 
####################################################### 
#                                                     # 
#                        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: 13 , MODEL 13 , TARGET 152 
#          The number of residues possible to evaluate: 13 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   110     A     C     C             1.00 
 SSP   111     T     C     C             1.00 
 SSP   112     Y     C     C             1.00 
 SSP   113     P     C     C             1.00 
 SSP   114     A     C     C             1.00 
 SSP   115     T     C     C             1.00 
 SSP   116     P     C     C             1.00 
 SSP   117     A     C     C             1.00 
 SSP   118     A     C     C             1.00 
 SSP   119     D     C     C             1.00 
 SSP   120     D     C     C             1.00 
 SSP   121     P     C     C             1.00 
 SSP   122     E     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              92.3       0.0      0.0    100.0      8.6 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        92.3     100.0      0.0    100.0      8.6 
 
           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      13    100.0     92.3 
 
 BIN  0.00 - 1.00      1.00      13    100.0     92.3 
 
 
 
 
              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 
 
 
 
 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          13              13            13            152 
 ALL CONTACTS (< 8.0A)      23              34            23            762 
 
               in PREDICTION      Predicted correctly          Submitted as        in TARGET 
                CONSIDERED     NPC   PC(P)   PC(T)   PC(TT)    NOT  predicted   CONSIDERED  TOTAL  |   SEP 
 RES CONTACTS        23         20   86.96   58.82    2.62       0     0.00          34       762  |   1-9999 
 RES CONTACTS        23         20   86.96   80.00    6.47       0     0.00          25       309  |   1-4    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           7        33  |   5-8    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           2       420  |   9-9999 
 
 
 
# WARNING! TARGET 1087 atoms, MODEL 1059 atoms, 1059 common with TARGET 
           Number of atoms possible to evaluate: 65 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    61.88           41.7    24     7.9   302     ARMSMC  
     SECONDARY STRUCTURE . .    44.69            0.0     1     0.9   116     ARMSMC  
     SURFACE . . . . . . . .    61.91           44.4    18     9.9   182     ARMSMC  
     BURIED  . . . . . . . .    61.80           33.3     6     5.0   120     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   113     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    99     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    46     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    70     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    43     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    68     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    54     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    26     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    41     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    27     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    17     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    12     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     9     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    14     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     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  110 - 122  13   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    13    110 - 122      4.59     4.59 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  110 - 122  13   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     7    110 - 116      1.92     7.99 
  LONGEST_CONTINUOUS_SEGMENT     7    112 - 118      1.96     5.65 
  LCS LOCAL_SCORE:             49.70 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  110 - 122  13   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT     5    112 - 116      0.77     8.29 
  LCS LOCAL_SCORE:             32.54 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     110       A     4    7   13       C        1   1   2   3   4   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     111       T     4    7   13       C        1   2   3   3   4   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     112       Y     5    7   13       C        2   2   3   3   3   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     113       P     5    7   13       C        2   2   3   3   4   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     114       A     5    7   13       C        2   2   3   3   3   4   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     115       T     5    7   13       C        2   2   3   3   4   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     116       P     5    7   13       C        1   2   3   3   3   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     117       A     3    7   13       C        1   2   3   3   4   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     118       A     3    7   13       C        1   2   3   3   4   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     119       D     4    6   13       C        1   2   3   3   4   5   5   6   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     120       D     4    5   13       C        1   2   2   2   3   4   4   5   7   7   7   7   7   7   7   7   7   7   7   8  
 LCS     121       P     4    5   13       C        1   2   2   2   3   3   3   4   5   7   7   7   7   7   7   7   7   7   7   8  
 LCS     122       E     4    5   13       E        1   2   2   2   3   3   3   3   3   3   3   3   5   5   6   6   6   7   7   8  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.24 
 
