 
####################################################### 
#                                                     # 
#                        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:      # 
#                        # 
########################## 
 
 
 
#          The number of residues in SS section: 33 , MODEL 33 , TARGET 103 
#          The number of residues possible to evaluate: 33 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP    76     S     H     C             1.00 
 SSP    77     E     H     H             1.00 
 SSP    78     W     H     H             1.00 
 SSP    79     E     H     H             1.00 
 SSP    80     K     H     H             1.00 
 SSP    81     L     H     H             1.00 
 SSP    82     V     H     H             1.00 
 SSP    83     R     H     H             1.00 
 SSP    84     D     H     H             1.00 
 SSP    85     A     H     H             1.00 
 SSP    86     M     H     H             1.00 
 SSP    87     T     H     H             1.00 
 SSP    88     S     C     H             1.00 
 SSP    89     G     C     C             1.00 
 SSP    90     V     C     C             1.00 
 SSP    91     S     C     C             1.00 
 SSP    92     K     H     H             1.00 
 SSP    93     K     H     H             1.00 
 SSP    94     Q     H     H             1.00 
 SSP    95     F     H     H             1.00 
 SSP    96     R     H     H             1.00 
 SSP    97     E     H     H             1.00 
 SSP    98     F     H     H             1.00 
 SSP    99     L     H     H             1.00 
 SSP   100     D     H     H             1.00 
 SSP   101     Y     H     H             1.00 
 SSP   102     Q     H     H             1.00 
 SSP   103     K     H     H             1.00 
 SSP   104     W     H     H             1.00 
 SSP   105     R     H     H             1.00 
 SSP   106     K     H     H             1.00 
 SSP   107     S     H     H             1.00 
 SSP   108     Q     C     C             1.00 
 
 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              93.9      96.4      0.0     80.0     32.0 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed       100.0     100.0    100.0    100.0     32.0 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            2             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      33    100.0     93.9 
 
 BIN  0.00 - 1.00      1.00      33    100.0     93.9 
 
 
 
 
              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 99 
 
# WARNING! TARGET 845 atoms, MODEL 743 atoms, 689 common with TARGET 
           Number of atoms possible to evaluate: 132 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    12.95           96.3    54    26.9   201     ARMSMC  
     SECONDARY STRUCTURE . .    13.92           95.7    46    36.2   127     ARMSMC  
     SURFACE . . . . . . . .    12.95           96.3    54    35.8   151     ARMSMC  
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    50     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    91     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    84     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    57     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    69     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    22     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    64     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    49     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    42     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    49     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    15     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    31     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    26     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    23     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    28     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    12     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    12     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     9     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    10     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     2     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1   76 - 108  33   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    33     76 - 108      3.13     3.13 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1   76 - 108  33   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    26     83 - 108      1.85     4.00 
  LCS LOCAL_SCORE:             76.95 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1   76 - 108  33   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    21     88 - 108      0.85     4.90 
  LCS LOCAL_SCORE:             60.33 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS    BREAK 
 LCS      76       S    18   23   33       H       11  13  16  17  19  21  22  24  27  29  30  32  32  32  32  32  32  32  32  32  
 LCS      77       E    18   23   33       H       11  13  16  17  19  21  23  24  27  29  31  32  32  32  32  32  32  32  32  32  
 LCS      78       W    18   23   33       H       11  13  16  17  19  21  23  25  27  30  31  32  32  32  32  32  32  32  32  32  
 LCS      79       E    18   23   33       H       11  13  16  17  19  21  23  25  27  30  31  32  32  32  32  32  32  32  32  32  
 LCS      80       K    18   23   33       H        9  13  16  17  19  21  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      81       L    18   23   33       H       11  13  16  17  19  21  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      82       V    18   24   33       H       11  13  16  17  19  21  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      83       R    18   26   33       H       11  13  16  17  19  21  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      84       D    18   26   33       H       11  13  16  17  20  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      85       A    18   26   33       H       11  13  16  17  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      86       M    18   26   33       H       11  13  16  17  20  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      87       T    18   26   33       H       11  13  16  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      88       S    21   26   33       C       11  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      89       G    21   26   33       C        5  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      90       V    21   26   33       C        4  13  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      91       S    21   26   33       C        8  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      92       K    21   26   33       H        8  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      93       K    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      94       Q    21   26   33       H        8  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      95       F    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      96       R    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      97       E    21   26   33       H        8  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      98       F    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS      99       L    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     100       D    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     101       Y    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     102       Q    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     103       K    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     104       W    21   26   33       H        9  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     105       R    21   26   33       H        7  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     106       K    21   26   33       H        6  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     107       S    21   26   33       H        5  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS     108       Q    21   26   33       C        6  17  19  20  21  24  25  28  28  30  31  32  32  32  32  32  32  32  32  32  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   6.19 
 
