 
####################################################### 
#                                                     # 
#                        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: 32 , MODEL 32 , TARGET 211 
#          The number of residues possible to evaluate: 32 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   116     T     E     C             1.00 
 SSP   117     P     E     C             1.00 
 SSP   118     R     H     C             1.00 
 SSP   119     K     H     C             1.00 
 SSP   120     D     H     C             1.00 
 SSP   121     L     H     C             1.00 
 SSP   122     A     H     C             1.00 
 SSP   123     K     H     H             1.00 
 SSP   124     K     C     H             1.00 
 SSP   125     G     C     H             1.00 
 SSP   126     Q     C     H             1.00 
 SSP   127     D     C     H             1.00 
 SSP   128     F     C     H             1.00 
 SSP   129     H     C     H             1.00 
 SSP   130     F     C     H             1.00 
 SSP   131     E     H     H             1.00 
 SSP   132     E     H     H             1.00 
 SSP   133     R     H     H             1.00 
 SSP   134     C     H     C             1.00 
 SSP   135     S     H     C             1.00 
 SSP   136     A     H     C             1.00 
 SSP   137     C     H     C             1.00 
 SSP   138     H     H     C             1.00 
 SSP   139     L     C     C             1.00 
 SSP   140     N     C     C             1.00 
 SSP   141     Y     C     C             1.00 
 SSP   142     E     C     C             1.00 
 SSP   143     G     C     C             1.00 
 SSP   144     S     C     C             1.00 
 SSP   145     P     C     C             1.00 
 SSP   146     W     C     C             1.00 
 SSP   147     K     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              40.6      28.6      0.0     56.2     15.2 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        37.8      26.8      0.0     52.2     15.2 
 
           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                 1 
 
  CONFIDENCE (P)     Average     NP    PP/BIN     Q3 
 BIN  0.90 - 1.00      1.00      32    100.0     40.6 
 
 BIN  0.00 - 1.00      1.00      32    100.0     40.6 
 
 
 
 
              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 192 
 
# WARNING! TARGET 1654 atoms, MODEL 1521 atoms, 1517 common with TARGET 
           Number of atoms possible to evaluate: 128 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    78.13           46.8    62    14.8   420     ARMSMC  
     SECONDARY STRUCTURE . .    80.20           50.0    28    26.4   106     ARMSMC  
     SURFACE . . . . . . . .    73.83           54.3    35    12.5   280     ARMSMC  
     BURIED  . . . . . . . .    83.37           37.0    27    19.3   140     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   171     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   163     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    43     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   118     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    53     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   136     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   117     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    33     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    97     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    39     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    69     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    61     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    23     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    60     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     9     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    41     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    41     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    14     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    38     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1  116 - 147  32   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    20    117 - 136      4.98     9.37 
  LCS LOCAL_SCORE:             60.45 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  116 - 147  32   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    10    129 - 138      1.66    13.07 
  LCS LOCAL_SCORE:             21.88 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  116 - 147  32   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     7    132 - 138      0.77    14.37 
  LONGEST_CONTINUOUS_SEGMENT     7    139 - 145      0.53    20.77 
  LCS LOCAL_SCORE:             16.02 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     116       T     3    3   19       E        0   1   1   1   1   2   2   2   3   3   4   8   9   9   9  10  11  11  12  12  
 LCS     117       P     3    3   20       E        0   1   1   1   1   2   2   3   3   6   8   8   9  10  10  11  11  12  12  12  
 LCS     118       R     3    3   20       H        0   1   1   1   2   3   3   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     119       K     3    3   20       H        0   1   1   2   2   3   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     120       D     3    4   20       H        0   1   1   2   2   3   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     121       L     3    4   20       H        0   1   1   2   2   3   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     122       A     4    4   20       H        1   1   1   2   2   3   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     123       K     4    4   20       H        1   1   1   2   2   3   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     124       K     4    4   20       C        1   1   1   1   2   3   4   4   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     125       G     4    4   20       C        1   1   1   2   2   3   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     126       Q     3    4   20       C        1   1   1   1   2   3   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     127       D     4    4   20       C        1   1   1   1   2   3   4   5   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     128       F     4    4   20       C        1   1   1   1   2   2   4   5   6   6   7   7   8   9   9  10  11  11  12  13  
 LCS     129       H     4   10   20       C        1   1   1   3   4   4   5   5   6   7   7   8   9   9  10  11  11  12  12  13  
 LCS     130       F     5   10   20       C        1   1   2   3   4   4   5   5   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     131       E     5   10   20       H        1   1   2   3   4   4   5   5   6   7   7   8   9   9  10  11  11  12  12  13  
 LCS     132       E     7   10   20       H        1   3   3   3   4   4   5   5   6   7   7   8   9   9  10  10  11  11  12  13  
 LCS     133       R     7   10   20       H        1   3   3   3   4   4   5   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     134       C     7   10   20       H        2   3   3   3   4   4   5   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     135       S     7   10   20       H        2   3   3   3   4   4   5   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     136       A     7   10   20       H        2   3   3   3   4   4   5   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     137       C     7   10   19       H        2   3   3   3   4   4   5   5   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     138       H     7   10   19       H        2   3   3   3   4   4   5   5   6   7   7   9   9  10  10  11  11  12  12  13  
 LCS     139       L     7    9   18       C        2   3   3   3   4   4   5   5   6   7   7   9   9  10  10  11  11  12  12  13  
 LCS     140       N     7    9   18       C        2   3   3   3   4   4   4   5   5   7   7   7   7   8   9  10  11  12  12  13  
 LCS     141       Y     7    9   18       C        2   3   3   3   4   4   4   5   5   7   7   7   7   8   9   9  10  11  12  13  
 LCS     142       E     7    9   18       C        2   3   3   3   4   4   4   5   5   7   7   7   7   8   9   9  11  11  12  13  
 LCS     143       G     7    9   18       C        2   3   3   3   4   4   5   5   6   7   7   7   7   9  10  10  11  12  12  13  
 LCS     144       S     7    9   18       C        2   3   3   3   4   4   5   5   6   6   7   9   9  10  10  11  11  12  12  13  
 LCS     145       P     7    9   18       C        2   3   3   3   4   4   4   6   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     146       W     4    9   18       C        1   1   2   3   4   4   4   5   6   7   8   9   9  10  10  11  11  12  12  13  
 LCS     147       K     3    4   18       C        1   1   1   2   2   3   4   5   6   7   7   8   9   9  10  10  11  11  12  12  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.37 
 
