 
####################################################### 
#                                                     # 
#                        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: 14 , MODEL 14 , TARGET 211 
#          The number of residues possible to evaluate: 14 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP    93     G     C     C             1.00 
 SSP    94     P     C     C             1.00 
 SSP    95     G     C     C             1.00 
 SSP    96     R     C     C             1.00 
 SSP    97     N     C     C             1.00 
 SSP    98     F     C     C             1.00 
 SSP    99     R     H     C             1.00 
 SSP   100     G     H     C             1.00 
 SSP   101     D     H     C             1.00 
 SSP   102     H     H     C             1.00 
 SSP   103     R     H     C             1.00 
 SSP   104     K     H     C             1.00 
 SSP   105     S     H     C             1.00 
 SSP   106     G     H     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              42.9       0.0      0.0    100.0      6.6 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        27.6       0.0    100.0     64.3      6.6 
 
           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      14    100.0     42.9 
 
 BIN  0.00 - 1.00      1.00      14    100.0     42.9 
 
 
 
 
              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 
 
 
 
 CONSIDERED - explicitly provided contacts (with positive confidence) or 
              non contacts (with negative confidence) possible to evaluate 
 SEP      - Minimum separation between residues considered 
 NPC      - Number of contacts predicted correctly 
 PC(P)    - Percent of contacts predicted correctly from CONSIDERED in PREDICTION 
 PC(T)    - Percent of contacts predicted correctly from CONSIDERED in TARGET with SEP limit 
 PC(TT)   - Percent of contacts predicted correctly from TOTAL in TARGET with SEP limit 
 
                        CONSIDERED     CONSIDERED       TOTAL          TOTAL 
                      in PREDICTION    in TARGET    in PREDICTION    in TARGET 
 ALL RESIDUES USED          14              14            14            211 
 ALL CONTACTS (< 8.0A)      27              41            27            964 
 
               in PREDICTION      Predicted correctly          Submitted as        in TARGET 
                CONSIDERED     NPC   PC(P)   PC(T)   PC(TT)    NOT  predicted   CONSIDERED  TOTAL  |   SEP 
 RES CONTACTS        27         26   96.30   63.41    2.70       0     0.00          41       964  |   1-9999 
 RES CONTACTS        27         26   96.30   63.41    4.50       0     0.00          41       578  |   1-4    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           0        78  |   5-8    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           0       308  |   9-9999 
 
 
 
