 
####################################################### 
#                                                     # 
#                        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: 42 , MODEL 42 , TARGET 135 
#          The number of residues possible to evaluate: 42 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP    38     S     E     C             1.00 
 SSP    39     K     C     C             1.00 
 SSP    40     T     C     C             1.00 
 SSP    41     G     C     C             1.00 
 SSP    42     K     C     C             1.00 
 SSP    43     H     C     C             1.00 
 SSP    44     G     C     C             1.00 
 SSP    45     S     C     C             1.00 
 SSP    46     A     C     C             1.00 
 SSP    47     K     E     C             1.00 
 SSP    48     A     E     E             1.00 
 SSP    49     R     E     C             1.00 
 SSP    50     I     E     C             1.00 
 SSP    51     V     E     C             1.00 
 SSP    52     A     E     E             1.00 
 SSP    53     V     E     E             1.00 
 SSP    54     G     E     E             1.00 
 SSP    55     V     C     E             1.00 
 SSP    56     F     C     E             1.00 
 SSP    57     D     C     E             1.00 
 SSP    58     G     C     C             1.00 
 SSP    59     G     C     C             1.00 
 SSP    60     K     E     E             1.00 
 SSP    61     R     E     E             1.00 
 SSP    62     T     E     E             1.00 
 SSP    63     L     E     E             1.00 
 SSP    64     S     E     E             1.00 
 SSP    65     L     E     C             1.00 
 SSP    66     P     E     C             1.00 
 SSP    67     V     C     E             1.00 
 SSP    68     D     C     C             1.00 
 SSP    69     A     C     C             1.00 
 SSP    70     Q     E     C             1.00 
 SSP    71     V     E     C             1.00 
 SSP    72     E     E     C             1.00 
 SSP    73     V     E     C             1.00 
 SSP    74     P     C     C             1.00 
 SSP    75     I     C     C             1.00 
 SSP    76     I     C     C             1.00 
 SSP    77     E     E     C             1.00 
 SSP    78     K     E     C             1.00 
 SSP    79     F     E     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              57.1       0.0     39.1     78.9     31.1 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        50.1     100.0     39.9     66.8     31.1 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            5              40.0               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      42    100.0     57.1 
 
 BIN  0.00 - 1.00      1.00      42    100.0     57.1 
 
 
 
