 
####################################################### 
#                                                     # 
#                        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:      # 
#                        # 
########################## 
 
 
 
#          The number of residues in SS section: 31 , MODEL 31 , TARGET 31 
#          The number of residues possible to evaluate: 31 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP     9     F     C     C             1.00 
 SSP    10     E     C     H             1.00 
 SSP    11     L     C     H             1.00 
 SSP    12     D     C     H             1.00 
 SSP    13     Q     H     H             1.00 
 SSP    14     E     H     H             1.00 
 SSP    15     W     H     H             1.00 
 SSP    16     V     H     H             1.00 
 SSP    17     E     H     H             1.00 
 SSP    18     L     H     H             1.00 
 SSP    19     M     H     H             1.00 
 SSP    20     V     H     H             1.00 
 SSP    21     E     H     H             1.00 
 SSP    22     A     H     H             1.00 
 SSP    23     K     H     H             1.00 
 SSP    24     E     H     H             1.00 
 SSP    25     A     C     C             1.00 
 SSP    26     N     C     C             1.00 
 SSP    27     I     C     C             1.00 
 SSP    28     S     C     C             1.00 
 SSP    29     P     H     H             1.00 
 SSP    30     E     H     H             1.00 
 SSP    31     E     H     H             1.00 
 SSP    32     I     H     H             1.00 
 SSP    33     R     H     H             1.00 
 SSP    34     K     H     H             1.00 
 SSP    35     Y     H     H             1.00 
 SSP    36     L     H     H             1.00 
 SSP    37     L     H     H             1.00 
 SSP    38     L     H     H             1.00 
 SSP    39     N     C     C             1.00 
 
 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              90.3     100.0      0.0     66.7    100.0 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        90.3     100.0    100.0     66.7    100.0 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            2             100.0               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     90.3 
 
 BIN  0.00 - 1.00      1.00      31    100.0     90.3 
 
 
 
 
              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 31 
 
# WARNING! TARGET 263 atoms, MODEL 228 atoms, 124 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 . . . . . . . . . .    48.01           85.0    60   100.0    60     ARMSMC  
     SECONDARY STRUCTURE . .     8.76          100.0    44   100.0    44     ARMSMC  
     SURFACE . . . . . . . .    49.64           83.9    56   100.0    56     ARMSMC  
     BURIED  . . . . . . . .     8.58          100.0     4   100.0     4     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    29     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    27     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    21     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    28     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     1     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    26     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    19     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    19     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    25     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     1     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    12     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    11     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    11     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    12     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0     3     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     3     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1    9 - 39   31   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    31      9 - 39       2.73     2.73 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1    9 - 39   31   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    28     12 - 39       1.84     3.21 
  LCS LOCAL_SCORE:             84.70 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1    9 - 39   31   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    18     12 - 29       0.82     3.92 
  LONGEST_CONTINUOUS_SEGMENT    18     22 - 39       0.96     3.80 
  LCS LOCAL_SCORE:             53.38 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS       9       F     3    3   31       C        0   9   9   9  12  16  25  32  77  96 100 100 100 100 100 100 100 100 100 100  
 LCS      10       E     3    3   31       C        3   9   9   9  12  16  25  38  77  90 100 100 100 100 100 100 100 100 100 100  
 LCS      11       L     3   24   31       C        9   9   9   9  12  32  58  83  87  96 100 100 100 100 100 100 100 100 100 100  
 LCS      12       D    18   28   31       C       25  54  58  70  74  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      13       Q    18   28   31       H       38  54  58  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      14       E    18   28   31       H       25  54  58  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      15       W    18   28   31       H       35  54  58  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      16       V    18   28   31       H       38  54  58  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      17       E    18   28   31       H       38  54  58  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      18       L    18   28   31       H       38  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      19       M    18   28   31       H       38  54  58  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      20       V    18   28   31       H       38  54  58  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      21       E    18   28   31       H       38  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      22       A    18   28   31       H       38  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      23       K    18   28   31       H       38  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      24       E    18   28   31       H       38  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      25       A    18   28   31       C       38  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      26       N    18   28   31       C       38  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      27       I    18   28   31       C       29  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      28       S    18   28   31       C       35  54  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      29       P    18   28   31       H       35  48  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      30       E    18   28   31       H       35  48  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      31       E    18   28   31       H       35  48  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      32       I    18   28   31       H       35  48  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      33       R    18   28   31       H       35  48  64  67  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      34       K    18   28   31       H       35  48  64  67  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      35       Y    18   28   31       H       35  48  64  70  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      36       L    18   28   31       H       35  48  64  67  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      37       L    18   28   31       H       35  48  64  64  74  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      38       L    18   28   31       H       35  48  64  67  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS      39       N    18   28   31       C       22  48  64  67  77  87  90  90  90  96 100 100 100 100 100 100 100 100 100 100  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):  53.38 
 
