 
####################################################### 
#                                                     # 
#                        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:     # 
#                        # 
########################## 
# 
CONANA-INTER           ../CONANA/T0048.inter 
CONANA-PAIR            ../CONANA/T0048.pair 
# 
NUMBER-OF-PARENTS      1 
ALIGNMENT-DALI(1)      ../PARENTS/casp3.T0048.1dcp_E.rot 
# 
ITER-CUTOFF            2.5       #    DISTANCE cutoff (for CA (iter))  
# 
# 
# 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 
SS-OUTPUT           0         #    1 - ON, 0 - OFF  
PHI-PSI             0         #    1 - SEPARATELY, 0 - NO  
ALIGNMENT-OUTPUT    0         #    1 - ON, 0 - OFF 
# 
# Calculation parameters 
# 
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)  
ROTAMERS-LIMIT      30.0      #    target-parent (diff > 30.0) 
SC-SWAPPING         1         #    1 - ON, 0 - OFF  
DSSP-HELIX          6         #    Secondary Structure subset: helix cutoff  
DSSP-STRAND         3         #    Secondary Structure subset: strand cutoff 
LIGAND-DIST1        4.0       #    Ligand contact: contact with ligand cutoff 
LIGAND-DIST2        6.0       #    Ligand contact: protein neighborhood cutoff 
PARENT-DIST3        2.5       #    target-parent (dist > 2.5) 
# 
CRMS-METHOD         3         #    0 - ALL, 1 - CA, 2 - MC+CB, 3 - CA (iter)  
# 
########################## 
#                        # 
#      ACE results:      # 
#                        # 
########################## 
 
# Reading the coordinates set (1) 
 
 
# Evaluating the coordinates set (1) 
 
# WARNING! TARGET 923 atoms, MODEL 938 atoms, 923 common with TARGET 
           Number of atoms possible to evaluate: 824 
 
