 
####################################################### 
#                                                     # 
#                        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: 31 , MODEL 31 , TARGET 376 
#          The number of residues possible to evaluate: 31 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   237     T     E     C             1.00 
 SSP   238     R     E     E             1.00 
 SSP   239     N     E     C             1.00 
 SSP   240     I     E     C             1.00 
 SSP   241     S     E     C             1.00 
 SSP   242     I     E     C             1.00 
 SSP   243     L     E     C             1.00 
 SSP   244     H     E     C             1.00 
 SSP   245     N     E     C             1.00 
 SSP   246     D     E     C             1.00 
 SSP   247     F     E     C             1.00 
 SSP   248     G     C     C             1.00 
 SSP   249     T     C     C             1.00 
 SSP   250     G     C     C             1.00 
 SSP   251     H     C     C             1.00 
 SSP   252     G     C     C             1.00 
 SSP   253     M     E     C             1.00 
 SSP   254     S     E     C             1.00 
 SSP   255     I     E     C             1.00 
 SSP   256     G     E     C             1.00 
 SSP   257     S     E     C             1.00 
 SSP   258     E     E     C             1.00 
 SSP   259     T     E     C             1.00 
 SSP   260     M     C     C             1.00 
 SSP   261     G     C     C             1.00 
 SSP   262     V     E     C             1.00 
 SSP   263     Y     E     C             1.00 
 SSP   264     N     E     C             1.00 
 SSP   265     V     E     E             1.00 
 SSP   266     T     E     C             1.00 
 SSP   267     V     E     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              29.0       0.0      8.3    100.0      8.2 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        11.5     100.0      8.3     22.5      8.2 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            3               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      31    100.0     29.0 
 
 BIN  0.00 - 1.00      1.00      31    100.0     29.0 
 
 
 
 
              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 345 
 
# WARNING! TARGET 2812 atoms, MODEL 2706 atoms, 2706 common with TARGET 
           Number of atoms possible to evaluate: 124 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    59.43           66.7    60     8.0   750     ARMSMC  
     SECONDARY STRUCTURE . .    57.80           73.9    46    12.2   376     ARMSMC  
     SURFACE . . . . . . . .    62.34           66.7    18     5.1   356     ARMSMC  
     BURIED  . . . . . . . .    58.13           66.7    42    10.7   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  237 - 267  31   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    31    237 - 267      2.89     2.89 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  237 - 267  31   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    24    237 - 260      1.76     3.30 
  LCS LOCAL_SCORE:             66.49 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  237 - 267  31   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    12    237 - 248      0.90     3.56 
  LONGEST_CONTINUOUS_SEGMENT    12    246 - 257      0.95     3.65 
  LCS LOCAL_SCORE:             31.95 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     237       T    12   24   31       E        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     238       R    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     239       N    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     240       I    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     241       S    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     242       I    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     243       L    12   24   31       E        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     244       H    12   24   31       E        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     245       N    12   24   31       E        1   2   4   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     246       D    12   24   31       E        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     247       F    12   24   31       E        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     248       G    12   24   31       C        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     249       T    12   24   31       C        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     250       G    12   24   31       C        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     251       H    12   24   31       C        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     252       G    12   24   31       C        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     253       M    12   24   31       E        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     254       S    12   24   31       E        1   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     255       I    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     256       G    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     257       S    12   24   31       E        2   3   5   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     258       E     8   24   31       E        1   2   3   5   5   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     259       T     6   24   31       E        0   1   2   2   3   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     260       M     6   24   31       C        0   1   2   2   3   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     261       G     6    9   31       C        0   1   2   2   3   4   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     262       V     6    9   31       E        0   1   2   2   3   4   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     263       Y     6    9   31       E        0   1   2   2   3   5   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     264       N     6    9   31       E        0   1   1   1   1   2   6   7   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     265       V     4    9   31       E        0   1   2   2   3   4   5   6   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     266       T     4    9   31       E        0   1   2   2   3   4   5   6   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS     267       V     3    9   31       E        0   0   2   2   3   4   5   6   8   8   8   8   8   8   8   8   8   8   8   8  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.22 
 
