 
####################################################### 
#                                                     # 
#                        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: 39 , MODEL 39 , TARGET 190 
#          The number of residues possible to evaluate: 39 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   126     N     C     C             1.00 
 SSP   127     G     C     C             1.00 
 SSP   128     R     C     C             1.00 
 SSP   129     T     E     C             1.00 
 SSP   130     K     E     C             1.00 
 SSP   131     S     E     C             1.00 
 SSP   132     R     H     H             1.00 
 SSP   133     Q     H     H             1.00 
 SSP   134     A     H     H             1.00 
 SSP   135     I     H     H             1.00 
 SSP   136     K     H     H             1.00 
 SSP   137     G     H     H             1.00 
 SSP   138     F     H     H             1.00 
 SSP   139     L     H     H             1.00 
 SSP   140     K     H     H             1.00 
 SSP   141     A     H     H             1.00 
 SSP   142     K     H     H             1.00 
 SSP   143     F     H     H             1.00 
 SSP   144     G     C     C             1.00 
 SSP   145     K     C     C             1.00 
 SSP   146     F     C     C             1.00 
 SSP   147     P     C     C             1.00 
 SSP   148     G     E     E             1.00 
 SSP   149     L     E     E             1.00 
 SSP   150     R     E     E             1.00 
 SSP   151     C     E     E             1.00 
 SSP   152     R     E     C             1.00 
 SSP   153     T     E     C             1.00 
 SSP   154     D     C     C             1.00 
 SSP   155     P     C     C             1.00 
 SSP   156     Q     C     E             1.00 
 SSP   157     T     C     E             1.00 
 SSP   158     K     C     E             1.00 
 SSP   159     V     C     E             1.00 
 SSP   160     S     E     E             1.00 
 SSP   161     Y     E     C             1.00 
 SSP   162     L     E     C             1.00 
 SSP   163     V     E     C             1.00 
 SSP   164     Q     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              66.7     100.0     35.7     69.2     20.5 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        72.1     100.0     50.8     69.2     20.5 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            4              75.0               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      39    100.0     66.7 
 
 BIN  0.00 - 1.00      1.00      39    100.0     66.7 
 
 
 
 
              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 175 
 
# WARNING! TARGET 1495 atoms, MODEL 1340 atoms, 1340 common with TARGET 
           Number of atoms possible to evaluate: 156 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    54.04           78.9    76    20.1   378     ARMSMC  
     SECONDARY STRUCTURE . .    35.74           90.2    51    25.0   204     ARMSMC  
     SURFACE . . . . . . . .    56.11           74.5    51    24.5   208     ARMSMC  
     BURIED  . . . . . . . .    49.56           88.0    25    14.7   170     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   162     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   154     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    89     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    88     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    74     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   115     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    87     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    67     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    59     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    56     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    36     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    22     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    24     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    26     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    10     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    19     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    19     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    12     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    16     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  126 - 164  39   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    32    126 - 157      4.52     8.39 
  LCS LOCAL_SCORE:             71.93 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  126 - 164  39   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    29    126 - 154      1.67     9.11 
  LCS LOCAL_SCORE:             60.22 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  126 - 164  39   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    28    126 - 153      0.93     9.12 
  LCS LOCAL_SCORE:             55.03 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     126       N    28   29   32       C        2   2   5  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     127       G    28   29   32       C        3   9  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     128       R    28   29   32       C        3  11  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     129       T    28   29   32       E        5  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     130       K    28   29   32       E        4  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     131       S    28   29   32       E        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     132       R    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     133       Q    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     134       A    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     135       I    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     136       K    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     137       G    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     138       F    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     139       L    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     140       K    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     141       A    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     142       K    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     143       F    28   29   32       H        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     144       G    28   29   32       C        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     145       K    28   29   32       C        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     146       F    28   29   32       C        5  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     147       P    28   29   32       C        5  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     148       G    28   29   32       E        5  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     149       L    28   29   32       E        3  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     150       R    28   29   32       E        6  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     151       C    28   29   32       E        5  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     152       R    28   29   32       E        5  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     153       T    28   29   32       E        3  12  14  14  14  14  14  14  14  14  15  15  15  15  15  15  15  15  15  16  
 LCS     154       D     3   29   32       C        1   1   1   2   2   2   2   4   5  13  15  15  15  15  15  15  15  15  15  16  
 LCS     155       P     3    5   32       C        1   1   1   2   2   2   2   3   3   4   4   5   8  14  15  15  15  15  15  16  
 LCS     156       Q     3    6   32       C        1   1   1   2   3   3   3   3   4   4   4   4   4   5   5   6   8   9  10  11  
 LCS     157       T     3    8   32       C        1   1   1   2   3   3   4   4   4   4   4   4   4   5   8  12  14  15  15  16  
 LCS     158       K     5    8   10       C        1   2   3   3   3   3   4   4   4   4   4   4   4   5   5   6   8   9  13  15  
 LCS     159       V     6    8   10       C        2   2   3   3   3   3   4   4   4   4   4   4   4   5   5   6   8   9  12  15  
 LCS     160       S     6    8   10       E        2   2   3   3   3   3   4   4   4   4   4   4   4   5   5   6   8   9  10  15  
 LCS     161       Y     6    8   10       E        2   2   3   3   3   3   4   4   4   4   4   4   4   5   5   5   8   9  10  15  
 LCS     162       L     6    8   10       E        2   2   3   3   3   3   4   4   4   4   4   4   4   5   5   5   8   9  10  15  
 LCS     163       V     6    8   10       E        1   2   3   3   3   3   4   4   4   4   4   4   4   5   5   5   5   5   5   8  
 LCS     164       Q     6    8   10       E        0   1   3   3   3   3   4   4   4   4   4   4   4   5   5   5   5   5   5   5  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   2.32 
 
