 
####################################################### 
#                                                     # 
#                        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 190 
#          The number of residues possible to evaluate: 20 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   165     V     E     C             1.00 
 SSP   166     V     E     C             1.00 
 SSP   167     A     E     C             1.00 
 SSP   168     C     E     C             1.00 
 SSP   169     F     E     C             1.00 
 SSP   170     A     E     C             1.00 
 SSP   171     Q     C     C             1.00 
 SSP   172     D     C     C             1.00 
 SSP   173     G     C     C             1.00 
 SSP   174     S     C     C             1.00 
 SSP   175     T     C     C             1.00 
 SSP   176     L     E     C             1.00 
 SSP   177     I     E     C             1.00 
 SSP   178     D     C     C             1.00 
 SSP   179     C     C     C             1.00 
 SSP   180     T     C     C             1.00 
 SSP   181     R     C     C             1.00 
 SSP   182     D     C     C             1.00 
 SSP   183     T     C     C             1.00 
 SSP   184     C     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              60.0       0.0      0.0    100.0     10.5 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        26.2     100.0      0.0     43.8     10.5 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            2               0.0               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      20    100.0     60.0 
 
 BIN  0.00 - 1.00      1.00      20    100.0     60.0 
 
 
 
 
              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 175 
 
# WARNING! TARGET 1495 atoms, MODEL 1431 atoms, 1431 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 . . . . . . . . . .    69.07           47.4    38    10.1   378     ARMSMC  
     SECONDARY STRUCTURE . .    56.46           45.5    11     5.4   204     ARMSMC  
     SURFACE . . . . . . . .    78.18           45.5    22    10.6   208     ARMSMC  
     BURIED  . . . . . . . .    54.11           50.0    16     9.4   170     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   162     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   154     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    89     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    88     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    74     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   115     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    87     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    67     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    59     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    56     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    36     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    22     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    24     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    26     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    10     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    19     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    19     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    12     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    16     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  165 - 184  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    14    171 - 184      4.46    10.08 
  LCS LOCAL_SCORE:             65.50 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  165 - 184  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     8    176 - 183      1.83    11.38 
  LCS LOCAL_SCORE:             35.75 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  165 - 184  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     5    165 - 169      0.95    17.64 
  LONGEST_CONTINUOUS_SEGMENT     5    177 - 181      0.58    10.85 
  LONGEST_CONTINUOUS_SEGMENT     5    180 - 184      0.98    23.22 
  LCS LOCAL_SCORE:             23.25 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     165       V     5    7   11       E        1   2   2   2   3   4   4   4   4   4   4   5   5   5   5   5   5   6   6   6  
 LCS     166       V     5    7   11       E        1   2   2   3   3   4   4   4   4   4   4   5   5   5   5   5   5   6   6   8  
 LCS     167       A     5    7   11       E        1   2   2   3   3   4   4   4   4   4   4   5   5   5   5   5   5   6   6   8  
 LCS     168       C     5    7   11       E        1   2   2   3   3   4   4   4   4   4   4   5   5   5   5   5   5   6   6   8  
 LCS     169       F     5    7   11       E        1   2   2   3   3   4   4   4   4   4   4   5   5   5   5   6   7   7   7   8  
 LCS     170       A     4    7   11       E        1   2   2   3   3   4   4   4   4   4   4   5   5   5   5   5   5   6   7   8  
 LCS     171       Q     4    7   14       C        1   2   2   3   3   4   4   4   5   5   5   6   6   6   6   7   7   7   7   8  
 LCS     172       D     4    6   14       C        1   2   2   2   3   4   4   4   5   5   5   6   6   6   6   7   7   7   7   8  
 LCS     173       G     4    6   14       C        2   2   2   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     174       S     4    6   14       C        2   2   2   2   3   3   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     175       T     4    6   14       C        2   2   2   2   3   3   3   3   4   5   6   6   6   6   6   7   7   7   7   8  
 LCS     176       L     4    8   14       E        2   2   3   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     177       I     5    8   14       E        2   2   3   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     178       D     5    8   14       C        2   2   3   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     179       C     5    8   14       C        1   2   3   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     180       T     5    8   14       C        2   2   2   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     181       R     5    8   14       C        2   2   2   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     182       D     5    8   14       C        1   2   3   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     183       T     5    8   14       C        1   2   3   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS     184       C     5    6   14       C        0   2   2   3   3   4   4   4   5   5   6   6   6   6   6   7   7   7   7   8  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.26 
 
