 
####################################################### 
#                                                     # 
#                        ACE                          # 
#                                                     # 
#        Ab-initio protein structure prediction       # 
#                         &                           # 
#               Comparative modeling                  # 
#                                                     # 
#                     Evaluator                       # 
#                                                     # 
#                ----------------- 11/1998            # 
#                                                     # 
#                         by                          # 
#           Adam Zemla & Ceslovas Venclovas           # 
#                                                     # 
#         Protein Structure Prediction Center         # 
#      Lawrence Livermore National Laboratory, CA     # 
#                                                     # 
####################################################### 
########################## 
#                        # 
#    ACE parameters:     # 
#                        # 
########################## 
# 
# MEASURES: 
# 
# For AB: 0 3 9 13 14 
# For CM: 0 1 2 3 6 7 8 9 10 11 12 13 14 18 
# 
ARMSMC  0 1 2     7 8 9    11 12 13 14 18 
ARMSSC  0 1 2 3 6 7 8 9    11 12 13 14 18 
# 
CRMSCA  0 1 2     7 8 9 10 11 12 13 14 18 
CRMSMC  0 1 2     7 8 9 10 11 12 13 14 18 
CRMSSC  0 1 2 3 6     9    11 12 13 14 18 
CRMSALL 0 1 2     7 8 9    11 12 13 14 18 
# 
D-E_CA  0 1 2     7 8 9    11 12 13 14 18 
D-E_MC  0 1 2     7 8 9    11 12 13 14 18 
D-E_SC  0 1 2 3 6 7 8 9    11 12 13 14 18 
D-E_ALL 0 1 2     7 8 9    11 12 13 14 18 
# 
# Output parameters 
# 
DIHED-OUTPUT        0         #    1 - ON, 0 - OFF 
RES-CONTACTS        0         #    1 - ON, 0 - OFF 
SS-OUTPUT           1         #    1 - ON, 0 - OFF 
PHI-PSI             0         #    1 - SEPARATELY, 0 - NO  
# 
# Calculation parameters 
# 
SOV-METHOD          1         #    0 - SOV 94,  1 - SOV 
# 
TEMP-FACTOR         30.0      #    Target structure temperature factor cutoff 
ACCESS-CUTOFF       0.20      #    Solvent accessibility cutoff   
ANGLES-CORRECT      30.0      #    target-model  (diff < 30.0)    
DSSP-HELIX          6         #    Secondary Structure subset: helix cutoff  
DSSP-STRAND         3         #    Secondary Structure subset: strand cutoff 
ROTAMERS-LIMIT      30.0      #    target-parent (diff > 30.0) 
ROTATION-MATRIX     0         #    1 - ON, 0 - OFF   
SC-SWAPPING         1         #    1 - ON, 0 - OFF    
SEP-CONTACTS        1         #    Separation interval along the chain 
RESIDUE-CONTACTS    8.0       #    Contact definition between two C-beta atoms 
# 
CRMS-METHOD         1         #    0 - ALL, 1 - CA, 2 - MC+CB, 3 - CA (iter)  
ITER-CUTOFF         2.5       #    DISTANCE cutoff (for CA (iter))  
LCS_GDT             1         #    LCS and GDT calculations (1 - ON, 0 - OFF) 
########################## 
#                        # 
#      ACE results:      # 
#                        # 
########################## 
 
 
 
# WARNING! The number of residues in SS section: 14 , MODEL 14 , TARGET 47 
#          The number of residues possible to evaluate: 14 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP     2     L     H     C             1.00 
 SSP     3     A     H     H             1.00 
 SSP     4     A     H     H             1.00 
 SSP     5     L     H     H             1.00 
 SSP     6     K     H     H             1.00 
 SSP     7     S     H     H             1.00 
 SSP     8     E     H     H             1.00 
 SSP     9     L     H     H             1.00 
 SSP    10     Q     H     H             1.00 
 SSP    11     A     H     H             1.00 
 SSP    12     L     H     H             1.00 
 SSP    13     K     H     H             1.00 
 SSP    14     K     H     H             1.00 
 SSP    15     E     C     C             1.00 
 SSP  BREAK 
 
 NP      - Number of predicted residues 
 PP      - Percent of predicted residues 
 Q3      - Residues predicted correctly (H, E, C) 
 Qhelix  - Residues predicted correctly (HELIX) 
 Qstrand - Residues predicted correctly (STRAND) 
 Qcoil   - Residues predicted correctly (COIL) 
 SOV     - Segment overlap quantity 
 
                     Q3      Qhelix   Qstrand   Qcoil      PP 
 Qindex              92.9      92.3      0.0    100.0     29.8 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed       100.0     100.0    100.0    100.0     29.8 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            1             100.0               0.0 
 
         Number of wrong    Number of wrong 
             breaks             joins 
 B/J            0                 0 
 
  CONFIDENCE (P)     Average     NP    PP/BIN     Q3 
 BIN  0.90 - 1.00      1.00      14    100.0     92.9 
 
 BIN  0.00 - 1.00      1.00      14    100.0     92.9 
 
 
 
 
              predicted        number of target      total number   total number 
                as a         contacts possible in         of             of 
               contact         predicted subset:       contacts       contacts 
            percent  number    percent    number       in target    in prediction 
 CONTACTS:     0.0      0         0.0        0             0              0 
 
