 
####################################################### 
#                                                     # 
#                        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: 26 , MODEL 26 , TARGET 376 
#          The number of residues possible to evaluate: 26 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   323     P     C     C             1.00 
 SSP   324     D     E     C             1.00 
 SSP   325     W     E     E             1.00 
 SSP   326     S     E     C             1.00 
 SSP   327     D     E     C             1.00 
 SSP   328     I     E     E             1.00 
 SSP   329     T     E     C             1.00 
 SSP   330     F     E     C             1.00 
 SSP   331     K     E     C             1.00 
 SSP   332     D     E     C             1.00 
 SSP   333     V     E     C             1.00 
 SSP   334     T     E     C             1.00 
 SSP   335     S     E     C             1.00 
 SSP   336     E     C     C             1.00 
 SSP   337     T     C     C             1.00 
 SSP   338     K     C     C             1.00 
 SSP   339     G     C     C             1.00 
 SSP   340     V     E     C             1.00 
 SSP   341     V     E     C             1.00 
 SSP   342     V     E     C             1.00 
 SSP   343     L     E     C             1.00 
 SSP   344     N     E     C             1.00 
 SSP   345     G     C     C             1.00 
 SSP   346     E     C     C             1.00 
 SSP   347     N     C     C             1.00 
 SSP   348     A     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              42.3       0.0     11.8    100.0      6.9 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        12.9     100.0      6.9     32.2      6.9 
 
           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      26    100.0     42.3 
 
 BIN  0.00 - 1.00      1.00      26    100.0     42.3 
 
 
 
 
              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 345 
 
# WARNING! TARGET 2812 atoms, MODEL 2718 atoms, 2718 common with TARGET 
           Number of atoms possible to evaluate: 104 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    77.25           44.0    50     6.7   750     ARMSMC  
     SECONDARY STRUCTURE . .    54.38           58.8    34     9.0   376     ARMSMC  
     SURFACE . . . . . . . .    89.51           42.3    26     7.3   356     ARMSMC  
     BURIED  . . . . . . . .    61.26           45.8    24     6.1   394     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   321     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   285     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   171     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   166     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   155     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   205     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   151     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   113     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   111     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    70     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    63     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    34     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    58     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    12     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    47     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    47     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    23     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    44     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  323 - 348  26   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    18    323 - 340      4.64    11.12 
  LONGEST_CONTINUOUS_SEGMENT    18    324 - 341      4.70    10.99 
  LONGEST_CONTINUOUS_SEGMENT    18    325 - 342      4.80    10.53 
  LCS LOCAL_SCORE:             64.94 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  323 - 348  26   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    13    326 - 338      1.75    12.34 
  LONGEST_CONTINUOUS_SEGMENT    13    327 - 339      2.00    12.00 
  LCS LOCAL_SCORE:             38.46 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  323 - 348  26   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     9    329 - 337      0.70    12.19 
  LONGEST_CONTINUOUS_SEGMENT     9    330 - 338      0.97    12.64 
  LCS LOCAL_SCORE:             23.96 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     323       P     3    6   18       C        0   0   0   1   1   1   1   1   1   1   1   1   2   2   2   3   4   4   4   4  
 LCS     324       D     3    6   18       E        0   0   0   1   1   1   1   1   1   1   1   1   1   1   2   2   3   4   4   4  
 LCS     325       W     3    6   18       E        0   0   0   1   1   1   1   2   3   3   4   4   4   4   4   4   4   4   4   4  
 LCS     326       S     3   13   18       E        0   0   0   1   1   3   3   3   3   3   4   4   4   4   4   4   4   4   4   4  
 LCS     327       D     6   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   4   4  
 LCS     328       I     6   13   18       E        0   1   1   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   4   4  
 LCS     329       T     9   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   4   5  
 LCS     330       F     9   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     331       K     9   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     332       D     9   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     333       V     9   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     334       T     9   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     335       S     9   13   18       E        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     336       E     9   13   18       C        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     337       T     9   13   18       C        1   2   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     338       K     9   13   18       C        0   1   2   2   2   3   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     339       G     6   13   18       C        0   1   1   1   2   2   3   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     340       V     6    8   18       E        0   1   1   1   2   2   2   3   3   3   4   4   4   4   4   4   4   4   5   5  
 LCS     341       V     6    8   18       E        0   1   1   1   2   2   2   2   2   2   3   3   3   3   3   4   4   4   5   5  
 LCS     342       V     6    8   18       E        0   1   1   1   2   2   2   2   2   2   3   3   3   3   3   4   4   4   5   5  
 LCS     343       L     6    8   15       E        0   1   1   1   2   2   2   2   2   2   2   3   3   3   3   3   3   4   5   5  
 LCS     344       N     6    8   15       E        0   1   1   1   2   2   2   2   2   2   3   3   3   3   3   4   4   4   5   5  
 LCS     345       G     3    5   15       C        0   0   0   1   1   2   2   2   2   2   3   3   3   3   3   4   4   4   5   5  
 LCS     346       E     3    5   15       C        0   0   0   1   1   1   1   1   1   2   3   3   3   3   3   4   4   4   5   5  
 LCS     347       N     3    5   11       C        0   0   0   1   1   1   1   1   1   1   1   2   2   2   2   2   2   4   5   5  
 LCS     348       A     3    5    8       C        0   0   0   1   1   1   1   1   1   1   1   1   1   1   1   1   2   2   5   5  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.11 
 