 NUMBER_OF_CA_Tg:  190      NUMBER_OF_CA_Pr:   20      PERCENT_OF_CA:  10.53  
 
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       4       4       6       6       7       8       9       9      10      11      12      12      13      13      13      14      14      14      15      16  
 GDT PERCENT_OF_CA_Pr   20.00   20.00   30.00   30.00   35.00   40.00   45.00   45.00   50.00   55.00   60.00   60.00   65.00   65.00   65.00   70.00   70.00   70.00   75.00   80.00 
 GDT PERCENT_OF_CA_Tg    2.11    2.11    3.16    3.16    3.68    4.21    4.74    4.74    5.26    5.79    6.32    6.32    6.84    6.84    6.84    7.37    7.37    7.37    7.89    8.42 
 GDT FRAGMENT: Beg-End 173-176 173-176 176-183 176-183 176-183 176-184 173-183 173-183 171-183 173-183 173-184 173-184 171-184 171-184 171-184 171-184 171-184 171-184 169-184 169-184 
 GDT RMS_LOCAL           0.30    0.30    1.09    1.09    1.41    1.80    2.13    2.13    2.75    3.03    3.41    3.41    3.99    3.99    3.99    4.46    4.46    4.46    5.39    5.75 
 GDT RMS_ALL_CA         19.73   19.73   12.05   12.05   11.60   13.21   10.23   10.23   10.78   10.64   10.76   10.76   10.08   10.08   10.08   10.08   10.08   10.08    9.67    9.70 
 
 
 TEST (CA)  RMS =   8.57               (Number of atoms:   20) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    8.57         20    10.5   190     CRMSCA  
     CRN = ALL/NP  . . . . .    0.4284                            CRMSCA  
     SECONDARY STRUCTURE . .   11.72          6     5.9   102     CRMSCA  
     SURFACE . . . . . . . .    7.12         11    10.6   104     CRMSCA  
     BURIED  . . . . . . . .   10.06          9    10.5    86     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    8.43         80     8.6   935     CRMSMC  
     SECONDARY STRUCTURE . .   11.42         24     4.7   506     CRMSMC  
     SURFACE . . . . . . . .    6.84         44     8.6   512     CRMSMC  
     BURIED  . . . . . . . .   10.04         36     8.5   423     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   735     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   625     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   426     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   368     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   367     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    8.43         80     5.4  1495     CRMSALL 
     SECONDARY STRUCTURE . .   11.42         24     2.9   834     CRMSALL 
     SURFACE . . . . . . . .    6.84         44     5.6   784     CRMSALL 
     BURIED  . . . . . . . .   10.04         36     5.1   711     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 . . . . . . . . . .    8.040      1.000       0.500     20    10.5   190     ERRCA  
     SECONDARY STRUCTURE . .   11.463      1.000       0.500      6     5.9   102     ERRCA  
     SURFACE . . . . . . . .    6.833      1.000       0.500     11    10.6   104     ERRCA  
     BURIED  . . . . . . . .    9.516      1.000       0.500      9    10.5    86     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.889      1.000       0.500     80     8.6   935     ERRMC  
     SECONDARY STRUCTURE . .   11.117      1.000       0.500     24     4.7   506     ERRMC  
     SURFACE . . . . . . . .    6.542      1.000       0.500     44     8.6   512     ERRMC  
     BURIED  . . . . . . . .    9.534      1.000       0.500     36     8.5   423     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   735     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   625     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   426     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   368     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   367     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.889      1.000       0.500     80     5.4  1495     ERRALL 
     SECONDARY STRUCTURE . .   11.117      1.000       0.500     24     2.9   834     ERRALL 
     SURFACE . . . . . . . .    6.542      1.000       0.500     44     5.6   784     ERRALL 
     BURIED  . . . . . . . .    9.534      1.000       0.500     36     5.1   711     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         0         2        15      20     190   DISTCA 
CA  (P)      0.00      0.00      0.00      1.05      7.89             190   DISTCA 
CA  (RMS)    0.00      0.00      0.00      4.09      6.73                   DISTCA 
 
ALL (N)         0         1         1        13        62      80    1495   DISTALL 
ALL (P)      0.00      0.07      0.07      0.87      4.15            1495   DISTALL 
ALL (RMS)    0.00      1.70      1.70      4.27      6.75                   DISTALL 
 
 
 
 
END of the results output 