 NUMBER_OF_CA_Tg:  190      NUMBER_OF_CA_Pr:   39      PERCENT_OF_CA:  20.53  
 
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      13      24      27      28      28      28      28      28      28      28      29      29      29      29      30      30      30      30      30      31  
 GDT PERCENT_OF_CA_Pr   33.33   61.54   69.23   71.79   71.79   71.79   71.79   71.79   71.79   71.79   74.36   74.36   74.36   74.36   76.92   76.92   76.92   76.92   76.92   79.49 
 GDT PERCENT_OF_CA_Tg    6.84   12.63   14.21   14.74   14.74   14.74   14.74   14.74   14.74   14.74   15.26   15.26   15.26   15.26   15.79   15.79   15.79   15.79   15.79   16.32 
 GDT FRAGMENT: Beg-End 131-144 129-152 127-153 126-153 126-153 126-153 126-153 126-153 126-153 126-153 126-154 126-154 126-154 126-154 126-155 126-155 126-155 126-155 126-155 126-157 
 GDT RMS_LOCAL           0.33    0.61    0.81    0.93    0.93    0.93    0.93    0.93    0.93    0.93    1.67    1.67    1.67    1.67    2.59    2.59    2.59    2.59    2.59    3.75 
 GDT RMS_ALL_CA          9.30    9.22    9.18    9.12    9.12    9.12    9.12    9.12    9.12    9.12    9.11    9.11    9.11    9.11    8.98    8.98    8.98    8.98    8.98    8.59 
 
 
 TEST (CA)  RMS =   7.54               (Number of atoms:   39) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    7.54         39    20.5   190     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1934                            CRMSCA  
     SECONDARY STRUCTURE . .    7.12         26    25.5   102     CRMSCA  
     SURFACE . . . . . . . .    7.25         26    25.0   104     CRMSCA  
     BURIED  . . . . . . . .    8.09         13    15.1    86     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    7.55        156    16.7   935     CRMSMC  
     SECONDARY STRUCTURE . .    7.20        104    20.6   506     CRMSMC  
     SURFACE . . . . . . . .    7.26        104    20.3   512     CRMSMC  
     BURIED  . . . . . . . .    8.11         52    12.3   423     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   735     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   625     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   426     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   368     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   367     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    7.55        156    10.4  1495     CRMSALL 
     SECONDARY STRUCTURE . .    7.20        104    12.5   834     CRMSALL 
     SURFACE . . . . . . . .    7.26        104    13.3   784     CRMSALL 
     BURIED  . . . . . . . .    8.11         52     7.3   711     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 . . . . . . . . . .    6.645      1.000       0.500     39    20.5   190     ERRCA  
     SECONDARY STRUCTURE . .    6.129      1.000       0.500     26    25.5   102     ERRCA  
     SURFACE . . . . . . . .    6.408      1.000       0.500     26    25.0   104     ERRCA  
     BURIED  . . . . . . . .    7.118      1.000       0.500     13    15.1    86     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.679      1.000       0.500    156    16.7   935     ERRMC  
     SECONDARY STRUCTURE . .    6.223      1.000       0.500    104    20.6   506     ERRMC  
     SURFACE . . . . . . . .    6.463      1.000       0.500    104    20.3   512     ERRMC  
     BURIED  . . . . . . . .    7.112      1.000       0.500     52    12.3   423     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   735     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   625     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   426     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   368     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   367     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.679      1.000       0.500    156    10.4  1495     ERRALL 
     SECONDARY STRUCTURE . .    6.223      1.000       0.500    104    12.5   834     ERRALL 
     SURFACE . . . . . . . .    6.463      1.000       0.500    104    13.3   784     ERRALL 
     BURIED  . . . . . . . .    7.112      1.000       0.500     52     7.3   711     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         3        17        30      39     190   DISTCA 
CA  (P)      0.00      0.00      1.58      8.95     15.79             190   DISTCA 
CA  (RMS)    0.00      0.00      2.80      3.87      5.13                   DISTCA 
 
ALL (N)         0         0         6        73       119     156    1495   DISTALL 
ALL (P)      0.00      0.00      0.40      4.88      7.96            1495   DISTALL 
ALL (RMS)    0.00      0.00      2.80      4.03      5.14                   DISTALL 
 
 
 
 
END of the results output 