 NUMBER_OF_CA_Tg:  152      NUMBER_OF_CA_Pr:   13      PERCENT_OF_CA:   8.55  
 
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       5       6       7       8       9      10      11      11      12      12      12      12      12      12      12      12      12      13  
 GDT PERCENT_OF_CA_Pr   30.77   30.77   38.46   46.15   53.85   61.54   69.23   76.92   84.62   84.62   92.31   92.31   92.31   92.31   92.31   92.31   92.31   92.31   92.31  100.00 
 GDT PERCENT_OF_CA_Tg    2.63    2.63    3.29    3.95    4.61    5.26    5.92    6.58    7.24    7.24    7.89    7.89    7.89    7.89    7.89    7.89    7.89    7.89    7.89    8.55 
 GDT FRAGMENT: Beg-End 112-115 112-115 112-116 111-119 110-119 110-119 110-119 110-119 110-120 110-120 110-121 110-121 110-121 110-121 110-121 110-121 110-121 110-121 110-121 110-122 
 GDT RMS_LOCAL           0.24    0.24    0.77    1.11    1.57    1.91    2.17    2.51    2.86    2.86    3.35    3.35    3.35    3.35    3.35    3.35    3.35    3.35    3.35    4.59 
 GDT RMS_ALL_CA          9.15    9.15    8.29    5.27    5.42    5.37    5.31    5.04    5.00    5.00    4.76    4.76    4.76    4.76    4.76    4.76    4.76    4.76    4.76    4.59 
 
 
 TEST (CA)  RMS =   4.59               (Number of atoms:   13) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    4.59         13     8.6   152     CRMSCA  
     CRN = ALL/NP  . . . . .    0.3529                            CRMSCA  
     SECONDARY STRUCTURE . .   10.99          1     1.7    58     CRMSCA  
     SURFACE . . . . . . . .    3.15          9     9.8    92     CRMSCA  
     BURIED  . . . . . . . .    6.79          4     6.7    60     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    4.84         65     8.8   742     CRMSMC  
     SECONDARY STRUCTURE . .   10.80          5     1.7   286     CRMSMC  
     SURFACE . . . . . . . .    3.66         45    10.0   449     CRMSMC  
     BURIED  . . . . . . . .    6.80         20     6.8   293     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    5.99         13     2.7   479     CRMSSC  
     RELIABLE SIDE CHAINS  .    5.99         13     3.1   413     CRMSSC  
     SECONDARY STRUCTURE . .   13.22          1     0.5   207     CRMSSC  
     SURFACE . . . . . . . .    4.94          9     3.2   281     CRMSSC  
     BURIED  . . . . . . . .    7.84          4     2.0   198     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    4.84         65     6.0  1087     CRMSALL 
     SECONDARY STRUCTURE . .   10.80          5     1.1   439     CRMSALL 
     SURFACE . . . . . . . .    3.66         45     6.9   649     CRMSALL 
     BURIED  . . . . . . . .    6.80         20     4.6   438     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 . . . . . . . . . .    3.978      1.000       0.500     13     8.6   152     ERRCA  
     SECONDARY STRUCTURE . .   10.990      1.000       0.500      1     1.7    58     ERRCA  
     SURFACE . . . . . . . .    3.002      1.000       0.500      9     9.8    92     ERRCA  
     BURIED  . . . . . . . .    6.173      1.000       0.500      4     6.7    60     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    4.162      1.000       0.500     65     8.8   742     ERRMC  
     SECONDARY STRUCTURE . .   10.688      1.000       0.500      5     1.7   286     ERRMC  
     SURFACE . . . . . . . .    3.388      1.000       0.500     45    10.0   449     ERRMC  
     BURIED  . . . . . . . .    5.903      1.000       0.500     20     6.8   293     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    5.431      1.000       0.500     13     2.7   479     ERRSC  
     RELIABLE SIDE CHAINS  .    5.431      1.000       0.500     13     3.1   413     ERRSC  
     SECONDARY STRUCTURE . .   13.220      1.000       0.500      1     0.5   207     ERRSC  
     SURFACE . . . . . . . .    4.790      1.000       0.500      9     3.2   281     ERRSC  
     BURIED  . . . . . . . .    6.873      1.000       0.500      4     2.0   198     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    4.162      1.000       0.500     65     6.0  1087     ERRALL 
     SECONDARY STRUCTURE . .   10.688      1.000       0.500      5     1.1   439     ERRALL 
     SURFACE . . . . . . . .    3.388      1.000       0.500     45     6.9   649     ERRALL 
     BURIED  . . . . . . . .    5.903      1.000       0.500     20     4.6   438     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         1         5        11        12      13     152   DISTCA 
CA  (P)      0.00      0.66      3.29      7.24      7.89             152   DISTCA 
CA  (RMS)    0.00      1.76      2.33      3.41      3.57                   DISTCA 
 
ALL (N)         1         9        25        49        62      65    1087   DISTALL 
ALL (P)      0.09      0.83      2.30      4.51      5.70            1087   DISTALL 
ALL (RMS)    0.81      1.46      2.29      3.24      4.23                   DISTALL 
 
 
 
 
END of the results output 