 
              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 124 
 
# WARNING! TARGET 1057 atoms, MODEL 938 atoms, 915 common with TARGET 
           Number of atoms possible to evaluate: 168 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    70.57           48.8    82    30.6   268     ARMSMC  
     SECONDARY STRUCTURE . .    52.96           52.3    44    30.1   146     ARMSMC  
     SURFACE . . . . . . . .    73.57           50.8    59    32.1   184     ARMSMC  
     BURIED  . . . . . . . .    62.19           43.5    23    27.4    84     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   115     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    96     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    69     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    79     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    36     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    83     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    75     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    47     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    60     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    23     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    43     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    39     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    25     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    40     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    21     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    21     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    11     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    20     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     1     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1   38 - 79   42   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    25     39 - 63       4.86    11.67 
  LONGEST_CONTINUOUS_SEGMENT    25     46 - 70       4.71    14.64 
  LCS LOCAL_SCORE:             53.85 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1   38 - 79   42   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    11     41 - 51       1.97    13.09 
  LCS LOCAL_SCORE:             23.13 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1   38 - 79   42   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     8     59 - 66       0.80    18.05 
  LCS LOCAL_SCORE:             13.61 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS      38       S     3    4   18       E        2   2   2   2   2   2   3   4   4   4   4   5   5   5   5   8   8   8  22  22  
 LCS      39       K     4    4   25       C        2   2   2   2   2   2   3   5   7  12  17  18  20  22  22  22  23  24  25  25  
 LCS      40       T     4   10   25       C        2   3   4   5   6   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      41       G     4   11   25       C        2   2   4   5   7   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      42       K     4   11   25       C        2   3   4   5   7   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      43       H     4   11   25       C        2   2   3   5   5   8  10  11  11  13  14  15  18  19  20  22  23  24  25  25  
 LCS      44       G     5   11   25       C        2   3   4   5   7   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      45       S     5   11   25       C        2   2   4   5   7   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      46       A     7   11   25       C        2   3   5   5   7   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      47       K     7   11   25       E        2   3   5   5   6   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      48       A     7   11   25       E        2   3   5   5   7   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      49       R     7   11   25       E        2   3   5   5   7   9  10  11  11  13  15  18  19  22  22  22  23  24  25  25  
 LCS      50       I     7   11   25       E        2   3   5   5   7   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      51       V     7   11   25       E        2   3   5   5   7   9  10  11  11  13  14  14  18  19  20  21  23  24  25  25  
 LCS      52       A     7   10   25       E        2   3   5   5   7   9  10  11  11  14  14  18  20  22  22  22  23  24  25  25  
 LCS      53       V     4   10   25       E        2   2   3   4   5   7   8   9  11  14  16  18  20  22  22  22  23  24  25  25  
 LCS      54       G     4   10   25       E        2   2   4   5   6   7   8  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      55       V     4   10   25       C        2   2   5   5   6   7   8   9  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      56       F     4    6   25       C        2   2   3   4   5   7   7   9  11  13  17  18  20  22  22  22  23  24  25  25  
 LCS      57       D     4    5   25       C        2   2   2   3   5   6   8   9  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      58       G     4    9   25       C        2   2   3   4   5   6   8   9  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      59       G     8   10   25       C        3   5   5   5   6   7   8   9  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      60       K     8   10   25       E        3   5   5   5   6   7   8  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      61       R     8   10   25       E        3   5   5   5   6   7   8  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      62       T     8   10   25       E        3   5   5   5   6   7   8  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      63       L     8   10   25       E        3   5   5   5   6   9  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      64       S     8   10   25       E        3   5   5   5   6   7   8   9  11  13  14  17  18  22  22  22  23  24  25  25  
 LCS      65       L     8   10   25       E        3   5   5   5   5   7   8  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      66       P     8   10   25       E        3   5   5   5   6   7   8   9  11  14  16  18  20  22  22  22  23  24  25  25  
 LCS      67       V     4   10   25       C        2   2   2   5   6   8  10  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      68       D     4   10   25       C        2   2   5   5   6   7   8  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      69       A     5   10   25       C        2   2   4   5   6   7   7   8   8   9  15  18  20  22  22  22  23  24  25  25  
 LCS      70       Q     6   10   25       E        2   3   4   5   6   7   8  11  11  14  17  18  20  22  22  22  23  24  25  25  
 LCS      71       V     6   10   15       E        2   3   4   5   6   7   7   8   8   8   9  13  14  17  20  20  22  24  25  25  
 LCS      72       E     6   10   15       E        2   3   4   5   6   7   7   8   8   8   9   9  11  15  16  17  22  22  25  25  
 LCS      73       V     6   10   15       E        2   4   4   5   6   7   7   8   8   8   9   9  11  12  14  17  18  20  21  25  
 LCS      74       P     6   10   15       C        2   4   4   5   6   7   7   8   8   8   9   9  11  12  14  16  17  20  21  22  
 LCS      75       I     6   10   15       C        2   4   4   5   6   7   7   8   8   8   9   9  11  12  14  17  18  20  21  22  
 LCS      76       I     6   10   15       C        2   4   4   5   6   7   7   8   8   8   9   9  11  12  14  17  18  20  21  22  
 LCS      77       E     6   10   14       E        2   4   4   5   6   7   7   8   8   8   9   9  11  12  14  17  18  20  21  22  
 LCS      78       K     6   10   14       E        2   4   4   5   6   7   7   8   8   8   9   9  10  12  14  17  17  20  21  22  
 LCS      79       F     3    9   14       E        2   2   2   4   4   6   7   8   8   8   8   8   9  10  10  11  17  19  20  22  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   1.32 
 