 
# WARNING! The number of residues with CB atom coordinates: MODEL 0 , TARGET 46 
 
# WARNING! TARGET 358 atoms, MODEL 308 atoms, 307 common with TARGET 
           Number of atoms possible to evaluate: 56 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    11.30          100.0    26    27.7    94     ARMSMC  
     SECONDARY STRUCTURE . .    10.99          100.0    25    30.5    82     ARMSMC  
     SURFACE . . . . . . . .    11.17          100.0    24    27.6    87     ARMSMC  
     BURIED  . . . . . . . .    12.78          100.0     2    28.6     7     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    37     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    37     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    32     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    34     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    32     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    20     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    29     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    29     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    18     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    15     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    16     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    18     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0     8     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0     8     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     7     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0     8     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1    2 - 15   14   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    14      2 - 15       0.42     0.42 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1    2 - 15   14   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    14      2 - 15       0.42     0.42 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1    2 - 15   14   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    14      2 - 15       0.42     0.42 
  LCS LOCAL_SCORE:            100.00 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS       2       L    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS       3       A    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS       4       A    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS       5       L    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS       6       K    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS       7       S    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS       8       E    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS       9       L    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS      10       Q    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS      11       A    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS      12       L    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS      13       K    14   14   14       H       25  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS      14       K    14   14   14       H       22  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS      15       E    14   14   14       C       14  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  29  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   8.51 
 
 NUMBER_OF_CA_Tg:   48      NUMBER_OF_CA_Pr:   14      PERCENT_OF_CA:  29.17  
 
GLOBAL_DISTANCE_TEST (the largest set of residues under DISTANCE_CUTOFF (using LCS results)): 
 GDT DISTANCE_CUTOFF     0.50    1.00    1.50    2.00    2.50    3.00    3.50    4.00    4.50    5.00    5.50    6.00    6.50    7.00    7.50    8.00    8.50    9.00    9.50   10.00  
 GDT NUMBER_OF_CA_max      12      14      14      14      14      14      14      14      14      14      14      14      14      14      14      14      14      14      14      14  
 GDT PERCENT_OF_CA_Pr   85.71  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00 
 GDT PERCENT_OF_CA_Tg   25.00   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17   29.17 
 GDT FRAGMENT: Beg-End   2-13    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15    2-15  
 GDT RMS_LOCAL           0.32    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42 
 GDT RMS_ALL_CA          0.48    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42    0.42 
 
 
 TEST (CA)  RMS =   0.42               (Number of atoms:   14) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    0.42         14    29.2    48     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0302                            CRMSCA  
     SECONDARY STRUCTURE . .    0.38         13    31.7    41     CRMSCA  
     SURFACE . . . . . . . .    0.44         13    29.5    44     CRMSCA  
     BURIED  . . . . . . . .    0.06          1    25.0     4     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    0.51         56    23.6   237     CRMSMC  
     SECONDARY STRUCTURE . .    0.39         52    25.4   205     CRMSMC  
     SURFACE . . . . . . . .    0.52         52    23.7   219     CRMSMC  
     BURIED  . . . . . . . .    0.33          4    22.2    18     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   167     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   137     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   146     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   155     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0    12     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    0.51         56    15.6   358     CRMSALL 
     SECONDARY STRUCTURE . .    0.39         52    16.8   310     CRMSALL 
     SURFACE . . . . . . . .    0.52         52    15.7   331     CRMSALL 
     BURIED  . . . . . . . .    0.33          4    14.8    27     CRMSALL 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.369      1.000       0.500     14    29.2    48     ERRCA  
     SECONDARY STRUCTURE . .    0.335      1.000       0.500     13    31.7    41     ERRCA  
     SURFACE . . . . . . . .    0.392      1.000       0.500     13    29.5    44     ERRCA  
     BURIED  . . . . . . . .    0.064      1.000       0.500      1    25.0     4     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.401      1.000       0.500     56    23.6   237     ERRMC  
     SECONDARY STRUCTURE . .    0.346      1.000       0.500     52    25.4   205     ERRMC  
     SURFACE . . . . . . . .    0.415      1.000       0.500     52    23.7   219     ERRMC  
     BURIED  . . . . . . . .    0.221      1.000       0.500      4    22.2    18     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.000      0.000       0.000      0     0.0   167     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   137     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   146     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   155     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0    12     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.401      1.000       0.500     56    15.6   358     ERRALL 
     SECONDARY STRUCTURE . .    0.346      1.000       0.500     52    16.8   310     ERRALL 
     SURFACE . . . . . . . .    0.415      1.000       0.500     52    15.7   331     ERRALL 
     BURIED  . . . . . . . .    0.221      1.000       0.500      4    14.8    27     ERRALL 
 
 
 
DISTANCES: Percent of total atoms where distance (target <-> model) in global 
           superposition is less than: 1 , 2 , 3 , 5 , 10 Angstroms 
            D < 1     D < 2     D < 3     D < 5    D < 10      NP      TN 
CA  (N)        14        14        14        14        14      14      48   DISTCA 
CA  (P)     29.17     29.17     29.17     29.17     29.17              48   DISTCA 
CA  (RMS)    0.42      0.42      0.42      0.42      0.42                   DISTCA 
 
ALL (N)        54        55        56        56        56      56     358   DISTALL 
ALL (P)     15.08     15.36     15.64     15.64     15.64             358   DISTALL 
ALL (RMS)    0.40      0.43      0.51      0.51      0.51                   DISTALL 
 
 
 
 
END of the results output 