 NUMBER_OF_CA_Tg:  376      NUMBER_OF_CA_Pr:   31      PERCENT_OF_CA:   8.24  
 
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       8      15      20      21      22      22      24      28      31      31      31      31      31      31      31      31      31      31      31      31  
 GDT PERCENT_OF_CA_Pr   25.81   48.39   64.52   67.74   70.97   70.97   77.42   90.32  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    2.13    3.99    5.32    5.59    5.85    5.85    6.38    7.45    8.24    8.24    8.24    8.24    8.24    8.24    8.24    8.24    8.24    8.24    8.24    8.24 
 GDT FRAGMENT: Beg-End 238-257 237-257 237-257 237-257 237-258 237-258 237-260 237-264 237-267 237-267 237-267 237-267 237-267 237-267 237-267 237-267 237-267 237-267 237-267 237-267 
 GDT RMS_LOCAL           0.32    0.65    0.97    1.04    1.15    1.15    1.76    2.52    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89 
 GDT RMS_ALL_CA          3.57    3.63    3.56    3.54    3.61    3.61    3.30    2.96    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89    2.89 
 
 
 TEST (CA)  RMS =   2.89               (Number of atoms:   31) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.89         31     8.2   376     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0931                            CRMSCA  
     SECONDARY STRUCTURE . .    3.00         24    12.8   188     CRMSCA  
     SURFACE . . . . . . . .    2.88          9     5.0   179     CRMSCA  
     BURIED  . . . . . . . .    2.89         22    11.2   197     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.90        124     6.7  1849     CRMSMC  
     SECONDARY STRUCTURE . .    2.98         96    10.3   935     CRMSMC  
     SURFACE . . . . . . . .    2.86         36     4.1   887     CRMSMC  
     BURIED  . . . . . . . .    2.91         88     9.1   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 . . . . . . . . . .    2.90        124     4.4  2812     CRMSALL 
     SECONDARY STRUCTURE . .    2.98         96     6.5  1467     CRMSALL 
     SURFACE . . . . . . . .    2.86         36     2.6  1395     CRMSALL 
     BURIED  . . . . . . . .    2.91         88     6.2  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 . . . . . . . . . .    2.672      1.000       0.500     31     8.2   376     ERRCA  
     SECONDARY STRUCTURE . .    2.769      1.000       0.500     24    12.8   188     ERRCA  
     SURFACE . . . . . . . .    2.759      1.000       0.500      9     5.0   179     ERRCA  
     BURIED  . . . . . . . .    2.637      1.000       0.500     22    11.2   197     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.672      1.000       0.500    124     6.7  1849     ERRMC  
     SECONDARY STRUCTURE . .    2.746      1.000       0.500     96    10.3   935     ERRMC  
     SURFACE . . . . . . . .    2.731      1.000       0.500     36     4.1   887     ERRMC  
     BURIED  . . . . . . . .    2.648      1.000       0.500     88     9.1   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 . . . . . . . . . .    2.672      1.000       0.500    124     4.4  2812     ERRALL 
     SECONDARY STRUCTURE . .    2.746      1.000       0.500     96     6.5  1467     ERRALL 
     SURFACE . . . . . . . .    2.731      1.000       0.500     36     2.6  1395     ERRALL 
     BURIED  . . . . . . . .    2.648      1.000       0.500     88     6.2  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        14        19        30        31      31     376   DISTCA 
CA  (P)      0.00      3.72      5.05      7.98      8.24             376   DISTCA 
CA  (RMS)    0.00      1.75      1.96      2.78      2.89                   DISTCA 
 
ALL (N)         0        51        79       119       124     124    2812   DISTALL 
ALL (P)      0.00      1.81      2.81      4.23      4.41            2812   DISTALL 
ALL (RMS)    0.00      1.70      1.99      2.76      2.90                   DISTALL 
 
 
 
 
END of the results output 
