 
####################################################### 
#                                                     # 
#                        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: 20 , MODEL 20 , TARGET 340 
#          The number of residues possible to evaluate: 20 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   127     E     H     C             1.00 
 SSP   128     A     H     C             1.00 
 SSP   129     L     C     C             1.00 
 SSP   130     G     C     C             1.00 
 SSP   131     K     C     C             1.00 
 SSP   132     K     C     C             1.00 
 SSP   133     Y     E     C             1.00 
 SSP   134     I     E     C             1.00 
 SSP   135     R     E     C             1.00 
 SSP   136     V     E     C             1.00 
 SSP   137     V     C     C             1.00 
 SSP   138     S     C     C             1.00 
 SSP   139     C     H     C             1.00 
 SSP   140     N     H     C             1.00 
 SSP   141     T     H     H             1.00 
 SSP   142     T     H     H             1.00 
 SSP   143     A     H     H             1.00 
 SSP   144     L     H     C             1.00 
 SSP   145     L     H     C             1.00 
 SSP   146     R     H     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              45.0      30.0      0.0    100.0      5.9 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        30.7      40.0      0.0     35.7      5.9 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            3              33.3               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      20    100.0     45.0 
 
 BIN  0.00 - 1.00      1.00      20    100.0     45.0 
 
 
 
 
              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 325 
 
# WARNING! TARGET 2622 atoms, MODEL 2559 atoms, 2547 common with TARGET 
           Number of atoms possible to evaluate: 80 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    74.54           52.6    38     5.6   678     ARMSMC  
     SECONDARY STRUCTURE . .    74.51           46.2    26     6.8   380     ARMSMC  
     SURFACE . . . . . . . .    61.32           72.7    11     3.4   320     ARMSMC  
     BURIED  . . . . . . . .    79.29           44.4    27     7.5   358     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   292     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   256     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   164     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   144     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   148     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   213     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   168     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   119     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   119     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    94     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    82     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    73     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    44     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    59     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    23     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    43     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    43     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    21     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    33     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    10     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1  127 - 146  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    16    127 - 142      4.79     9.72 
  LCS LOCAL_SCORE:             77.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  127 - 146  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    12    127 - 138      1.81    11.74 
  LCS LOCAL_SCORE:             49.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  127 - 146  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     8    128 - 135      0.77    13.35 
  LCS LOCAL_SCORE:             30.00 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     127       E     3   12   16       H        0   0   0   1   3   3   3   3   3   3   3   3   4   4   4   4   4   5   5   5  
 LCS     128       A     8   12   16       H        1   2   2   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     129       L     8   12   16       C        1   2   2   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     130       G     8   12   16       C        1   2   2   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     131       K     8   12   16       C        1   2   2   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     132       K     8   12   16       C        1   2   2   2   3   3   3   3   3   3   3   3   4   4   4   4   4   5   5   5  
 LCS     133       Y     8   12   16       E        1   2   2   2   3   3   3   3   3   3   3   3   4   4   4   4   5   5   5   5  
 LCS     134       I     8   12   16       E        1   2   2   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     135       R     8   12   16       E        1   1   2   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     136       V     6   12   16       E        1   1   1   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     137       V     6   12   16       C        1   1   1   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     138       S     6   12   16       C        1   1   1   2   3   3   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     139       C     4    7   16       H        0   0   1   2   2   2   3   3   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     140       N     5    7   16       H        1   1   1   2   2   2   2   2   2   3   3   4   4   5   5   5   5   5   5   5  
 LCS     141       T     5    7   16       H        1   1   1   2   2   2   2   2   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     142       T     5    7   16       H        1   1   1   2   2   2   2   2   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     143       A     5    7   13       H        1   1   1   2   2   2   2   2   2   3   3   4   4   5   5   5   5   5   5   5  
 LCS     144       L     5    7   13       H        1   1   1   2   2   2   2   2   2   3   3   4   4   5   5   5   5   5   5   5  
 LCS     145       L     3    7   13       H        0   0   0   1   1   1   2   2   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS     146       R     3    3   13       H        0   0   0   0   1   1   2   2   3   3   3   4   4   5   5   5   5   5   5   5  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.10 
 