 NUMBER_OF_CA_Tg:   31      NUMBER_OF_CA_Pr:   31      PERCENT_OF_CA: 100.00  
 
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      12      17      20      22      24      27      28      28      28      30      31      31      31      31      31      31      31      31      31      31  
 GDT PERCENT_OF_CA_Pr   38.71   54.84   64.52   70.97   77.42   87.10   90.32   90.32   90.32   96.77  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   38.71   54.84   64.52   70.97   77.42   87.10   90.32   90.32   90.32   96.77  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00  100.00 
 GDT FRAGMENT: Beg-End  13-26   12-28   18-39   12-35   13-36   13-39   12-39   12-39   12-39    9-39    9-39    9-39    9-39    9-39    9-39    9-39    9-39    9-39    9-39    9-39  
 GDT RMS_LOCAL           0.27    0.58    1.05    1.31    1.58    1.77    1.84    1.84    1.84    2.52    2.73    2.73    2.73    2.73    2.73    2.73    2.73    2.73    2.73    2.73 
 GDT RMS_ALL_CA          5.03    4.19    3.69    3.36    3.13    3.23    3.21    3.21    3.21    2.77    2.73    2.73    2.73    2.73    2.73    2.73    2.73    2.73    2.73    2.73 
 
 
 TEST (CA)  RMS =   2.73               (Number of atoms:   31) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.73         31   100.0    31     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0880                            CRMSCA  
     SECONDARY STRUCTURE . .    2.16         22   100.0    22     CRMSCA  
     SURFACE . . . . . . . .    2.81         29   100.0    29     CRMSCA  
     BURIED  . . . . . . . .    1.09          2   100.0     2     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.68        124    80.0   155     CRMSMC  
     SECONDARY STRUCTURE . .    2.12         88    80.0   110     CRMSMC  
     SURFACE . . . . . . . .    2.75        116    80.0   145     CRMSMC  
     BURIED  . . . . . . . .    1.11          8    80.0    10     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   139     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   119     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   104     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   134     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0     5     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    2.68        124    47.1   263     CRMSALL 
     SECONDARY STRUCTURE . .    2.12         88    45.8   192     CRMSALL 
     SURFACE . . . . . . . .    2.75        116    46.4   250     CRMSALL 
     BURIED  . . . . . . . .    1.11          8    61.5    13     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 . . . . . . . . . .    2.362      1.000       0.500     31   100.0    31     ERRCA  
     SECONDARY STRUCTURE . .    1.948      1.000       0.500     22   100.0    22     ERRCA  
     SURFACE . . . . . . . .    2.450      1.000       0.500     29   100.0    29     ERRCA  
     BURIED  . . . . . . . .    1.086      1.000       0.500      2   100.0     2     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.292      1.000       0.500    124    80.0   155     ERRMC  
     SECONDARY STRUCTURE . .    1.889      1.000       0.500     88    80.0   110     ERRMC  
     SURFACE . . . . . . . .    2.376      1.000       0.500    116    80.0   145     ERRMC  
     BURIED  . . . . . . . .    1.068      1.000       0.500      8    80.0    10     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   139     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   119     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   104     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   134     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0     5     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.292      1.000       0.500    124    47.1   263     ERRALL 
     SECONDARY STRUCTURE . .    1.889      1.000       0.500     88    45.8   192     ERRALL 
     SURFACE . . . . . . . .    2.376      1.000       0.500    116    46.4   250     ERRALL 
     BURIED  . . . . . . . .    1.068      1.000       0.500      8    61.5    13     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)         4        15        21        29        31      31      31   DISTCA 
CA  (P)     12.90     48.39     67.74     93.55    100.00              31   DISTCA 
CA  (RMS)    0.77      1.33      1.68      2.40      2.73                   DISTCA 
 
ALL (N)        20        66        91       115       124     124     263   DISTALL 
ALL (P)      7.60     25.10     34.60     43.73     47.15             263   DISTALL 
ALL (RMS)    0.72      1.35      1.73      2.31      2.68                   DISTALL 
 
 
 
 
END of the results output 