# WARNING! TARGET 1654 atoms, MODEL 1658 atoms, 1654 common with TARGET 
           Number of atoms possible to evaluate: 108 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .   103.58           34.6    26     6.2   420     ARMSMC  
     SECONDARY STRUCTURE . .   108.74           26.7    15    14.2   106     ARMSMC  
     SURFACE . . . . . . . .   114.05           28.6    14     5.0   280     ARMSMC  
     BURIED  . . . . . . . .    89.83           41.7    12     8.6   140     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    93.73           20.0    10     5.8   171     ARMSSC1 
     RELIABLE SIDE CHAINS  .    93.73           20.0    10     6.1   163     ARMSSC1 
     SECONDARY STRUCTURE . .    90.35           16.7     6    14.0    43     ARMSSC1 
     SURFACE . . . . . . . .    82.36           33.3     6     5.1   118     ARMSSC1 
     BURIED  . . . . . . . .   108.57            0.0     4     7.5    53     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    64.92           33.3     9     6.6   136     ARMSSC2 
     RELIABLE SIDE CHAINS  .    57.95           42.9     7     6.0   117     ARMSSC2 
     SECONDARY STRUCTURE . .    58.73           60.0     5    15.2    33     ARMSSC2 
     SURFACE . . . . . . . .    69.55           50.0     6     6.2    97     ARMSSC2 
     BURIED  . . . . . . . .    54.51            0.0     3     7.7    39     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    22.13           75.0     4     5.8    69     ARMSSC3 
     RELIABLE SIDE CHAINS  .    22.13           75.0     4     6.6    61     ARMSSC3 
     SECONDARY STRUCTURE . .    24.83           66.7     3    13.0    23     ARMSSC3 
     SURFACE . . . . . . . .    22.13           75.0     4     6.7    60     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     9     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    73.21           25.0     4     9.8    41     ARMSSC4 
     RELIABLE SIDE CHAINS  .    73.21           25.0     4     9.8    41     ARMSSC4 
     SECONDARY STRUCTURE . .    73.30           33.3     3    21.4    14     ARMSSC4 
     SURFACE . . . . . . . .    73.21           25.0     4    10.5    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   93 - 106  14   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    14     93 - 106      4.52     4.52 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1   93 - 106  14   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     4     93 - 96       0.42    18.73 
  LONGEST_CONTINUOUS_SEGMENT     4     94 - 97       1.77     6.52 
  LONGEST_CONTINUOUS_SEGMENT     4     96 - 99       1.56    13.86 
  LONGEST_CONTINUOUS_SEGMENT     4     97 - 100      1.76    10.81 
  LONGEST_CONTINUOUS_SEGMENT     4     98 - 101      0.86     8.22 
  LONGEST_CONTINUOUS_SEGMENT     4    103 - 106      0.70     7.93 
  LCS LOCAL_SCORE:             28.06 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1   93 - 106  14   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     4     93 - 96       0.42    18.73 
  LONGEST_CONTINUOUS_SEGMENT     4     98 - 101      0.86     8.22 
  LONGEST_CONTINUOUS_SEGMENT     4    103 - 106      0.70     7.93 
  LCS LOCAL_SCORE:             27.55 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS      93       G     4    4   14       C        1   1   1   1   2   2   2   2   2   4   5   6   6   6   6   6   6   6   6   6  
 LCS      94       P     4    4   14       C        1   1   1   1   2   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS      95       G     4    4   14       C        1   1   1   1   2   2   2   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS      96       R     4    4   14       C        1   1   1   1   2   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS      97       N     3    4   14       C        1   1   1   1   2   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS      98       F     4    4   14       C        1   1   1   1   1   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS      99       R     4    4   14       H        1   1   1   1   1   2   2   3   4   4   4   6   6   6   6   6   6   6   6   6  
 LCS     100       G     4    4   14       H        1   1   1   1   1   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS     101       D     4    4   14       H        1   1   1   1   2   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS     102       H     3    3   14       H        1   1   1   1   1   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS     103       R     4    4   14       H        1   1   1   1   2   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS     104       K     4    4   14       H        1   1   1   1   1   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS     105       S     4    4   14       H        1   1   1   1   1   2   3   3   3   4   5   6   6   6   6   6   6   6   6   6  
 LCS     106       G     4    4   14       H        1   1   1   1   1   2   3   3   4   4   5   6   6   6   6   6   6   6   6   6  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.12 
 
 NUMBER_OF_CA_Tg:  211      NUMBER_OF_CA_Pr:   14      PERCENT_OF_CA:   6.64  
 
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       4       4       5       6       7       8       9      10      12      14      14      14      14      14      14      14      14      14  
 GDT PERCENT_OF_CA_Pr   28.57   28.57   28.57   28.57   35.71   42.86   50.00   57.14   64.29   71.43   85.71  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00 
 GDT PERCENT_OF_CA_Tg    1.90    1.90    1.90    1.90    2.37    2.84    3.32    3.79    4.27    4.74    5.69    6.64    6.64    6.64    6.64    6.64    6.64    6.64    6.64    6.64 
 GDT FRAGMENT: Beg-End  93-96   93-96   93-96   93-96   94-103  96-106  94-106  94-103  94-103  94-106  93-106  93-106  93-106  93-106  93-106  93-106  93-106  93-106  93-106  93-106 
 GDT RMS_LOCAL           0.42    0.42    0.42    0.42    1.75    2.42    2.67    2.99    3.23    3.62    4.17    4.52    4.52    4.52    4.52    4.52    4.52    4.52    4.52    4.52 
 GDT RMS_ALL_CA         18.73   18.73   18.73   18.73    5.23    5.92    5.54    5.60    5.47    4.97    4.60    4.52    4.52    4.52    4.52    4.52    4.52    4.52    4.52    4.52 
 
