 
####################################################### 
#                                                     # 
#                        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: 21 , MODEL 21 , TARGET 340 
#          The number of residues possible to evaluate: 21 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP     2     I     E     C             1.00 
 SSP     3     N     E     C             1.00 
 SSP     4     V     E     C             1.00 
 SSP     5     A     E     C             1.00 
 SSP     6     V     E     C             1.00 
 SSP     7     N     E     C             1.00 
 SSP     8     G     C     C             1.00 
 SSP     9     Y     C     C             1.00 
 SSP    10     G     C     C             1.00 
 SSP    11     T     H     H             1.00 
 SSP    12     I     H     H             1.00 
 SSP    13     G     H     H             1.00 
 SSP    14     K     H     H             1.00 
 SSP    15     R     H     H             1.00 
 SSP    16     V     H     H             1.00 
 SSP    17     A     H     H             1.00 
 SSP    18     D     H     H             1.00 
 SSP    19     A     H     H             1.00 
 SSP    20     I     H     H             1.00 
 SSP    21     I     H     H             1.00 
 SSP    22     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              71.4     100.0      0.0    100.0      6.2 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        63.5     100.0      0.0     58.3      6.2 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            2              50.0               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      21    100.0     71.4 
 
 BIN  0.00 - 1.00      1.00      21    100.0     71.4 
 
 
 
 
              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 325 
 
# WARNING! TARGET 2622 atoms, MODEL 2566 atoms, 2557 common with TARGET 
           Number of atoms possible to evaluate: 84 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     9.01           97.5    40     5.9   678     ARMSMC  
     SECONDARY STRUCTURE . .     8.97           97.0    33     8.7   380     ARMSMC  
     SURFACE . . . . . . . .     9.06          100.0     7     2.2   320     ARMSMC  
     BURIED  . . . . . . . .     8.99           97.0    33     9.2   358     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   292     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   256     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   164     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   144     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   148     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   213     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   168     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   119     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   119     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    94     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    82     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    73     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    44     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    59     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    23     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    43     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    43     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    21     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    33     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    10     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1    2 - 22   21   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    21      2 - 22       1.08     1.08 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1    2 - 22   21   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    21      2 - 22       1.08     1.08 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1    2 - 22   21   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    20      2 - 21       0.97     1.10 
  LCS LOCAL_SCORE:             95.01 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS       2       I    20   21   21       E        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS       3       N    20   21   21       E        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS       4       V    20   21   21       E        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS       5       A    20   21   21       E        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS       6       V    20   21   21       E        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS       7       N    20   21   21       E        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS       8       G    20   21   21       C        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS       9       Y    20   21   21       C        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      10       G    20   21   21       C        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      11       T    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      12       I    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      13       G    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      14       K    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      15       R    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      16       V    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      17       A    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      18       D    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      19       A    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      20       I    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      21       I    20   21   21       H        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS      22       K    19   21   21       C        3   4   5   5   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6   6  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.36 
 
 NUMBER_OF_CA_Tg:  340      NUMBER_OF_CA_Pr:   21      PERCENT_OF_CA:   6.18  
 
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      13      15      18      20      21      21      21      21      21      21      21      21      21      21      21      21      21      21      21      21  
 GDT PERCENT_OF_CA_Pr   61.90   71.43   85.71   95.24  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00 
 GDT PERCENT_OF_CA_Tg    3.82    4.41    5.29    5.88    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18    6.18 
 GDT FRAGMENT: Beg-End   2-14    2-16    2-19    2-21    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22    2-22  
 GDT RMS_LOCAL           0.20    0.44    0.80    0.97    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08 
 GDT RMS_ALL_CA          1.51    1.40    1.19    1.10    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08    1.08 
 
 
 TEST (CA)  RMS =   1.08               (Number of atoms:   21) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    1.08         21     6.2   340     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0514                            CRMSCA  
     SECONDARY STRUCTURE . .    1.05         17     8.9   190     CRMSCA  
     SURFACE . . . . . . . .    1.61          4     2.5   161     CRMSCA  
     BURIED  . . . . . . . .    0.91         17     9.5   179     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    1.15         84     5.0  1685     CRMSMC  
     SECONDARY STRUCTURE . .    1.13         68     7.2   947     CRMSMC  
     SURFACE . . . . . . . .    1.70         16     2.0   797     CRMSMC  
     BURIED  . . . . . . . .    0.98         68     7.7   888     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0  1262     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0  1070     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   734     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   636     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   626     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    1.15         84     3.2  2622     CRMSALL 
     SECONDARY STRUCTURE . .    1.13         68     4.6  1494     CRMSALL 
     SURFACE . . . . . . . .    1.70         16     1.2  1280     CRMSALL 
     BURIED  . . . . . . . .    0.98         68     5.1  1342     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 . . . . . . . . . .    0.926      1.000       0.500     21     6.2   340     ERRCA  
     SECONDARY STRUCTURE . .    0.935      1.000       0.500     17     8.9   190     ERRCA  
     SURFACE . . . . . . . .    1.481      1.000       0.500      4     2.5   161     ERRCA  
     BURIED  . . . . . . . .    0.796      1.000       0.500     17     9.5   179     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.987      1.000       0.500     84     5.0  1685     ERRMC  
     SECONDARY STRUCTURE . .    0.998      1.000       0.500     68     7.2   947     ERRMC  
     SURFACE . . . . . . . .    1.554      1.000       0.500     16     2.0   797     ERRMC  
     BURIED  . . . . . . . .    0.853      1.000       0.500     68     7.7   888     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  1262     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0  1070     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   734     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   636     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   626     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.987      1.000       0.500     84     3.2  2622     ERRALL 
     SECONDARY STRUCTURE . .    0.998      1.000       0.500     68     4.6  1494     ERRALL 
     SURFACE . . . . . . . .    1.554      1.000       0.500     16     1.2  1280     ERRALL 
     BURIED  . . . . . . . .    0.853      1.000       0.500     68     5.1  1342     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)        14        20        21        21        21      21     340   DISTCA 
CA  (P)      4.12      5.88      6.18      6.18      6.18             340   DISTCA 
CA  (RMS)    0.63      0.99      1.08      1.08      1.08                   DISTCA 
 
ALL (N)        49        80        84        84        84      84    2622   DISTALL 
ALL (P)      1.87      3.05      3.20      3.20      3.20            2622   DISTALL 
ALL (RMS)    0.60      1.05      1.15      1.15      1.15                   DISTALL 
 
 
 
 
END of the results output 
