK pdb1hst_A     4.646     0.268    12.943  HISTONE H5 (GLOBULAR DOMAIN) 
REMARK                                          SCOP: Alpha; DNA-binding 3-helical bundle 
REMARK pdb125d       4.535     0.263     8.349  CD2-GAL4 (65-RESIDUE DNA-BINDING DOMAIN) (YEAST) 
REMARK                                          SCOP: Small; Zn2/Cys6 DNA-binding domain 
REMARK pdb1kzu_B     4.530     0.263     8.744  MOLECULE: LIGHT HARVESTING PROTEIN B-800/850; 
REMARK                                          SCOP: Membrane; Light-harvesting complex LH2 
REMARK pdb1aap_A     4.330     0.254     8.443  PROTEASE INHIBITOR DOMAIN OF ALZHEIMER'S AMYLOID 
REMARK                                          SCOP: Small; BPTI-like 
REMARK pdb1ery       4.318     0.253     5.870  MOLECULE: PHEROMONE ER-11; 
REMARK pdb1aik_C     4.248     0.250     8.856  MOLECULE: HIV-1 GP41 GLYCOPROTEIN; 
REMARK pdb1r69       4.083     0.243     8.769  434 REPRESSOR (AMINO-TERMINAL DOMAIN) (R1-69) 
REMARK                                          SCOP: Alpha; lambda repressor-like DNA-binding domains 
REMARK pdb1jun_A     3.895     0.234     9.207  MOLECULE: C-JUN HOMODIMER; 
REMARK pdb1yrn_A     3.882     0.234     6.580  MOLECULE: MATING-TYPE PROTEIN A-1; 
MODEL  1 
REMARK Sequence alignment follows: 
REMARK t0084        CGGREGVLKKLRAVENELHYNKSLLEEVKDELQKMRQ... 
REMARK                      |:.. .: ::   .. :|:.:..::::::    
REMARK pdb1gcm_A    ........XRMKQIEDKIEEILSKIYHIENEIARIKKLIG 
REMARK  
PARENT 1gcm_A 
K 10  R 1 
L 11  M 2 
R 12  K 3 
A 13  Q 4 
V 14  I 5 
E 15  E 6 
N 16  D 7 
E 17  K 8 
L 18  I 9 
H 19  E 10 
Y 20  E 11 
N 21  I 12 
K 22  L 13 
S 23  S 14 
L 24  K 15 
L 25  I 16 
E 26  Y 17 
E 27  H 18 
V 28  I 19 
K 29  E 20 
D 30  N 21 
E 31  E 22 
L 32  I 23 
Q 33  A 24 
K 34  R 25 
M 35  I 26 
R 36  K 27 
Q 37  K 28 
TER 
END 
