 
####################################################### 
#                                                     # 
#                        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: 22 , MODEL 22 , TARGET 190 
#          The number of residues possible to evaluate: 22 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP    28     L     C     C             1.00 
 SSP    29     R     C     C             1.00 
 SSP    30     T     C     C             1.00 
 SSP    31     F     C     C             1.00 
 SSP    32     T     E     C             1.00 
 SSP    33     I     E     C             1.00 
 SSP    34     H     E     C             1.00 
 SSP    35     G     E     C             1.00 
 SSP    36     L     E     C             1.00 
 SSP    37     W     E     C             1.00 
 SSP    38     P     E     C             1.00 
 SSP    39     Q     E     E             1.00 
 SSP    40     Q     C     C             1.00 
 SSP    41     S     C     C             1.00 
 SSP    42     G     C     C             1.00 
 SSP    43     T     C     C             1.00 
 SSP    44     S     E     C             1.00 
 SSP    45     L     C     E             1.00 
 SSP    46     T     C     C             1.00 
 SSP    47     N     C     C             1.00 
 SSP    48     C     C     C             1.00 
 SSP    49     P     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              59.1       0.0     11.1     92.3     11.6 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        55.4     100.0     11.1     86.0     11.6 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            1               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      22    100.0     59.1 
 
 BIN  0.00 - 1.00      1.00      22    100.0     59.1 
 
 
 
 
              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 175 
 
# WARNING! TARGET 1495 atoms, MODEL 1411 atoms, 1411 common with TARGET 
           Number of atoms possible to evaluate: 88 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    63.80           66.7    42    11.1   378     ARMSMC  
     SECONDARY STRUCTURE . .     7.33          100.0    16     7.8   204     ARMSMC  
     SURFACE . . . . . . . .    84.14           41.7    24    11.5   208     ARMSMC  
     BURIED  . . . . . . . .     7.76          100.0    18    10.6   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   28 - 49   22   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    22     28 - 49       2.39     2.39 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1   28 - 49   22   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    18     28 - 45       1.90     2.46 
  LONGEST_CONTINUOUS_SEGMENT    18     30 - 47       1.97     2.83 
  LCS LOCAL_SCORE:             77.69 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1   28 - 49   22   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    12     30 - 41       0.96     2.73 
  LCS LOCAL_SCORE:             42.56 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS      28       L     5   18   22       C        2   2   3   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      29       R     5   18   22       C        2   4   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      30       T    12   18   22       C        2   4   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      31       F    12   18   22       C        4   5   6   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      32       T    12   18   22       E        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      33       I    12   18   22       E        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      34       H    12   18   22       E        4   5   6   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      35       G    12   18   22       E        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      36       L    12   18   22       E        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      37       W    12   18   22       E        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      38       P    12   18   22       E        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      39       Q    12   18   22       E        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      40       Q    12   18   22       C        4   5   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      41       S    12   18   22       C        1   1   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      42       G     3   18   22       C        1   1   2   3   7  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      43       T     7   18   22       C        2   4   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      44       S     7   18   22       E        1   2   3   3   4   5   8  10  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      45       L     7   18   22       C        2   4   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      46       T     7   18   22       C        1   2   3   3   3   8   9  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      47       N     7   18   22       C        1   2   3   3   6   8   9  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      48       C     7    8   22       C        1   4   7   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS      49       P     7    8   22       C        0   1   3   7   8  10  10  11  11  11  11  11  11  11  11  11  11  11  11  11  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.57 
 
 NUMBER_OF_CA_Tg:  190      NUMBER_OF_CA_Pr:   22      PERCENT_OF_CA:  11.58  
 
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       9      10      14      15      17      19      19      21      22      22      22      22      22      22      22      22      22      22      22      22  
 GDT PERCENT_OF_CA_Pr   40.91   45.45   63.64   68.18   77.27   86.36   86.36   95.45  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    4.74    5.26    7.37    7.89    8.95   10.00   10.00   11.05   11.58   11.58   11.58   11.58   11.58   11.58   11.58   11.58   11.58   11.58   11.58   11.58 
 GDT FRAGMENT: Beg-End  31-40   31-40   29-48   30-48   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49   28-49  
 GDT RMS_LOCAL           0.24    0.33    1.11    1.23    1.43    1.69    1.69    2.24    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39 
 GDT RMS_ALL_CA          3.46    3.56    2.62    2.55    2.60    2.53    2.53    2.40    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39    2.39 
 
 
 TEST (CA)  RMS =   2.39               (Number of atoms:   22) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.39         22    11.6   190     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1085                            CRMSCA  
     SECONDARY STRUCTURE . .    1.28          8     7.8   102     CRMSCA  
     SURFACE . . . . . . . .    2.87         13    12.5   104     CRMSCA  
     BURIED  . . . . . . . .    1.43          9    10.5    86     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.20         88     9.4   935     CRMSMC  
     SECONDARY STRUCTURE . .    1.26         32     6.3   506     CRMSMC  
     SURFACE . . . . . . . .    2.63         52    10.2   512     CRMSMC  
     BURIED  . . . . . . . .    1.34         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 . . . . . . . . . .    2.20         88     5.9  1495     CRMSALL 
     SECONDARY STRUCTURE . .    1.26         32     3.8   834     CRMSALL 
     SURFACE . . . . . . . .    2.63         52     6.6   784     CRMSALL 
     BURIED  . . . . . . . .    1.34         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 . . . . . . . . . .    2.037      1.000       0.500     22    11.6   190     ERRCA  
     SECONDARY STRUCTURE . .    1.198      1.000       0.500      8     7.8   102     ERRCA  
     SURFACE . . . . . . . .    2.533      1.000       0.500     13    12.5   104     ERRCA  
     BURIED  . . . . . . . .    1.321      1.000       0.500      9    10.5    86     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.921      1.000       0.500     88     9.4   935     ERRMC  
     SECONDARY STRUCTURE . .    1.185      1.000       0.500     32     6.3   506     ERRMC  
     SURFACE . . . . . . . .    2.380      1.000       0.500     52    10.2   512     ERRMC  
     BURIED  . . . . . . . .    1.258      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 . . . . . . . . . .    1.921      1.000       0.500     88     5.9  1495     ERRALL 
     SECONDARY STRUCTURE . .    1.185      1.000       0.500     32     3.8   834     ERRALL 
     SURFACE . . . . . . . .    2.380      1.000       0.500     52     6.6   784     ERRALL 
     BURIED  . . . . . . . .    1.258      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)         6        12        18        22        22      22     190   DISTCA 
CA  (P)      3.16      6.32      9.47     11.58     11.58             190   DISTCA 
CA  (RMS)    0.73      1.17      1.76      2.39      2.39                   DISTCA 
 
ALL (N)        19        52        76        87        88      88    1495   DISTALL 
ALL (P)      1.27      3.48      5.08      5.82      5.89            1495   DISTALL 
ALL (RMS)    0.75      1.26      1.76      2.14      2.20                   DISTALL 
 
 
 
 
END of the results output 
