 
####################################################### 
#                                                     # 
#                        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: 43 , MODEL 43 , TARGET 340 
#          The number of residues possible to evaluate: 43 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   205     D     E     C             1.00 
 SSP   206     I     E     C             1.00 
 SSP   207     A     E     C             1.00 
 SSP   208     T     E     C             1.00 
 SSP   209     M     E     C             1.00 
 SSP   210     A     E     C             1.00 
 SSP   211     V     E     C             1.00 
 SSP   212     I     E     C             1.00 
 SSP   213     A     E     C             1.00 
 SSP   214     P     C     C             1.00 
 SSP   215     T     C     C             1.00 
 SSP   216     T     C     C             1.00 
 SSP   217     L     C     C             1.00 
 SSP   218     M     C     C             1.00 
 SSP   219     H     E     C             1.00 
 SSP   220     M     E     C             1.00 
 SSP   221     H     E     C             1.00 
 SSP   222     F     E     C             1.00 
 SSP   223     I     E     C             1.00 
 SSP   224     N     E     C             1.00 
 SSP   225     I     E     C             1.00 
 SSP   226     T     E     C             1.00 
 SSP   227     L     E     C             1.00 
 SSP   228     K     C     C             1.00 
 SSP   229     D     C     C             1.00 
 SSP   230     K     C     C             1.00 
 SSP   231     V     C     C             1.00 
 SSP   232     E     C     C             1.00 
 SSP   233     K     H     H             1.00 
 SSP   234     K     H     H             1.00 
 SSP   235     D     H     H             1.00 
 SSP   236     I     H     H             1.00 
 SSP   237     L     H     H             1.00 
 SSP   238     S     H     H             1.00 
 SSP   239     V     H     H             1.00 
 SSP   240     L     H     H             1.00 
 SSP   241     E     H     H             1.00 
 SSP   242     N     C     H             1.00 
 SSP   243     T     C     H             1.00 
 SSP   244     P     C     H             1.00 
 SSP   245     R     C     H             1.00 
 SSP   246     I     E     C             1.00 
 SSP   247     V     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              44.2     100.0      0.0     71.4     12.6 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        26.7     100.0      0.0     17.9     12.6 
 
           Considered    Percent predicted   Percent predicted 
            segments        correctly         as wrong type 
 SEG            4              25.0               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      43    100.0     44.2 
 
 BIN  0.00 - 1.00      1.00      43    100.0     44.2 
 
 
 
 
              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 325 
 
# WARNING! TARGET 2622 atoms, MODEL 2468 atoms, 2456 common with TARGET 
           Number of atoms possible to evaluate: 172 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    48.84           79.8    84    12.4   678     ARMSMC  
     SECONDARY STRUCTURE . .    30.82           89.3    56    14.7   380     ARMSMC  
     SURFACE . . . . . . . .    39.67           82.9    41    12.8   320     ARMSMC  
     BURIED  . . . . . . . .    56.21           76.7    43    12.0   358     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   292     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   256     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   164     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   144     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   148     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   213     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   168     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   119     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   119     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    94     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    82     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    73     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    44     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    59     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    23     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    43     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    43     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    21     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    33     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    10     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1  205 - 247  43   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    43    205 - 247      2.99     2.99 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  205 - 247  43   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    41    205 - 245      1.86     3.07 
  LCS LOCAL_SCORE:             91.45 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  205 - 247  43   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    20    205 - 224      0.95     3.81 
  LCS LOCAL_SCORE:             41.75 
 
 
 LCS                   LENGTH_OF_THE 
 LCS  RESIDUE  RESIDUE    CONTINUOUS  SECONDARY 
 LCS   NUMBER     NAME       SEGMENT  STRUCTURE   GDT_DATA_COLUMNS (PERCENT OF THE TARGET) 
 LCS     205       D    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     206       I    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     207       A    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     208       T    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     209       M    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     210       A    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     211       V    20   41   43       E        1   3   7  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     212       I    20   41   43       E        1   4   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     213       A    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     214       P    20   41   43       C        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     215       T    20   41   43       C        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     216       T    20   41   43       C        1   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     217       L    20   41   43       C        0   3   5  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     218       M    20   41   43       C        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     219       H    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     220       M    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     221       H    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     222       F    20   41   43       E        1   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     223       I    20   41   43       E        1   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     224       N    20   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     225       I    19   41   43       E        1   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     226       T    19   41   43       E        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     227       L    19   41   43       E        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     228       K    19   41   43       C        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     229       D    19   41   43       C        1   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     230       K    19   41   43       C        2   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     231       V    19   41   43       C        1   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     232       E    19   41   43       C        2   4   7   9  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     233       K    19   41   43       H        3   4   7  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     234       K    19   41   43       H        3   5   7  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     235       D    19   41   43       H        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     236       I    19   41   43       H        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     237       L    19   41   43       H        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     238       S    19   41   43       H        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     239       V    19   41   43       H        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     240       L    18   41   43       H        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     241       E    17   41   43       H        3   5   8  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     242       N    16   41   43       C        3   5   7  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     243       T    16   41   43       C        1   5   7  10  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     244       P     5   41   43       C        0   1   1   9  11  11  11  11  11  11  11  12  12  12  12  12  12  12  12  12  
 LCS     245       R     5   41   43       C        0   1   1   1   1   3   3   4   5   7   9  12  12  12  12  12  12  12  12  12  
 LCS     246       I     5    5   43       E        0   1   1   1   1   1   1   3   4   5   6   8   9  10  11  12  12  12  12  12  
 LCS     247       V     5    5   43       E        0   1   1   1   1   1   1   2   2   3   3   5  10  10  11  12  12  12  12  12  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.67 
 
