 
####################################################### 
#                                                     # 
#                        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: 12 , MODEL 12 , TARGET 456 
#          The number of residues possible to evaluate: 12 
 
 
 SECONDARY STRUCTURE PREDICTION: 
       NUM    RES   SS   Prediction   Probability 
 SSP   259     S     E     C             1.00 
 SSP   260     D     H     H             1.00 
 SSP   261     Y     H     H             1.00 
 SSP   262     F     H     H             1.00 
 SSP   263     F     H     H             1.00 
 SSP   264     N     H     H             1.00 
 SSP   265     T     H     H             1.00 
 SSP   266     A     H     H             1.00 
 SSP   267     G     H     H             1.00 
 SSP   268     L     H     H             1.00 
 SSP   269     V     H     H             1.00 
 SSP   270     Y     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              83.3      90.9      0.0      0.0      2.6 
 
                     ALL      HELIX    STRAND    COIL      PP 
 SOV observed        91.7     100.0      0.0    100.0      2.6 
 
           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      12    100.0     83.3 
 
 BIN  0.00 - 1.00      1.00      12    100.0     83.3 
 
 
 
 
              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          10              10            10            456 
 ALL CONTACTS (< 8.0A)      28              28            28           2232 
 
               in PREDICTION      Predicted correctly          Submitted as        in TARGET 
                CONSIDERED     NPC   PC(P)   PC(T)   PC(TT)    NOT  predicted   CONSIDERED  TOTAL  |   SEP 
 RES CONTACTS        28         28  100.00  100.00    1.25       0     0.00          28      2232  |   1-9999 
 RES CONTACTS        28         28  100.00  100.00    2.50       0     0.00          28      1120  |   1-4    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           0       110  |   5-8    
 RES CONTACTS         0          0    0.00    0.00    0.00       0     0.00           0      1002  |   9-9999 
 
 
 
# WARNING! TARGET 3510 atoms, MODEL 3525 atoms, 3467 common with TARGET 
           Number of atoms possible to evaluate: 57 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    16.02           95.5    22     2.4   910     ARMSMC  
     SECONDARY STRUCTURE . .    16.02           95.5    22     3.6   612     ARMSMC  
     SURFACE . . . . . . . .    16.70          100.0     2     0.4   514     ARMSMC  
     BURIED  . . . . . . . .    15.95           95.0    20     5.1   396     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   388     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   351     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   268     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   220     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   168     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   286     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   208     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   195     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   160     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   126     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    94     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    73     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    72     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    76     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    41     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    41     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    29     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    39     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     2     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   5.00): 
 FRAGMENT  1  259 - 270  12   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    12    259 - 270      0.73     0.73 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   2.00): 
 FRAGMENT  1  259 - 270  12   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    12    259 - 270      0.73     0.73 
  LCS LOCAL_SCORE:            100.00 
 
 
LONGEST_CONTINUOUS_SEGMENT (Longest continuous sequence under CA RMS cutoff   1.00): 
 FRAGMENT  1  259 - 270  12   Length     Seq        L_RMS   ALL_CA_RMS 
  LONGEST_CONTINUOUS_SEGMENT    12    259 - 270      0.73     0.73 
  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     259       S    12   12   12       E        0   1   1   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     260       D    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     261       Y    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     262       F    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     263       F    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     264       N    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     265       T    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     266       A    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     267       G    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     268       L    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     269       V    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS     270       Y    12   12   12       H        2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2   2  
 LCS TOTAL_SCORE (RMS CUTOFF   1.00):   0.07 
 
 NUMBER_OF_CA_Tg:  456      NUMBER_OF_CA_Pr:   12      PERCENT_OF_CA:   2.63  
 
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      10      11      11      12      12      12      12      12      12      12      12      12      12      12      12      12      12      12      12      12  
 GDT PERCENT_OF_CA_Pr   83.33   91.67   91.67  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    2.19    2.41    2.41    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63    2.63 
 GDT FRAGMENT: Beg-End 260-270 260-270 260-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 259-270 
 GDT RMS_LOCAL           0.35    0.39    0.39    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73 
 GDT RMS_ALL_CA          0.81    0.82    0.82    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73    0.73 
 