 NUMBER_OF_CA_Tg:  376      NUMBER_OF_CA_Pr:   26      PERCENT_OF_CA:   6.91  
 
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       7       8      10      11      11      13      13      14      15      15      16      16      16      16      16      16      17      18      19      19  
 GDT PERCENT_OF_CA_Pr   26.92   30.77   38.46   42.31   42.31   50.00   50.00   53.85   57.69   57.69   61.54   61.54   61.54   61.54   61.54   61.54   65.38   69.23   73.08   73.08 
 GDT PERCENT_OF_CA_Tg    1.86    2.13    2.66    2.93    2.93    3.46    3.46    3.72    3.99    3.99    4.26    4.26    4.26    4.26    4.26    4.26    4.52    4.79    5.05    5.05 
 GDT FRAGMENT: Beg-End 330-336 327-336 327-337 327-338 327-338 326-338 326-338 326-339 325-339 325-339 325-340 325-340 325-340 325-340 325-340 325-340 325-341 325-342 330-348 330-348 
 GDT RMS_LOCAL           0.35    0.41    0.74    1.15    1.15    1.75    1.75    2.18    2.56    2.56    3.00    3.00    3.00    3.00    3.00    3.00    4.04    4.80    6.38    6.38 
 GDT RMS_ALL_CA         12.63   12.84   12.46   12.15   12.15   12.34   12.34   11.90   11.96   11.96   11.57   11.57   11.57   11.57   11.57   11.57   11.06   10.53   10.58   10.58 
 
 
 TEST (CA)  RMS =   8.67               (Number of atoms:   26) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    8.67         26     6.9   376     CRMSCA  
     CRN = ALL/NP  . . . . .    0.3334                            CRMSCA  
     SECONDARY STRUCTURE . .    8.14         17     9.0   188     CRMSCA  
     SURFACE . . . . . . . .    7.84         13     7.3   179     CRMSCA  
     BURIED  . . . . . . . .    9.42         13     6.6   197     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    8.73        104     5.6  1849     CRMSMC  
     SECONDARY STRUCTURE . .    8.13         68     7.3   935     CRMSMC  
     SURFACE . . . . . . . .    7.83         52     5.9   887     CRMSMC  
     BURIED  . . . . . . . .    9.54         52     5.4   962     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0  1308     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0  1108     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   715     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   679     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   629     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    8.73        104     3.7  2812     CRMSALL 
     SECONDARY STRUCTURE . .    8.13         68     4.6  1467     CRMSALL 
     SURFACE . . . . . . . .    7.83         52     3.7  1395     CRMSALL 
     BURIED  . . . . . . . .    9.54         52     3.7  1417     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 . . . . . . . . . .    8.058      1.000       0.500     26     6.9   376     ERRCA  
     SECONDARY STRUCTURE . .    7.457      1.000       0.500     17     9.0   188     ERRCA  
     SURFACE . . . . . . . .    7.208      1.000       0.500     13     7.3   179     ERRCA  
     BURIED  . . . . . . . .    8.908      1.000       0.500     13     6.6   197     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    8.099      1.000       0.500    104     5.6  1849     ERRMC  
     SECONDARY STRUCTURE . .    7.472      1.000       0.500     68     7.3   935     ERRMC  
     SURFACE . . . . . . . .    7.193      1.000       0.500     52     5.9   887     ERRMC  
     BURIED  . . . . . . . .    9.004      1.000       0.500     52     5.4   962     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  1308     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0  1108     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   715     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   679     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   629     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    8.099      1.000       0.500    104     3.7  2812     ERRALL 
     SECONDARY STRUCTURE . .    7.472      1.000       0.500     68     4.6  1467     ERRALL 
     SURFACE . . . . . . . .    7.193      1.000       0.500     52     3.7  1395     ERRALL 
     BURIED  . . . . . . . .    9.004      1.000       0.500     52     3.7  1417     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         1         6        16      26     376   DISTCA 
CA  (P)      0.00      0.00      0.27      1.60      4.26             376   DISTCA 
CA  (RMS)    0.00      0.00      2.76      3.85      6.15                   DISTCA 
 
ALL (N)         0         1         4        24        66     104    2812   DISTALL 
ALL (P)      0.00      0.04      0.14      0.85      2.35            2812   DISTALL 
ALL (RMS)    0.00      1.76      2.53      3.84      6.37                   DISTALL 
 
 
 
 
END of the results output 
