 
####################################################### 
#                                                     # 
#                        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: 20 , MODEL 21 , TARGET 47 
#          The number of residues possible to evaluate: 20 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP    28     E     H     C             1.00 
 SSP    29     L     H     H             1.00 
 SSP    30     Q     H     H             1.00 
 SSP    31     A     H     H             1.00 
 SSP    32     L     H     H             1.00 
 SSP    33     E     H     H             1.00 
 SSP    34     K     H     H             1.00 
 SSP    35     K     H     H             1.00 
 SSP    36     L     H     H             1.00 
 SSP    37     A     H     H             1.00 
 SSP    38     A     H     H             1.00 
 SSP    39     L     H     H             1.00 
 SSP    40     K     H     H             1.00 
 SSP    41     S     H     H             1.00 
 SSP    42     K     H     H             1.00 
 SSP    43     L     H     H             1.00 
 SSP    44     Q     H     H             1.00 
 SSP    45     A     H     H             1.00 
 SSP    46     L     H     H             1.00 
 SSP    47     K     C     H             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              90.0      94.7      0.0      0.0     42.6 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        95.0     100.0    100.0      0.0     42.6 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            1             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      20    100.0     90.0 
 
 BIN  0.00 - 1.00      1.00      20    100.0     90.0 
 
 
 
 
              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 
 
 
 
 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          17              17            17             48 
 ALL CONTACTS (< 8.0A)      51              51            51            194 
 
               in PREDICTION      Predicted correctly          Submitted as        in TARGET 
                CONSIDERED     NPC   PC(P)   PC(T)   PC(TT)    NOT  predicted   CONSIDERED  TOTAL  |   SEP 
 RES CONTACTS        51         51  100.00  100.00   26.29       0     0.00          51       194  |   1-9999 
 RES CONTACTS        51         51  100.00  100.00   29.14       0     0.00          51       175  |   1-4    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           0         5  |   5-8    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           0        14  |   9-9999 
 
 
 
# WARNING! TARGET 358 atoms, MODEL 340 atoms, 339 common with TARGET 
           Number of atoms possible to evaluate: 139 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    10.95           97.5    40    42.6    94     ARMSMC  
     SECONDARY STRUCTURE . .     9.63          100.0    37    45.1    82     ARMSMC  
     SURFACE . . . . . . . .     9.65          100.0    37    42.5    87     ARMSMC  
     BURIED  . . . . . . . .    21.23           66.7     3    42.9     7     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    55.75           50.0    12    32.4    37     ARMSSC1 
     RELIABLE SIDE CHAINS  .    55.75           50.0    12    32.4    37     ARMSSC1 
     SECONDARY STRUCTURE . .    55.75           50.0    12    37.5    32     ARMSSC1 
     SURFACE . . . . . . . .    55.75           50.0    12    35.3    34     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    52.35           63.6    11    34.4    32     ARMSSC2 
     RELIABLE SIDE CHAINS  .    50.49           66.7     6    30.0    20     ARMSSC2 
     SECONDARY STRUCTURE . .    52.35           63.6    11    37.9    29     ARMSSC2 
     SURFACE . . . . . . . .    52.35           63.6    11    37.9    29     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    32.22           66.7     6    33.3    18     ARMSSC3 
     RELIABLE SIDE CHAINS  .    33.04           60.0     5    33.3    15     ARMSSC3 
     SECONDARY STRUCTURE . .    32.22           66.7     6    37.5    16     ARMSSC3 
     SURFACE . . . . . . . .    32.22           66.7     6    33.3    18     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    97.47            0.0     3    37.5     8     ARMSSC4 
     RELIABLE SIDE CHAINS  .    97.47            0.0     3    37.5     8     ARMSSC4 
     SECONDARY STRUCTURE . .    97.47            0.0     3    42.9     7     ARMSSC4 
     SURFACE . . . . . . . .    97.47            0.0     3    37.5     8     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   28 - 48   21   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    21     28 - 48       0.65     0.65 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1   28 - 48   21   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    21     28 - 48       0.65     0.65 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1   28 - 48   21   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    21     28 - 48       0.65     0.65 
  LCS LOCAL_SCORE:            100.00 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS      28       E    21   21   21       H       22  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      29       L    21   21   21       H       25  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      30       Q    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      31       A    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      32       L    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      33       E    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      34       K    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      35       K    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      36       L    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      37       A    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      38       A    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      39       L    21   21   21       H       29  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      40       K    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      41       S    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      42       K    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      43       L    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      44       Q    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      45       A    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      46       L    21   21   21       H       33  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      47       K    21   21   21       C       22  39  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS      48       G    21   21   21       -       14  35  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  43  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):  19.14 
 