 
 CA-RMS TARGET<->PARENT(1dcp-E)	 1.412918 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    44.28           73.8   202    87.8   230     ARMSMC  
     WELL ORDERED  . . . . .    40.74           76.2   181    87.4   207     ARMSMC  
     NO INTER CONTACTS . . .    41.29           75.9   145    88.4   164     ARMSMC  
     SHIFTED CHAIN . . . . .    52.53           67.7   124    81.6   152     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    29.05           83.1   118   100.0   118     ARMSMC  
     LARGE SHIFTS/INSERTIONS   100.61           22.2    18    39.1    46     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    51.92           63.4   112    82.4   136     ARMSMC  
     BURIED  . . . . . . . .    32.34           86.7    90    95.7    94     ARMSMC  
     CORE  . . . . . . . . .    34.10           78.8   184   100.0   184     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    69.36           57.5    87    90.6    96     ARMSSC1 
     WELL ORDERED  . . . . .    67.97           61.8    68    91.9    74     ARMSSC1 
     NO INTER CONTACTS . . .    68.39           62.9    62    92.5    67     ARMSSC1 
     RELIABLE SIDE CHAINS  .    69.34           55.7    79    89.8    88     ARMSSC1 
     CHANGED ANGLES  . . . .    80.89           43.1    51    85.0    60     ARMSSC1 
     SHIFTED CHAIN . . . . .    80.28           41.5    53    85.5    62     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SECONDARY STRUCTURE . .    71.10           58.0    50   100.0    50     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    59.58           50.0     8    47.1    17     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    74.21           42.9    49    86.0    57     ARMSSC1 
     BURIED  . . . . . . . .    62.55           76.3    38    97.4    39     ARMSSC1 
     CORE  . . . . . . . . .    70.27           58.2    79   100.0    79     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    69.27           52.2    69    92.0    75     ARMSSC2 
     WELL ORDERED  . . . . .    66.35           55.1    49    94.2    52     ARMSSC2 
     NO INTER CONTACTS . . .    59.69           61.7    47    94.0    50     ARMSSC2 
     RELIABLE SIDE CHAINS  .    63.23           56.0    50    92.6    54     ARMSSC2 
     CHANGED ANGLES  . . . .    78.64           40.8    49    89.1    55     ARMSSC2 
     SHIFTED CHAIN . . . . .    74.62           40.5    42    87.5    48     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SECONDARY STRUCTURE . .    70.18           55.3    38   100.0    38     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    64.92           42.9     7    53.8    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    75.99           40.5    42    89.4    47     ARMSSC2 
     BURIED  . . . . . . . .    57.26           70.4    27    96.4    28     ARMSSC2 
     CORE  . . . . . . . . .    69.74           53.2    62   100.0    62     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    78.66           46.2    26    89.7    29     ARMSSC3 
     WELL ORDERED  . . . . .    50.83           50.0    12    92.3    13     ARMSSC3 
     NO INTER CONTACTS . . .    74.03           47.4    19    95.0    20     ARMSSC3 
     RELIABLE SIDE CHAINS  .    75.03           45.8    24    92.3    26     ARMSSC3 
     CHANGED ANGLES  . . . .    79.87           48.0    25    89.3    28     ARMSSC3 
     SHIFTED CHAIN . . . . .    86.97           47.4    19    86.4    22     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    71.02           47.1    17   100.0    17     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    75.49           50.0     4    57.1     7     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    85.13           45.0    20    87.0    23     ARMSSC3 
     BURIED  . . . . . . . .    51.54           50.0     6   100.0     6     ARMSSC3 
     CORE  . . . . . . . . .    79.23           45.5    22   100.0    22     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    90.52           41.7    12    92.3    13     ARMSSC4 
     WELL ORDERED  . . . . .    79.32           33.3     3   100.0     3     ARMSSC4 
     NO INTER CONTACTS . . .    83.24           42.9     7   100.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .    90.52           41.7    12    92.3    13     ARMSSC4 
     CHANGED ANGLES  . . . .    88.09           45.5    11    91.7    12     ARMSSC4 
     SHIFTED CHAIN . . . . .    92.34           40.0    10    90.9    11     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .    92.55           28.6     7   100.0     7     ARMSSC4 
     LARGE SHIFTS/INSERTIONS    79.27           33.3     3    75.0     4     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    89.90           40.0    10    90.9    11     ARMSSC4 
     BURIED  . . . . . . . .    93.56           50.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    93.97           44.4     9   100.0     9     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.64913     r(1,2) =   0.31185     r(1,3) =  -0.69381 
 r(2,1) =   0.45045     r(2,2) =  -0.57739     r(2,3) =  -0.68096 
 r(3,1) =  -0.61296     r(3,2) =  -0.75457     r(3,3) =   0.23433 
THE OFFSET VECTOR: 
 v(1) =  45.72118     v(2) =  48.02126     v(3) =  76.47773 
 