 NUMBER_OF_CA_Tg:  135      NUMBER_OF_CA_Pr:   42      PERCENT_OF_CA:  31.11  
 
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       7       8       8      10      13      14      15      16      19      23      25      27      30      30      31      32      33      34      34  
 GDT PERCENT_OF_CA_Pr   11.90   16.67   19.05   19.05   23.81   30.95   33.33   35.71   38.10   45.24   54.76   59.52   64.29   71.43   71.43   73.81   76.19   78.57   80.95   80.95 
 GDT PERCENT_OF_CA_Tg    3.70    5.19    5.93    5.93    7.41    9.63   10.37   11.11   11.85   14.07   17.04   18.52   20.00   22.22   22.22   22.96   23.70   24.44   25.19   25.19 
 GDT FRAGMENT: Beg-End  59-66   59-66   59-66   59-66   41-52   40-63   40-63   40-67   40-67   40-70   39-70   39-70   39-70   39-70   39-70   39-70   39-70   39-71   39-72   39-72  
 GDT RMS_LOCAL           0.31    0.50    0.80    0.80    1.79    2.21    2.35    2.62    2.79    3.59    4.23    4.39    4.60    4.95    4.95    5.14    5.35    5.55    5.83    5.83 
 GDT RMS_ALL_CA         18.31   18.23   18.05   18.05   12.57   12.66   12.75   13.13   13.44   13.85   13.64   13.44   13.81   13.81   13.81   13.77   13.65   13.51   13.17   13.17 
 
 
 TEST (CA)  RMS =  10.25               (Number of atoms:   42) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   10.25         42    31.1   135     CRMSCA  
     CRN = ALL/NP  . . . . .    0.2440                            CRMSCA  
     SECONDARY STRUCTURE . .   10.62         23    31.5    73     CRMSCA  
     SURFACE . . . . . . . .   10.19         30    32.3    93     CRMSCA  
     BURIED  . . . . . . . .   10.38         12    28.6    42     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   10.31        168    25.3   664     CRMSMC  
     SECONDARY STRUCTURE . .   10.71         92    25.3   364     CRMSMC  
     SURFACE . . . . . . . .   10.33        120    26.4   455     CRMSMC  
     BURIED  . . . . . . . .   10.25         48    23.0   209     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   517     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   453     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   305     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   362     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   155     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   10.31        168    15.9  1057     CRMSALL 
     SECONDARY STRUCTURE . .   10.71         92    15.4   597     CRMSALL 
     SURFACE . . . . . . . .   10.33        120    16.3   734     CRMSALL 
     BURIED  . . . . . . . .   10.25         48    14.9   323     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 . . . . . . . . . .    9.302      1.000       0.500     42    31.1   135     ERRCA  
     SECONDARY STRUCTURE . .    9.240      1.000       0.500     23    31.5    73     ERRCA  
     SURFACE . . . . . . . .    9.455      1.000       0.500     30    32.3    93     ERRCA  
     BURIED  . . . . . . . .    8.919      1.000       0.500     12    28.6    42     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    9.311      1.000       0.500    168    25.3   664     ERRMC  
     SECONDARY STRUCTURE . .    9.275      1.000       0.500     92    25.3   364     ERRMC  
     SURFACE . . . . . . . .    9.550      1.000       0.500    120    26.4   455     ERRMC  
     BURIED  . . . . . . . .    8.712      1.000       0.500     48    23.0   209     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   517     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   453     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   305     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   362     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   155     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    9.311      1.000       0.500    168    15.9  1057     ERRALL 
     SECONDARY STRUCTURE . .    9.275      1.000       0.500     92    15.4   597     ERRALL 
     SURFACE . . . . . . . .    9.550      1.000       0.500    120    16.3   734     ERRALL 
     BURIED  . . . . . . . .    8.712      1.000       0.500     48    14.9   323     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         3         8        24      42     135   DISTCA 
CA  (P)      0.00      0.00      2.22      5.93     17.78             135   DISTCA 
CA  (RMS)    0.00      0.00      2.95      4.03      6.58                   DISTCA 
 
ALL (N)         0         0         4        34       100     168    1057   DISTALL 
ALL (P)      0.00      0.00      0.38      3.22      9.46            1057   DISTALL 
ALL (RMS)    0.00      0.00      2.90      4.12      6.73                   DISTALL 
 
 
 
 
END of the results output 