 
 TEST (CA)  RMS =   0.73               (Number of atoms:   12) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    0.73         12     2.6   456     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0604                            CRMSCA  
     SECONDARY STRUCTURE . .    0.73         12     3.9   306     CRMSCA  
     SURFACE . . . . . . . .    0.50          1     0.4   258     CRMSCA  
     BURIED  . . . . . . . .    0.74         11     5.6   198     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    0.69         57     2.5  2254     CRMSMC  
     SECONDARY STRUCTURE . .    0.69         57     3.8  1511     CRMSMC  
     SURFACE . . . . . . . .    0.72          5     0.4  1282     CRMSMC  
     BURIED  . . . . . . . .    0.69         52     5.3   972     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.74          9     0.5  1686     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.74          9     0.6  1392     CRMSSC  
     SECONDARY STRUCTURE . .    0.74          9     0.8  1184     CRMSSC  
     SURFACE . . . . . . . .    1.25          1     0.1   939     CRMSSC  
     BURIED  . . . . . . . .    0.64          8     1.1   747     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    0.69         57     1.6  3510     CRMSALL 
     SECONDARY STRUCTURE . .    0.69         57     2.4  2408     CRMSALL 
     SURFACE . . . . . . . .    0.72          5     0.3  1971     CRMSALL 
     BURIED  . . . . . . . .    0.69         52     3.4  1539     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 . . . . . . . . . .    0.596      1.000       0.500     12     2.6   456     ERRCA  
     SECONDARY STRUCTURE . .    0.596      1.000       0.500     12     3.9   306     ERRCA  
     SURFACE . . . . . . . .    0.502      1.000       0.500      1     0.4   258     ERRCA  
     BURIED  . . . . . . . .    0.604      1.000       0.500     11     5.6   198     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.579      1.000       0.500     57     2.5  2254     ERRMC  
     SECONDARY STRUCTURE . .    0.579      1.000       0.500     57     3.8  1511     ERRMC  
     SURFACE . . . . . . . .    0.644      1.000       0.500      5     0.4  1282     ERRMC  
     BURIED  . . . . . . . .    0.573      1.000       0.500     52     5.3   972     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.645      1.000       0.500      9     0.5  1686     ERRSC  
     RELIABLE SIDE CHAINS  .    0.645      1.000       0.500      9     0.6  1392     ERRSC  
     SECONDARY STRUCTURE . .    0.645      1.000       0.500      9     0.8  1184     ERRSC  
     SURFACE . . . . . . . .    1.255      1.000       0.500      1     0.1   939     ERRSC  
     BURIED  . . . . . . . .    0.568      1.000       0.500      8     1.1   747     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.579      1.000       0.500     57     1.6  3510     ERRALL 
     SECONDARY STRUCTURE . .    0.579      1.000       0.500     57     2.4  2408     ERRALL 
     SURFACE . . . . . . . .    0.644      1.000       0.500      5     0.3  1971     ERRALL 
     BURIED  . . . . . . . .    0.573      1.000       0.500     52     3.4  1539     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)        11        12        12        12        12      12     456   DISTCA 
CA  (P)      2.41      2.63      2.63      2.63      2.63             456   DISTCA 
CA  (RMS)    0.51      0.73      0.73      0.73      0.73                   DISTCA 
 
ALL (N)        51        56        57        57        57      57    3510   DISTALL 
ALL (P)      1.45      1.60      1.62      1.62      1.62            3510   DISTALL 
ALL (RMS)    0.50      0.63      0.69      0.69      0.69                   DISTALL 
 
 
 
 
END of the results output 
