 
####################################################### 
#                                                     # 
#                        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 20 , TARGET 378 
#          The number of residues possible to evaluate: 20 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   116     E     C     C             1.00 
 SSP   117     P     C     C             1.00 
 SSP   118     L     C     C             1.00 
 SSP   119     V     C     C             1.00 
 SSP   120     T     E     C             1.00 
 SSP   121     I     H     H             1.00 
 SSP   122     H     H     H             1.00 
 SSP   123     H     H     H             1.00 
 SSP   124     L     H     H             1.00 
 SSP   125     L     H     H             1.00 
 SSP   126     T     H     H             1.00 
 SSP   127     H     C     C             1.00 
 SSP   128     T     C     C             1.00 
 SSP   129     S     C     C             1.00 
 SSP   130     G     C     C             1.00 
 SSP   131     L     C     C             1.00 
 SSP   132     G     C     C             1.00 
 SSP   133     Y     C     C             1.00 
 SSP   134     W     H     C             1.00 
 SSP   135     L     H     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              85.0      75.0      0.0    100.0      5.3 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        85.0      75.0      0.0    100.0      5.3 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            2              50.0               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     85.0 
 
 BIN  0.00 - 1.00      1.00      20    100.0     85.0 
 
 
 
 
              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 336 
 
# WARNING! TARGET 2840 atoms, MODEL 2863 atoms, 2758 common with TARGET 
           Number of atoms possible to evaluate: 80 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    55.24           73.7    38     5.0   754     ARMSMC  
     SECONDARY STRUCTURE . .    11.99          100.0    12     3.9   310     ARMSMC  
     SURFACE . . . . . . . .    80.79           57.1     7     2.1   330     ARMSMC  
     BURIED  . . . . . . . .    47.60           77.4    31     7.3   424     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   278     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   249     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   116     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   119     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   159     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   216     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   157     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    88     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   106     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   110     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    69     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    60     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    25     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    51     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    18     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    35     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    35     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    16     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    28     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     7     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1  116 - 135  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    20    116 - 135      2.41     2.41 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  116 - 135  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    18    116 - 133      1.80     2.59 
  LONGEST_CONTINUOUS_SEGMENT    18    117 - 134      1.92     2.52 
  LCS LOCAL_SCORE:             87.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  116 - 135  20   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    14    118 - 131      0.76     2.98 
  LCS LOCAL_SCORE:             55.50 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     116       E     3   18   20       C        0   0   0   1   1   2   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     117       P     3   18   20       C        0   0   1   1   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     118       L    14   18   20       C        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     119       V    14   18   20       C        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     120       T    14   18   20       E        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     121       I    14   18   20       H        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     122       H    14   18   20       H        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     123       H    14   18   20       H        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     124       L    14   18   20       H        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     125       L    14   18   20       H        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     126       T    14   18   20       H        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     127       H    14   18   20       C        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     128       T    14   18   20       C        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     129       S    14   18   20       C        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     130       G    14   18   20       C        2   3   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     131       L    14   18   20       C        1   1   2   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     132       G     5   18   20       C        1   1   1   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     133       Y     5   18   20       C        1   1   3   3   3   4   4   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     134       W     5   18   20       H        1   1   1   1   1   1   2   5   5   5   5   5   5   5   5   5   5   5   5   5  
 LCS     135       L     5    6   20       H        1   1   1   1   1   3   4   4   4   5   5   5   5   5   5   5   5   5   5   5  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.16 
 
 NUMBER_OF_CA_Tg:  378      NUMBER_OF_CA_Pr:   20      PERCENT_OF_CA:   5.29  
 
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      11      13      14      15      15      16      18      19      19      20      20      20      20      20      20      20      20      20      20      20  
 GDT PERCENT_OF_CA_Pr   55.00   65.00   70.00   75.00   75.00   80.00   90.00   95.00   95.00  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    2.91    3.44    3.70    3.97    3.97    4.23    4.76    5.03    5.03    5.29    5.29    5.29    5.29    5.29    5.29    5.29    5.29    5.29    5.29    5.29 
 GDT FRAGMENT: Beg-End 118-129 118-130 118-133 118-133 118-133 118-133 116-133 116-134 116-134 116-135 116-135 116-135 116-135 116-135 116-135 116-135 116-135 116-135 116-135 116-135 
 GDT RMS_LOCAL           0.32    0.39    0.59    0.83    0.83    1.10    1.80    2.13    2.13    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41 
 GDT RMS_ALL_CA          2.73    2.79    2.78    2.75    2.75    2.83    2.59    2.50    2.50    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41    2.41 
 
 
 TEST (CA)  RMS =   2.41               (Number of atoms:   20) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.41         20     5.3   378     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1205                            CRMSCA  
     SECONDARY STRUCTURE . .    1.18          6     3.9   155     CRMSCA  
     SURFACE . . . . . . . .    2.77          4     2.4   166     CRMSCA  
     BURIED  . . . . . . . .    2.31         16     7.5   212     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.51         80     4.3  1848     CRMSMC  
     SECONDARY STRUCTURE . .    1.14         24     3.1   769     CRMSMC  
     SURFACE . . . . . . . .    2.62         16     2.0   809     CRMSMC  
     BURIED  . . . . . . . .    2.48         64     6.2  1039     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0  1328     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0  1118     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   560     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   583     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   745     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    2.51         80     2.8  2840     CRMSALL 
     SECONDARY STRUCTURE . .    1.14         24     2.0  1180     CRMSALL 
     SURFACE . . . . . . . .    2.62         16     1.3  1247     CRMSALL 
     BURIED  . . . . . . . .    2.48         64     4.0  1593     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 . . . . . . . . . .    1.971      1.000       0.500     20     5.3   378     ERRCA  
     SECONDARY STRUCTURE . .    1.176      1.000       0.500      6     3.9   155     ERRCA  
     SURFACE . . . . . . . .    2.479      1.000       0.500      4     2.4   166     ERRCA  
     BURIED  . . . . . . . .    1.844      1.000       0.500     16     7.5   212     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.952      1.000       0.500     80     4.3  1848     ERRMC  
     SECONDARY STRUCTURE . .    1.121      1.000       0.500     24     3.1   769     ERRMC  
     SURFACE . . . . . . . .    2.234      1.000       0.500     16     2.0   809     ERRMC  
     BURIED  . . . . . . . .    1.881      1.000       0.500     64     6.2  1039     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  1328     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0  1118     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   560     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   583     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   745     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.952      1.000       0.500     80     2.8  2840     ERRALL 
     SECONDARY STRUCTURE . .    1.121      1.000       0.500     24     2.0  1180     ERRALL 
     SURFACE . . . . . . . .    2.234      1.000       0.500     16     1.3  1247     ERRALL 
     BURIED  . . . . . . . .    1.881      1.000       0.500     64     4.0  1593     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        13        16        20        20      20     378   DISTCA 
CA  (P)      1.06      3.44      4.23      5.29      5.29             378   DISTCA 
CA  (RMS)    0.72      1.14      1.47      2.41      2.41                   DISTCA 
 
ALL (N)        21        53        64        77        80      80    2840   DISTALL 
ALL (P)      0.74      1.87      2.25      2.71      2.82            2840   DISTALL 
ALL (RMS)    0.72      1.11      1.43      2.12      2.51                   DISTALL 
 
 
 
 
END of the results output 