 NUMBER_OF_CA_Tg:  340      NUMBER_OF_CA_Pr:   20      PERCENT_OF_CA:   5.88  
 
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       6       7       8      10      12      12      12      13      13      13      13      14      16      17      17      17      17      18      18      19  
 GDT PERCENT_OF_CA_Pr   30.00   35.00   40.00   50.00   60.00   60.00   60.00   65.00   65.00   65.00   65.00   70.00   80.00   85.00   85.00   85.00   85.00   90.00   90.00   95.00 
 GDT PERCENT_OF_CA_Tg    1.76    2.06    2.35    2.94    3.53    3.53    3.53    3.82    3.82    3.82    3.82    4.12    4.71    5.00    5.00    5.00    5.00    5.29    5.29    5.59 
 GDT FRAGMENT: Beg-End 128-134 128-134 128-135 128-138 127-138 127-138 127-138 127-139 127-139 127-139 127-139 128-146 128-146 128-146 128-146 128-146 128-146 128-146 127-146 128-146 
 GDT RMS_LOCAL           0.34    0.51    0.77    1.50    1.81    1.81    1.81    2.22    2.22    2.22    2.22    4.34    4.80    5.00    5.00    5.00    5.00    5.50    5.50    6.02 
 GDT RMS_ALL_CA         14.10   14.06   13.35   12.10   11.74   11.74   11.74   11.38   11.38   11.38   11.38    7.06    6.76    6.63    6.63    6.63    6.63    6.58    6.77    6.63 
 
 
 TEST (CA)  RMS =   6.56               (Number of atoms:   20) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    6.56         20     5.9   340     CRMSCA  
     CRN = ALL/NP  . . . . .    0.3279                            CRMSCA  
     SECONDARY STRUCTURE . .    6.38         14     7.4   190     CRMSCA  
     SURFACE . . . . . . . .    8.54          6     3.7   161     CRMSCA  
     BURIED  . . . . . . . .    5.50         14     7.8   179     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    6.39         80     4.7  1685     CRMSMC  
     SECONDARY STRUCTURE . .    6.09         56     5.9   947     CRMSMC  
     SURFACE . . . . . . . .    8.38         24     3.0   797     CRMSMC  
     BURIED  . . . . . . . .    5.30         56     6.3   888     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0  1262     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0  1070     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   734     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   636     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   626     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    6.39         80     3.1  2622     CRMSALL 
     SECONDARY STRUCTURE . .    6.09         56     3.7  1494     CRMSALL 
     SURFACE . . . . . . . .    8.38         24     1.9  1280     CRMSALL 
     BURIED  . . . . . . . .    5.30         56     4.2  1342     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 . . . . . . . . . .    5.957      1.000       0.500     20     5.9   340     ERRCA  
     SECONDARY STRUCTURE . .    5.802      1.000       0.500     14     7.4   190     ERRCA  
     SURFACE . . . . . . . .    7.872      1.000       0.500      6     3.7   161     ERRCA  
     BURIED  . . . . . . . .    5.136      1.000       0.500     14     7.8   179     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    5.757      1.000       0.500     80     4.7  1685     ERRMC  
     SECONDARY STRUCTURE . .    5.527      1.000       0.500     56     5.9   947     ERRMC  
     SURFACE . . . . . . . .    7.594      1.000       0.500     24     3.0   797     ERRMC  
     BURIED  . . . . . . . .    4.969      1.000       0.500     56     6.3   888     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  1262     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0  1070     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   734     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   636     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   626     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    5.757      1.000       0.500     80     3.1  2622     ERRALL 
     SECONDARY STRUCTURE . .    5.527      1.000       0.500     56     3.7  1494     ERRALL 
     SURFACE . . . . . . . .    7.594      1.000       0.500     24     1.9  1280     ERRALL 
     BURIED  . . . . . . . .    4.969      1.000       0.500     56     4.2  1342     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)         0         0         1         9        17      20     340   DISTCA 
CA  (P)      0.00      0.00      0.29      2.65      5.00             340   DISTCA 
CA  (RMS)    0.00      0.00      2.80      3.96      5.09                   DISTCA 
 
ALL (N)         2         3         8        41        71      80    2622   DISTALL 
ALL (P)      0.08      0.11      0.31      1.56      2.71            2622   DISTALL 
ALL (RMS)    0.87      1.31      2.27      3.92      5.28                   DISTALL 
 
 
 
 
END of the results output 