 Number of iteration 27                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.28           (Number of atoms:   90) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.94        102    87.9   116     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0288                            CRMSCA  
     WELL ORDERED  . . . . .    2.55         92    87.6   105     CRMSCA  
     NO INTER CONTACTS . . .    2.38         73    89.0    82     CRMSCA  
     SHIFTED CHAIN . . . . .    3.60         63    81.8    77     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .    2.02         59   100.0    59     CRMSCA  
     SHIFTED SS UNITS  . . .    1.53          3   100.0     3     CRMSCA  
     LARGE SHIFTS/INSERTIONS    8.12         10    41.7    24     CRMSCA  
     SURFACE . . . . . . . .    3.72         57    82.6    69     CRMSCA  
     BURIED  . . . . . . . .    1.44         45    95.7    47     CRMSCA  
     CORE  . . . . . . . . .    1.56         92   100.0    92     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    3.09        503    87.8   573     CRMSMC  
     WELL ORDERED  . . . . .    2.66        454    87.3   520     CRMSMC  
     NO INTER CONTACTS . . .    2.48        362    88.9   407     CRMSMC  
     SHIFTED CHAIN . . . . .    3.78        310    81.6   380     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .    2.08        293   100.0   293     CRMSMC  
     SHIFTED SS UNITS  . . .    1.56         15   100.0    15     CRMSMC  
     LARGE SHIFTS/INSERTIONS    8.65         48    40.7   118     CRMSMC  
     SURFACE . . . . . . . .    3.90        281    82.4   341     CRMSMC  
     BURIED  . . . . . . . .    1.56        222    95.7   232     CRMSMC  
     CORE  . . . . . . . . .    1.64        455   100.0   455     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    4.05        416    90.6   459     CRMSSC  
     WELL ORDERED  . . . . .    3.14        312    91.8   340     CRMSSC  
     NO INTER CONTACTS . . .    3.60        297    93.1   319     CRMSSC  
     RELIABLE SIDE CHAINS  .    4.33        346    90.8   381     CRMSSC  
     CHANGED ANGLES  . . . .    4.97        219    88.3   248     CRMSSC  
     SECONDARY STRUCTURE . .    3.47        239   100.0   239     CRMSSC  
     LARGE SHIFTS/INSERTIONS   10.71         38    46.9    81     CRMSSC  
     SURFACE . . . . . . . .    5.15        232    85.9   270     CRMSSC  
     BURIED  . . . . . . . .    1.91        184    97.4   189     CRMSSC  
     CORE  . . . . . . . . .    2.56        378   100.0   378     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    3.59        824    89.3   923     CRMSALL 
     WELL ORDERED  . . . . .    2.88        682    89.3   764     CRMSALL 
     NO INTER CONTACTS . . .    3.07        589    91.0   647     CRMSALL 
     SHIFTED CHAIN . . . . .    4.36        500    83.5   599     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .    2.84        475   100.0   475     CRMSALL 
     LARGE SHIFTS/INSERTIONS    9.64         78    44.1   177     CRMSALL 
     SURFACE . . . . . . . .    4.53        460    84.2   546     CRMSALL 
     BURIED  . . . . . . . .    1.78        364    96.6   377     CRMSALL 
     CORE  . . . . . . . . .    2.13        746   100.0   746     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.04      1     6.7    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     6.70      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3    10.32      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     2.92      5     6.7    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     6.90     24   100.0    24      38-VRDGI-42   
 MC  LOOP  3    11.26     19   100.0    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     3.14      7     6.6   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     8.72     38   100.0    38      38-VRDGI-42   
 ALL LOOP  3    11.39     33   100.0    33     115-EGRK-118  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 CA  LOOP  2     1.41      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3     2.06      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 MC  LOOP  2     1.94     24   100.0    24      38-VRDGI-42   
 MC  LOOP  3     2.34     19   100.0    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 ALL LOOP  2     3.32     38   100.0    38      38-VRDGI-42   
 ALL LOOP  3     4.32     33   100.0    33     115-EGRK-118  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.303      0.707       0.731    102    87.9   116     ERRCA  
     WELL ORDERED  . . . . .    7.357      0.719       0.743     92    87.6   105     ERRCA  