 NUMBER_OF_CA_Tg:  211      NUMBER_OF_CA_Pr:   32      PERCENT_OF_CA:  15.17  
 
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       5       7       8       8      10      10      12      13      14      16      17      19      21      22      23      24      25      26      27      28  
 GDT PERCENT_OF_CA_Pr   15.62   21.88   25.00   25.00   31.25   31.25   37.50   40.62   43.75   50.00   53.12   59.38   65.62   68.75   71.88   75.00   78.12   81.25   84.38   87.50 
 GDT PERCENT_OF_CA_Tg    2.37    3.32    3.79    3.79    4.74    4.74    5.69    6.16    6.64    7.58    8.06    9.00    9.95   10.43   10.90   11.37   11.85   12.32   12.80   13.27 
 GDT FRAGMENT: Beg-End 134-138 139-145 134-145 134-145 129-138 129-138 129-144 118-145 118-146 118-146 118-146 118-146 118-146 117-146 117-146 117-146 117-146 117-146 116-147 118-146 
 GDT RMS_LOCAL           0.21    0.53    0.81    0.81    1.66    1.66    2.30    3.33    3.42    3.71    3.85    4.23    4.68    4.83    5.16    5.34    5.62    5.89    5.96    6.59 
 GDT RMS_ALL_CA         15.08   20.77   19.53   19.53   13.07   13.07   15.16    8.14    8.07    8.09    8.04    7.88    7.59    7.56    7.46    7.53    7.42    7.37    7.81    7.57 
 
 
 TEST (CA)  RMS =   7.35               (Number of atoms:   32) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    7.35         32    15.2   211     CRMSCA  
     CRN = ALL/NP  . . . . .    0.2296                            CRMSCA  
     SECONDARY STRUCTURE . .    5.84         14    26.4    53     CRMSCA  
     SURFACE . . . . . . . .    7.37         18    12.8   141     CRMSCA  
     BURIED  . . . . . . . .    7.32         14    20.0    70     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    7.28        128    12.4  1036     CRMSMC  
     SECONDARY STRUCTURE . .    5.67         56    21.3   263     CRMSMC  
     SURFACE . . . . . . . .    7.25         72    10.4   695     CRMSMC  
     BURIED  . . . . . . . .    7.33         56    16.4   341     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   810     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   720     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   209     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   534     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   276     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    7.28        128     7.7  1654     CRMSALL 
     SECONDARY STRUCTURE . .    5.67         56    13.3   421     CRMSALL 
     SURFACE . . . . . . . .    7.25         72     6.6  1098     CRMSALL 
     BURIED  . . . . . . . .    7.33         56    10.1   556     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 . . . . . . . . . .    6.686      1.000       0.500     32    15.2   211     ERRCA  
     SECONDARY STRUCTURE . .    5.367      1.000       0.500     14    26.4    53     ERRCA  
     SURFACE . . . . . . . .    6.769      1.000       0.500     18    12.8   141     ERRCA  
     BURIED  . . . . . . . .    6.580      1.000       0.500     14    20.0    70     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.633      1.000       0.500    128    12.4  1036     ERRMC  
     SECONDARY STRUCTURE . .    5.251      1.000       0.500     56    21.3   263     ERRMC  
     SURFACE . . . . . . . .    6.644      1.000       0.500     72    10.4   695     ERRMC  
     BURIED  . . . . . . . .    6.618      1.000       0.500     56    16.4   341     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   810     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   720     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   209     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   534     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   276     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.633      1.000       0.500    128     7.7  1654     ERRALL 
     SECONDARY STRUCTURE . .    5.251      1.000       0.500     56    13.3   421     ERRALL 
     SURFACE . . . . . . . .    6.644      1.000       0.500     72     6.6  1098     ERRALL 
     BURIED  . . . . . . . .    6.618      1.000       0.500     56    10.1   556     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        10        26      32     211   DISTCA 
CA  (P)      0.00      0.00      1.42      4.74     12.32             211   DISTCA 
CA  (RMS)    0.00      0.00      2.36      3.56      5.92                   DISTCA 
 
ALL (N)         0         0        10        44       110     128    1654   DISTALL 
ALL (P)      0.00      0.00      0.60      2.66      6.65            1654   DISTALL 
ALL (RMS)    0.00      0.00      2.56      3.55      6.17                   DISTALL 
 
 
 
 
END of the results output 