 NUMBER_OF_CA_Tg:  103      NUMBER_OF_CA_Pr:   33      PERCENT_OF_CA:  32.04  
 
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      18      20      21      22      25      26      29      29      31      32      33      33      33      33      33      33      33      33      33  
 GDT PERCENT_OF_CA_Pr   36.36   54.55   60.61   63.64   66.67   75.76   78.79   87.88   87.88   93.94   96.97  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00 
 GDT PERCENT_OF_CA_Tg   11.65   17.48   19.42   20.39   21.36   24.27   25.24   28.16   28.16   30.10   31.07   32.04   32.04   32.04   32.04   32.04   32.04   32.04   32.04   32.04 
 GDT FRAGMENT: Beg-End  76-88   88-108  88-108  88-108  87-108  84-108  83-108  80-108  80-108  78-108  77-108  76-108  76-108  76-108  76-108  76-108  76-108  76-108  76-108  76-108 
 GDT RMS_LOCAL           0.33    0.68    0.75    0.85    1.06    1.62    1.85    2.36    2.36    2.78    2.96    3.13    3.13    3.13    3.13    3.13    3.13    3.13    3.13    3.13 
 GDT RMS_ALL_CA          6.57    4.81    4.88    4.90    4.85    4.25    4.00    3.46    3.46    3.21    3.15    3.13    3.13    3.13    3.13    3.13    3.13    3.13    3.13    3.13 
 
 
 TEST (CA)  RMS =   3.13               (Number of atoms:   33) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    3.13         33    32.0   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0949                            CRMSCA  
     SECONDARY STRUCTURE . .    3.11         28    43.1    65     CRMSCA  
     SURFACE . . . . . . . .    3.13         33    42.3    78     CRMSCA  
     BURIED  . . . . . . . .    0.00          0     0.0    25     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    3.10        132    25.8   511     CRMSMC  
     SECONDARY STRUCTURE . .    3.03        112    34.6   324     CRMSMC  
     SURFACE . . . . . . . .    3.10        132    34.1   387     CRMSMC  
     BURIED  . . . . . . . .    0.00          0     0.0   124     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   433     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   371     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   297     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   344     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0    89     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    3.10        132    15.6   845     CRMSALL 
     SECONDARY STRUCTURE . .    3.03        112    20.1   557     CRMSALL 
     SURFACE . . . . . . . .    3.10        132    20.1   656     CRMSALL 
     BURIED  . . . . . . . .    0.00          0     0.0   189     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 . . . . . . . . . .    1.293      0.246       0.135     33    32.0   103     ERRCA  
     SECONDARY STRUCTURE . .    1.267      0.241       0.135     28    43.1    65     ERRCA  
     SURFACE . . . . . . . .    1.293      0.246       0.135     33    42.3    78     ERRCA  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0    25     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.282      0.246       0.137    132    25.8   511     ERRMC  
     SECONDARY STRUCTURE . .    1.228      0.239       0.136    112    34.6   324     ERRMC  
     SURFACE . . . . . . . .    1.282      0.246       0.137    132    34.1   387     ERRMC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   124     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   433     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   371     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   297     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   344     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0    89     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.282      0.246       0.137    132    15.6   845     ERRALL 
     SECONDARY STRUCTURE . .    1.228      0.239       0.136    112    20.1   557     ERRALL 
     SURFACE . . . . . . . .    1.282      0.246       0.137    132    20.1   656     ERRALL 
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   189     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)         1        10        19        30        33      33     103   DISTCA 
CA  (P)      0.97      9.71     18.45     29.13     32.04             103   DISTCA 
CA  (RMS)    0.61      1.51      2.00      2.75      3.13                   DISTCA 
 
ALL (N)         5        43        83       122       132     132     845   DISTALL 
ALL (P)      0.59      5.09      9.82     14.44     15.62             845   DISTALL 
ALL (RMS)    0.84      1.53      2.07      2.77      3.10                   DISTALL 
 
 
 
 
END of the results output 