 
 TEST (CA)  RMS =   4.52               (Number of atoms:   14) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    4.52         14     6.6   211     CRMSCA  
     CRN = ALL/NP  . . . . .    0.3228                            CRMSCA  
     SECONDARY STRUCTURE . .    4.59          8    15.1    53     CRMSCA  
     SURFACE . . . . . . . .    4.35          7     5.0   141     CRMSCA  
     BURIED  . . . . . . . .    4.68          7    10.0    70     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    4.62         66     6.4  1036     CRMSMC  
     SECONDARY STRUCTURE . .    4.60         38    14.4   263     CRMSMC  
     SURFACE . . . . . . . .    4.48         34     4.9   695     CRMSMC  
     BURIED  . . . . . . . .    4.76         32     9.4   341     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    7.76         52     6.4   810     CRMSSC  
     RELIABLE SIDE CHAINS  .    7.27         46     6.4   720     CRMSSC  
     SECONDARY STRUCTURE . .    7.35         31    14.8   209     CRMSSC  
     SURFACE . . . . . . . .    7.81         36     6.7   534     CRMSSC  
     BURIED  . . . . . . . .    7.64         16     5.8   276     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    6.24        108     6.5  1654     CRMSALL 
     SECONDARY STRUCTURE . .    6.00         63    15.0   421     CRMSALL 
     SURFACE . . . . . . . .    6.48         64     5.8  1098     CRMSALL 
     BURIED  . . . . . . . .    5.89         44     7.9   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 . . . . . . . . . .    4.366      1.000       0.500     14     6.6   211     ERRCA  
     SECONDARY STRUCTURE . .    4.428      1.000       0.500      8    15.1    53     ERRCA  
     SURFACE . . . . . . . .    4.153      1.000       0.500      7     5.0   141     ERRCA  
     BURIED  . . . . . . . .    4.579      1.000       0.500      7    10.0    70     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    4.415      1.000       0.500     66     6.4  1036     ERRMC  
     SECONDARY STRUCTURE . .    4.374      1.000       0.500     38    14.4   263     ERRMC  
     SURFACE . . . . . . . .    4.260      1.000       0.500     34     4.9   695     ERRMC  
     BURIED  . . . . . . . .    4.579      1.000       0.500     32     9.4   341     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.284      1.000       0.500     52     6.4   810     ERRSC  
     RELIABLE SIDE CHAINS  .    6.872      1.000       0.500     46     6.4   720     ERRSC  
     SECONDARY STRUCTURE . .    6.843      1.000       0.500     31    14.8   209     ERRSC  
     SURFACE . . . . . . . .    7.336      1.000       0.500     36     6.7   534     ERRSC  
     BURIED  . . . . . . . .    7.167      1.000       0.500     16     5.8   276     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    5.696      1.000       0.500    108     6.5  1654     ERRALL 
     SECONDARY STRUCTURE . .    5.458      1.000       0.500     63    15.0   421     ERRALL 
     SURFACE . . . . . . . .    5.885      1.000       0.500     64     5.8  1098     ERRALL 
     BURIED  . . . . . . . .    5.422      1.000       0.500     44     7.9   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         2         9        14      14     211   DISTCA 
CA  (P)      0.00      0.00      0.95      4.27      6.64             211   DISTCA 
CA  (RMS)    0.00      0.00      2.44      3.78      4.52                   DISTCA 
 
ALL (N)         0         1        11        51        98     108    1654   DISTALL 
ALL (P)      0.00      0.06      0.67      3.08      5.93            1654   DISTALL 
ALL (RMS)    0.00      1.17      2.55      3.83      5.42                   DISTALL 
 
 
 
 
END of the results output 