 NUMBER_OF_CA_Tg:  340      NUMBER_OF_CA_Pr:   43      PERCENT_OF_CA:  12.65  
 
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      20      29      35      40      40      40      40      40      40      40      41      41      41      41      42      42      42      43      43  
 GDT PERCENT_OF_CA_Pr   25.58   46.51   67.44   81.40   93.02   93.02   93.02   93.02   93.02   93.02   93.02   95.35   95.35   95.35   95.35   97.67   97.67   97.67  100.00  100.00 
 GDT PERCENT_OF_CA_Tg    3.24    5.88    8.53   10.29   11.76   11.76   11.76   11.76   11.76   11.76   11.76   12.06   12.06   12.06   12.06   12.35   12.35   12.35   12.65   12.65 
 GDT FRAGMENT: Beg-End 226-242 205-243 205-239 205-241 205-244 205-244 205-244 205-244 205-244 205-244 205-244 205-245 205-245 205-245 205-245 205-246 205-246 205-246 205-247 205-247 
 GDT RMS_LOCAL           0.22    0.73    0.99    1.24    1.43    1.43    1.43    1.43    1.43    1.43    1.43    1.86    1.86    1.86    1.86    2.37    2.37    2.37    2.99    2.99 
 GDT RMS_ALL_CA          5.77    3.15    3.16    3.15    3.09    3.09    3.09    3.09    3.09    3.09    3.09    3.07    3.07    3.07    3.07    3.02    3.02    3.02    2.99    2.99 
 
 
 TEST (CA)  RMS =   2.99               (Number of atoms:   43) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.99         43    12.6   340     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0695                            CRMSCA  
     SECONDARY STRUCTURE . .    3.06         29    15.3   190     CRMSCA  
     SURFACE . . . . . . . .    1.79         21    13.0   161     CRMSCA  
     BURIED  . . . . . . . .    3.79         22    12.3   179     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    3.01        172    10.2  1685     CRMSMC  
     SECONDARY STRUCTURE . .    3.00        116    12.2   947     CRMSMC  
     SURFACE . . . . . . . .    1.81         84    10.5   797     CRMSMC  
     BURIED  . . . . . . . .    3.82         88     9.9   888     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0  1262     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0  1070     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   734     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   636     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   626     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    3.01        172     6.6  2622     CRMSALL 
     SECONDARY STRUCTURE . .    3.00        116     7.8  1494     CRMSALL 
     SURFACE . . . . . . . .    1.81         84     6.6  1280     CRMSALL 
     BURIED  . . . . . . . .    3.82         88     6.6  1342     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 . . . . . . . . . .    2.004      1.000       0.500     43    12.6   340     ERRCA  
     SECONDARY STRUCTURE . .    1.833      1.000       0.500     29    15.3   190     ERRCA  
     SURFACE . . . . . . . .    1.613      1.000       0.500     21    13.0   161     ERRCA  
     BURIED  . . . . . . . .    2.376      1.000       0.500     22    12.3   179     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.003      1.000       0.500    172    10.2  1685     ERRMC  
     SECONDARY STRUCTURE . .    1.801      1.000       0.500    116    12.2   947     ERRMC  
     SURFACE . . . . . . . .    1.587      1.000       0.500     84    10.5   797     ERRMC  
     BURIED  . . . . . . . .    2.401      1.000       0.500     88     9.9   888     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  1262     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0  1070     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   734     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   636     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   626     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.003      1.000       0.500    172     6.6  2622     ERRALL 
     SECONDARY STRUCTURE . .    1.801      1.000       0.500    116     7.8  1494     ERRALL 
     SURFACE . . . . . . . .    1.587      1.000       0.500     84     6.6  1280     ERRALL 
     BURIED  . . . . . . . .    2.401      1.000       0.500     88     6.6  1342     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)        14        32        39        40        42      43     340   DISTCA 
CA  (P)      4.12      9.41     11.47     11.76     12.35             340   DISTCA 
CA  (RMS)    0.76      1.21      1.57      1.62      2.42                   DISTCA 
 
ALL (N)        59       122       154       160       167     172    2622   DISTALL 
ALL (P)      2.25      4.65      5.87      6.10      6.37            2622   DISTALL 
ALL (RMS)    0.72      1.16      1.52      1.66      2.30                   DISTALL 
 
 
 
 
END of the results output 
