PFRMAT AL 
TARGET T0059 
AUTHOR 6795-8227-6214 
REMARK CASP3 Prediction by Michael Bass on 8/17/98 
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 "t0059" has a significant match 
REMARK pdb1ubi       6.091     0.271    19.203  UBIQUITIN 
REMARK                                          SCOP: A+B; beta-Grasp 
REMARK pdb1bov_A     5.659     0.255     9.284  VEROTOXIN-1 (B-OLIGOMER, ALSO CALLED SHIGA-LIKE TOXIN-1) 
REMARK                                          SCOP: Beta; OB-fold 
REMARK pdb1ptf       5.487     0.249     5.835  HISTIDINE-CONTAINING PHOSPHOCARRIER PROTEIN (HPR) 
REMARK                                          SCOP: A+B; Histidine-containing phosphocarrier proteins (HPr) 
REMARK pdb1who       5.113     0.236     3.993  MOLECULE: ALLERGEN PHL P 2; 
REMARK                                          SCOP: Beta; C2 domain-like 
REMARK pdb1orc       4.490     0.213    11.356  MOLECULE: CRO REPRESSOR INSERTION MUTANT K56-[DGEVK]; 
REMARK                                          SCOP: Alpha; lambda repressor-like DNA-binding domains 
REMARK pdb1plc       4.338     0.208     2.246  PLASTOCYANIN (CU2+, PH 6.0) 
REMARK                                          SCOP: Beta; Cupredoxins 
REMARK pdb1pch       4.232     0.204     8.603  MOLECULE: PHOSPHOCARRIER PROTEIN; 
REMARK                                          SCOP: A+B; Histidine-containing phosphocarrier proteins (HPr) 
REMARK pdb1jpc       4.132     0.200     3.881  MOLECULE: AGGLUTININ; 
REMARK                                          SCOP: Beta; beta-Prism II 
REMARK                                          SCOP: Beta; beta-Prism II 
REMARK pdb1gua_B     3.916     0.192     4.497  MOLECULE: RAP1A; 
REMARK                                          SCOP: A+B; beta-Grasp 
REMARK pdb2hpe_A     3.815     0.189    12.865  HIV-2 PROTEASE MUTANT WITH LYS 57 REPLACED BY LEU (K57L) 
MODEL  1 
REMARK Sequence alignment follows: 
REMARK t0059        MSIGVPIKV.LHEAEGHIVTCETNTGEVYRGKLIE.AEDNMNCQMSNITV 
REMARK                    ::| |   :|..|.::: : ::   :| | |::  .:  ....| 
REMARK pdb1ubi      ......MQIFVKTLTGKTITLEV.EPSDTIENVKAKIQDKEGIPPDQQRL 
REMARK  
REMARK t0059        TYRDGRV...AQLEQVYIR.GSKIRFLILPD.. 
REMARK              .|::  |   . |::.#|  |..| |..#||   
REMARK pdb1ubi      IFAGKQLEDGRTLSDYNIQKESTLHLVLRLRGG 
REMARK  
PARENT 1ubi 
I 7  M 1 
K 8  Q 2 
V 9  I 3 
L 10  V 5 
H 11  K 6 
E 12  T 7 
A 13  L 8 
E 14  T 9 
G 15  G 10 
H 16  K 11 
I 17  T 12 
V 18  I 13 
T 19  T 14 
C 20  L 15 
E 21  E 16 
T 22  V 17 
T 24  E 18 
G 25  P 19 
E 26  S 20 
V 27  D 21 
Y 28  T 22 
R 29  I 23 
G 30  E 24 
K 31  N 25 
L 32  V 26 
I 33  K 27 
E 34  A 28 
A 35  I 30 
E 36  Q 31 
D 37  D 32 
N 38  K 33 
M 39  E 34 
N 40  G 35 
C 41  I 36 
Q 42  P 37 
M 43  P 38 
S 44  D 39 
N 45  Q 40 
I 46  Q 41 
T 47  R 42 
V 48  L 43 
T 49  I 44 
Y 50  F 45 
R 51  A 46 
D 52  G 47 
G 53  K 48 
R 54  Q 49 
V 55  L 50 
A 56  R 54 
Q 57  T 55 
L 58  L 56 
E 59  S 57 
Q 60  D 58 
V 61  Y 59 
Y 62  N 60 
I 63  I 61 
R 64  Q 62 
G 65  E 64 
S 66  S 65 
K 67  T 66 
I 68  L 67 
R 69  H 68 
F 70  L 69 
L 71  V 70 
I 72  L 71 
L 73  R 72 
P 74  L 73 
D 75  R 74 
TER 
END 
