 
####################################################### 
#                                                     # 
#                        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: 23 , MODEL 23 , TARGET 88 
#          The number of residues possible to evaluate: 23 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP    97     K     H     C             1.00 
 SSP    98     F     H     C             1.00 
 SSP    99     C     C     H             1.00 
 SSP   100     M     C     H             1.00 
 SSP  BREAK 
 SSP   102     G     H     H             1.00 
 SSP   103     A     H     H             1.00 
 SSP   104     A     H     H             1.00 
 SSP   105     L     H     H             1.00 
 SSP   106     C     H     H             1.00 
 SSP   107     A     H     H             1.00 
 SSP   108     L     H     H             1.00 
 SSP   109     G     H     C             1.00 
 SSP  BREAK 
 SSP   123     D     H     C             1.00 
 SSP   124     I     H     C             1.00 
 SSP   125     L     H     C             1.00 
 SSP   126     W     H     C             1.00 
 SSP   127     E     H     C             1.00 
 SSP   128     H     H     C             1.00 
 SSP   129     L     H     H             1.00 
 SSP   130     E     H     H             1.00 
 SSP   131     I     H     H             1.00 
 SSP   132     L     H     H             1.00 
 SSP   133     Q     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              52.2      55.0      0.0     33.3     26.1 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        65.2      70.0    100.0     33.3     26.1 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            3              66.7               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      23    100.0     52.2 
 
 BIN  0.00 - 1.00      1.00      23    100.0     52.2 
 
 
 
 
              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 82 
 
# WARNING! TARGET 982 atoms, MODEL 792 atoms, 629 common with TARGET 
           Number of atoms possible to evaluate: 92 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    46.07           47.5    40    23.0   174     ARMSMC  
     SECONDARY STRUCTURE . .    29.00           54.5    33    38.4    86     ARMSMC  
     SURFACE . . . . . . . .    52.00           50.0    24    18.8   128     ARMSMC  
     BURIED  . . . . . . . .    35.35           43.8    16    34.8    46     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    76     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    70     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    35     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    60     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    16     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    60     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    48     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    28     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    47     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    13     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    25     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    20     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    12     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    25     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    10     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    10     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     3     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    10     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   97 - 100  4    Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     4     97 - 100      2.12     2.12 
  LCS LOCAL_SCORE:            100.00 
 
 FRAGMENT  2  102 - 109  8    Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     8    102 - 109      1.11     1.11 
  LCS LOCAL_SCORE:            100.00 
 
 FRAGMENT  3  123 - 133  11   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    11    123 - 133      1.32     1.32 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1   97 - 100  4    Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     3     97 - 99       0.20     3.69 
  LONGEST_CONTINUOUS_SEGMENT     3     98 - 100      0.49     3.94 
  LCS LOCAL_SCORE:             75.00 
 
 FRAGMENT  2  102 - 109  8    Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     8    102 - 109      1.11     1.11 
  LCS LOCAL_SCORE:            100.00 
 
 FRAGMENT  3  123 - 133  11   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    11    123 - 133      1.32     1.32 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1   97 - 100  4    Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     3     97 - 99       0.20     3.69 
  LCS LOCAL_SCORE:             75.00 
 
 FRAGMENT  2  102 - 109  8    Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     7    102 - 108      0.79     1.26 
  LONGEST_CONTINUOUS_SEGMENT     7    103 - 109      0.94     1.22 
  LCS LOCAL_SCORE:             87.50 
 
 FRAGMENT  3  123 - 133  11   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     9    124 - 132      0.95     1.45 
  LCS LOCAL_SCORE:             77.69 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS      97       K     3    3    4       H        3   3   3   4   4   4   5  10  10  11  13  14  15  17  18  18  21  22  22  22  
 LCS      98       F     3    3    4       H        3   3   3   4   4   5   7  10  10  11  17  17  19  19  21  21  21  22  22  22  
 LCS      99       C     3    3    4       C        3   3   4   6   7  11  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     100       M     3    3    4       C        0   3   4   6   9  11  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     101       S     0    0    0       C        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     102       G     7    8    8       H        3   4   7   9   9  11  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     103       A     7    8    8       H        5   6   7   9   9  10  11  13  13  14  14  15  19  20  21  21  21  22  22  22  
 LCS     104       A     7    8    8       H        5   6   7   9   9  10  11  13  13  14  14  15  19  20  21  21  21  22  22  22  
 LCS     105       L     7    8    8       H        5   6   7   9   9  10  11  13  13  15  18  18  19  20  21  21  21  22  22  22  
 LCS     106       C     7    8    8       H        5   6   7   9   9  10  11  13  13  15  18  18  19  20  21  21  21  22  22  22  
 LCS     107       A     7    8    8       H        5   6   7   9   9  10  11  13  13  14  14  15  15  17  18  18  21  21  21  22  
 LCS     108       L     7    8    8       H        3   6   7   9   9  10  11  13  13  14  14  15  15  17  18  18  19  19  20  21  
 LCS     109       G     7    8    8       H        3   4   5   9   9  10  11  13  13  14  14  15  15  17  18  18  19  19  21  22  
 LCS     110       K     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     111       E     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     112       C     0    0    0       C        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     113       F     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     114       L     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     115       E     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     116       L     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     117       A     0    0    0       C        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     118       P     0    0    0       C        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     119       D     0    0    0       C        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     120       F     0    0    0       C        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     121       V     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     122       G     0    0    0       H        0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0   0  
 LCS     123       D     6   11   11       H        3   4   6  10  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     124       I     9   11   11       H        5   9  10  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     125       L     9   11   11       H        3   9  10  11  12  12  12  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     126       W     9   11   11       H        3   5   7  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     127       E     9   11   11       H        4   9  10  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     128       H     9   11   11       H        4   9  10  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     129       L     9   11   11       H        5   9  10  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     130       E     9   11   11       H        5   9  10  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     131       I     9   11   11       H        5   9  10  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     132       L     9   11   11       H        5   9  10  11  12  12  13  14  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS     133       Q     7   11   11       C        3   7  10  11  12  12  12  13  15  15  18  18  19  20  21  21  21  22  22  22  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   2.09 
 