 NUMBER_OF_CA_Tg:   48      NUMBER_OF_CA_Pr:   21      PERCENT_OF_CA:  43.75  
 
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      16      19      21      21      21      21      21      21      21      21      21      21      21      21      21      21      21      21      21      21  
 GDT PERCENT_OF_CA_Pr   76.19   90.48  100.00  100.00  100.00  100.00  100.00  100.00  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   33.33   39.58   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75   43.75 
 GDT FRAGMENT: Beg-End  30-46   29-47   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48   28-48  
 GDT RMS_LOCAL           0.37    0.49    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65 
 GDT RMS_ALL_CA          0.69    0.67    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65    0.65 
 
 
 TEST (CA)  RMS =   0.65               (Number of atoms:   21) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    0.65         21    43.8    48     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0311                            CRMSCA  
     SECONDARY STRUCTURE . .    0.57         19    46.3    41     CRMSCA  
     SURFACE . . . . . . . .    0.55         19    43.2    44     CRMSCA  
     BURIED  . . . . . . . .    1.24          2    50.0     4     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    0.70         99    41.8   237     CRMSMC  
     SECONDARY STRUCTURE . .    0.60         92    44.9   205     CRMSMC  
     SURFACE . . . . . . . .    0.61         92    42.0   219     CRMSMC  
     BURIED  . . . . . . . .    1.40          7    38.9    18     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    2.15         56    33.5   167     CRMSSC  
     RELIABLE SIDE CHAINS  .    2.11         44    32.1   137     CRMSSC  
     SECONDARY STRUCTURE . .    2.15         56    38.4   146     CRMSSC  
     SURFACE . . . . . . . .    2.15         56    36.1   155     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0    12     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    1.46        139    38.8   358     CRMSALL 
     SECONDARY STRUCTURE . .    1.46        132    42.6   310     CRMSALL 
     SURFACE . . . . . . . .    1.47        132    39.9   331     CRMSALL 
     BURIED  . . . . . . . .    1.40          7    25.9    27     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 . . . . . . . . . .    1.521      0.600       0.660     21    43.8    48     ERRCA  
     SECONDARY STRUCTURE . .    1.466      0.612       0.667     19    46.3    41     ERRCA  
     SURFACE . . . . . . . .    1.455      0.613       0.668     19    43.2    44     ERRCA  
     BURIED  . . . . . . . .    2.155      0.475       0.584      2    50.0     4     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.456      0.584       0.648     99    41.8   237     ERRMC  
     SECONDARY STRUCTURE . .    1.432      0.595       0.659     92    44.9   205     ERRMC  
     SURFACE . . . . . . . .    1.409      0.591       0.655     92    42.0   219     ERRMC  
     BURIED  . . . . . . . .    2.071      0.500       0.567      7    38.9    18     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.120      0.343       0.336     56    33.5   167     ERRSC  
     RELIABLE SIDE CHAINS  .    1.233      0.391       0.395     44    32.1   137     ERRSC  
     SECONDARY STRUCTURE . .    1.120      0.343       0.336     56    38.4   146     ERRSC  
     SURFACE . . . . . . . .    1.120      0.343       0.336     56    36.1   155     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0    12     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.344      0.495       0.530    139    38.8   358     ERRALL 
     SECONDARY STRUCTURE . .    1.322      0.498       0.530    132    42.6   310     ERRALL 
     SURFACE . . . . . . . .    1.306      0.495       0.528    132    39.9   331     ERRALL 
     BURIED  . . . . . . . .    2.071      0.500       0.567      7    25.9    27     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)        19        21        21        21        21      21      48   DISTCA 
CA  (P)     39.58     43.75     43.75     43.75     43.75              48   DISTCA 
CA  (RMS)    0.52      0.65      0.65      0.65      0.65                   DISTCA 
 
ALL (N)        99       119       130       138       139     139     358   DISTALL 
ALL (P)     27.65     33.24     36.31     38.55     38.83             358   DISTALL 
ALL (RMS)    0.54      0.77      1.04      1.38      1.46                   DISTALL 
 
 
 
 
END of the results output 