     NO INTER CONTACTS . . .    7.345      0.718       0.743     73    89.0    82     ERRCA  
     SHIFTED CHAIN . . . . .    6.910      0.651       0.679     63    81.8    77     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .    7.551      0.741       0.765     59   100.0    59     ERRCA  
     LARGE SHIFTS/INSERTIONS    3.705      0.257       0.268     10    41.7    24     ERRCA  
     SURFACE . . . . . . . .    6.895      0.652       0.680     57    82.6    69     ERRCA  
     BURIED  . . . . . . . .    7.821      0.777       0.797     45    95.7    47     ERRCA  
     CORE  . . . . . . . . .    7.694      0.756       0.782     92   100.0    92     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.270      0.701       0.727    503    87.8   573     ERRMC  
     WELL ORDERED  . . . . .    7.342      0.716       0.741    454    87.3   520     ERRMC  
     NO INTER CONTACTS . . .    7.325      0.715       0.742    362    88.9   407     ERRMC  
     SHIFTED CHAIN . . . . .    6.897      0.649       0.676    310    81.6   380     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .    7.527      0.737       0.762    293   100.0   293     ERRMC  
     LARGE SHIFTS/INSERTIONS    3.727      0.252       0.249     48    40.7   118     ERRMC  
     SURFACE . . . . . . . .    6.857      0.645       0.673    281    82.4   341     ERRMC  
     BURIED  . . . . . . . .    7.793      0.773       0.795    222    95.7   232     ERRMC  
     CORE  . . . . . . . . .    7.644      0.749       0.777    455   100.0   455     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.811      0.632       0.668    416    90.6   459     ERRSC  
     WELL ORDERED  . . . . .    7.093      0.674       0.710    312    91.8   340     ERRSC  
     NO INTER CONTACTS . . .    6.928      0.654       0.690    297    93.1   319     ERRSC  
     RELIABLE SIDE CHAINS  .    6.765      0.626       0.660    346    90.8   381     ERRSC  
     CHANGED ANGLES  . . . .    6.310      0.557       0.600    219    88.3   248     ERRSC  
     SHIFTED CHAIN . . . . .    6.368      0.562       0.603    248    85.2   291     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRSC  
     SECONDARY STRUCTURE . .    6.865      0.644       0.682    239   100.0   239     ERRSC  
     LARGE SHIFTS/INSERTIONS    4.841      0.304       0.271     38    46.9    81     ERRSC  
     SURFACE . . . . . . . .    6.259      0.551       0.591    232    85.9   270     ERRSC  
     BURIED  . . . . . . . .    7.507      0.733       0.766    184    97.4   189     ERRSC  
     CORE  . . . . . . . . .    7.009      0.664       0.708    378   100.0   378     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.045      0.667       0.698    824    89.3   923     ERRALL 
     WELL ORDERED  . . . . .    7.226      0.697       0.727    682    89.3   764     ERRALL 
     NO INTER CONTACTS . . .    7.128      0.685       0.716    589    91.0   647     ERRALL 
     SHIFTED CHAIN . . . . .    6.643      0.607       0.641    500    83.5   599     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .    7.200      0.692       0.723    475   100.0   475     ERRALL 
     LARGE SHIFTS/INSERTIONS    4.221      0.275       0.257     78    44.1   177     ERRALL 
     SURFACE . . . . . . . .    6.580      0.601       0.635    460    84.2   546     ERRALL 
     BURIED  . . . . . . . .    7.632      0.751       0.778    364    96.6   377     ERRALL 
     CORE  . . . . . . . . .    7.340      0.708       0.744    746   100.0   746     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)        30        85        91        94       100     102     116   DISTCA 
CA  (P)     25.86     73.28     78.45     81.03     86.21             116   DISTCA 
CA  (RMS)    0.76      1.19      1.31      1.48      2.28                   DISTCA 
 
ALL (N)       220       579       682       746       792     824     923   DISTALL 
ALL (P)     23.84     62.73     73.89     80.82     85.81             923   DISTALL 
ALL (RMS)    0.74      1.20      1.46      1.78      2.45                   DISTALL 
 
CA RMS: P<->T (parent <-> target), and T<->M (target <-> model) calculated using 
        CA positions for which there exists an alignment with principal parent, 
        and for which does not (LARGE SHIFTS/INSERTIONS): 
              P<->T         T<->M         T<->M (LSI) 
CA  (N)          92            92            10          RMSLSI 
CA  (P)       79.31         79.31          8.62          RMSLSI 
CA  (RMS)      1.19          1.56          8.12          RMSLSI 
 
 
 
END of the results output 