 NUMBER_OF_CA_Tg:   88      NUMBER_OF_CA_Pr:   23      PERCENT_OF_CA:  26.14  
 
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       5       8       9      10      11      11      12      13      14      14      16      16      17      18      19      19      19      20      20      20  
 GDT PERCENT_OF_CA_Pr   21.74   34.78   39.13   43.48   47.83   47.83   52.17   56.52   60.87   60.87   69.57   69.57   73.91   78.26   82.61   82.61   82.61   86.96   86.96   86.96 
 GDT PERCENT_OF_CA_Tg    5.68    9.09   10.23   11.36   12.50   12.50   13.64   14.77   15.91   15.91   18.18   18.18   19.32   20.45   21.59   21.59   21.59   22.73   22.73   22.73 
 GDT FRAGMENT: Beg-End 103-107 124-132 124-133 124-133 123-133 123-133  99-132  99-132  99-133  99-133  99-133  99-133  99-133  99-133  98-133  98-133  98-133  97-133  97-133  97-133 
 GDT RMS_LOCAL           0.26    0.63    0.75    1.04    1.32    1.32    2.56    2.75    2.94    2.94    3.66    3.66    3.93    4.15    4.48    4.48    4.48    4.89    4.89    4.89 
 GDT RMS_ALL_CA         11.69   14.56   14.82   14.95   14.88   14.88    7.35    7.41    7.40    7.40    6.87    6.87    6.90    6.85    6.84    6.84    6.84    6.88    6.88    6.88 
 
 
 TEST (CA)  RMS =   6.57               (Number of atoms:   23) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    6.57         23    26.1    88     CRMSCA  
     CRN = ALL/NP  . . . . .    0.2856                            CRMSCA  
     SECONDARY STRUCTURE . .    6.58         18    41.9    43     CRMSCA  
     SURFACE . . . . . . . .    6.75         14    21.5    65     CRMSCA  
     BURIED  . . . . . . . .    6.27          9    39.1    23     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    6.41         92    21.2   434     CRMSMC  
     SECONDARY STRUCTURE . .    6.46         72    34.1   211     CRMSMC  
     SURFACE . . . . . . . .    6.66         56    17.3   323     CRMSMC  
     BURIED  . . . . . . . .    5.99         36    32.4   111     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   630     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   580     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   302     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   460     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   170     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    6.41         92     9.4   982     CRMSALL 
     SECONDARY STRUCTURE . .    6.46         72    15.2   474     CRMSALL 
     SURFACE . . . . . . . .    6.66         56     7.8   720     CRMSALL 
     BURIED  . . . . . . . .    5.99         36    13.7   262     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 . . . . . . . . . .    5.786      1.000       0.500     23    26.1    88     ERRCA  
     SECONDARY STRUCTURE . .    5.751      1.000       0.500     18    41.9    43     ERRCA  
     SURFACE . . . . . . . .    5.809      1.000       0.500     14    21.5    65     ERRCA  
     BURIED  . . . . . . . .    5.750      1.000       0.500      9    39.1    23     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    5.550      1.000       0.500     92    21.2   434     ERRMC  
     SECONDARY STRUCTURE . .    5.493      1.000       0.500     72    34.1   211     ERRMC  
     SURFACE . . . . . . . .    5.697      1.000       0.500     56    17.3   323     ERRMC  
     BURIED  . . . . . . . .    5.321      1.000       0.500     36    32.4   111     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   630     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   580     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   302     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   460     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   170     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    5.550      1.000       0.500     92     9.4   982     ERRALL 
     SECONDARY STRUCTURE . .    5.493      1.000       0.500     72    15.2   474     ERRALL 
     SURFACE . . . . . . . .    5.697      1.000       0.500     56     7.8   720     ERRALL 
     BURIED  . . . . . . . .    5.321      1.000       0.500     36    13.7   262     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         1         4        12        20      23      88   DISTCA 
CA  (P)      0.00      1.14      4.55     13.64     22.73              88   DISTCA 
CA  (RMS)    0.00      1.36      2.53      3.47      5.31                   DISTCA 
 
ALL (N)         0         5        24        49        81      92     982   DISTALL 
ALL (P)      0.00      0.51      2.44      4.99      8.25             982   DISTALL 
ALL (RMS)    0.00      1.51      2.44      3.31      5.08                   DISTALL 
 
 
 
 
END of the results output 
