 
####################################################### 
#                                                     # 
#                        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: 923 
 
 
 CA-RMS TARGET<->PARENT(1dcp-E)	 1.412918 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    64.17           60.9   230   100.0   230     ARMSMC  
     WELL ORDERED  . . . . .    60.98           62.3   207   100.0   207     ARMSMC  
     NO INTER CONTACTS . . .    63.74           61.0   164   100.0   164     ARMSMC  
     SHIFTED CHAIN . . . . .    66.83           59.9   152   100.0   152     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    47.46           72.0   118   100.0   118     ARMSMC  
     LARGE SHIFTS/INSERTIONS    90.14           39.1    46   100.0    46     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    69.02           54.4   136   100.0   136     ARMSMC  
     BURIED  . . . . . . . .    56.41           70.2    94   100.0    94     ARMSMC  
     CORE  . . . . . . . . .    55.81           66.3   184   100.0   184     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    83.44           42.7    96   100.0    96     ARMSSC1 
     WELL ORDERED  . . . . .    81.21           45.9    74   100.0    74     ARMSSC1 
     NO INTER CONTACTS . . .    83.53           43.3    67   100.0    67     ARMSSC1 
     RELIABLE SIDE CHAINS  .    85.38           40.9    88   100.0    88     ARMSSC1 
     CHANGED ANGLES  . . . .    92.00           33.3    60   100.0    60     ARMSSC1 
     SHIFTED CHAIN . . . . .    88.24           35.5    62   100.0    62     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SECONDARY STRUCTURE . .    77.30           46.0    50   100.0    50     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    82.33           41.2    17   100.0    17     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    88.19           33.3    57   100.0    57     ARMSSC1 
     BURIED  . . . . . . . .    75.97           56.4    39   100.0    39     ARMSSC1 
     CORE  . . . . . . . . .    83.68           43.0    79   100.0    79     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    88.53           34.7    75   100.0    75     ARMSSC2 
     WELL ORDERED  . . . . .    89.72           38.5    52   100.0    52     ARMSSC2 
     NO INTER CONTACTS . . .    84.37           36.0    50   100.0    50     ARMSSC2 
     RELIABLE SIDE CHAINS  .    80.90           35.2    54   100.0    54     ARMSSC2 
     CHANGED ANGLES  . . . .    95.00           25.5    55   100.0    55     ARMSSC2 
     SHIFTED CHAIN . . . . .    88.20           27.1    48   100.0    48     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SECONDARY STRUCTURE . .    95.39           28.9    38   100.0    38     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    76.03           38.5    13   100.0    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    91.98           29.8    47   100.0    47     ARMSSC2 
     BURIED  . . . . . . . .    82.41           42.9    28   100.0    28     ARMSSC2 
     CORE  . . . . . . . . .    90.93           33.9    62   100.0    62     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    82.95           34.5    29   100.0    29     ARMSSC3 
     WELL ORDERED  . . . . .    84.92           23.1    13   100.0    13     ARMSSC3 
     NO INTER CONTACTS . . .    62.19           40.0    20   100.0    20     ARMSSC3 
     RELIABLE SIDE CHAINS  .    80.51           34.6    26   100.0    26     ARMSSC3 
     CHANGED ANGLES  . . . .    83.06           35.7    28   100.0    28     ARMSSC3 
     SHIFTED CHAIN . . . . .    87.49           36.4    22   100.0    22     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    86.25           23.5    17   100.0    17     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    97.27           28.6     7   100.0     7     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    84.97           39.1    23   100.0    23     ARMSSC3 
     BURIED  . . . . . . . .    74.70           16.7     6   100.0     6     ARMSSC3 
     CORE  . . . . . . . . .    77.84           36.4    22   100.0    22     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    74.56           30.8    13   100.0    13     ARMSSC4 
     WELL ORDERED  . . . . .    69.25           66.7     3   100.0     3     ARMSSC4 
     NO INTER CONTACTS . . .    84.87           42.9     7   100.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .    74.56           30.8    13   100.0    13     ARMSSC4 
     CHANGED ANGLES  . . . .    70.08           33.3    12   100.0    12     ARMSSC4 
     SHIFTED CHAIN . . . . .    63.74           36.4    11   100.0    11     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .    66.48           57.1     7   100.0     7     ARMSSC4 
     LARGE SHIFTS/INSERTIONS    53.78           25.0     4   100.0     4     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    72.62           27.3    11   100.0    11     ARMSSC4 
     BURIED  . . . . . . . .    84.41           50.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    82.12           33.3     9   100.0     9     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =   0.75969     r(1,2) =   0.57707     r(1,3) =   0.29976 
 r(2,1) =  -0.51567     r(2,2) =   0.25377     r(2,3) =   0.81834 
 r(3,1) =   0.39617     r(3,2) =  -0.77627     r(3,3) =   0.49036 
THE OFFSET VECTOR: 
 v(1) =  -0.07702     v(2) =  20.42707     v(3) =  29.73282 
 
 Number of iteration 35                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.36           (Number of atoms:   71) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    9.32        116   100.0   116     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0803                            CRMSCA  
     WELL ORDERED  . . . . .    9.66        105   100.0   105     CRMSCA  
     NO INTER CONTACTS . . .    8.33         82   100.0    82     CRMSCA  
     SHIFTED CHAIN . . . . .   11.27         77   100.0    77     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .    2.50         59   100.0    59     CRMSCA  
     SHIFTED SS UNITS  . . .    6.07          3   100.0     3     CRMSCA  
     LARGE SHIFTS/INSERTIONS   19.59         24   100.0    24     CRMSCA  
     SURFACE . . . . . . . .   10.66         69   100.0    69     CRMSCA  
     BURIED  . . . . . . . .    6.88         47   100.0    47     CRMSCA  
     CORE  . . . . . . . . .    3.05         92   100.0    92     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    9.28        573   100.0   573     CRMSMC  
     WELL ORDERED  . . . . .    9.36        520   100.0   520     CRMSMC  
     NO INTER CONTACTS . . .    8.33        407   100.0   407     CRMSMC  
     SHIFTED CHAIN . . . . .   11.22        380   100.0   380     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .    2.62        293   100.0   293     CRMSMC  
     SHIFTED SS UNITS  . . .    6.31         15   100.0    15     CRMSMC  
     LARGE SHIFTS/INSERTIONS   19.48        118   100.0   118     CRMSMC  
     SURFACE . . . . . . . .   10.59        341   100.0   341     CRMSMC  
     BURIED  . . . . . . . .    6.93        232   100.0   232     CRMSMC  
     CORE  . . . . . . . . .    3.18        455   100.0   455     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    9.34        459   100.0   459     CRMSSC  
     WELL ORDERED  . . . . .    9.53        340   100.0   340     CRMSSC  
     NO INTER CONTACTS . . .    8.20        319   100.0   319     CRMSSC  
     RELIABLE SIDE CHAINS  .    8.73        381   100.0   381     CRMSSC  
     CHANGED ANGLES  . . . .   10.70        248   100.0   248     CRMSSC  
     SECONDARY STRUCTURE . .    4.12        239   100.0   239     CRMSSC  
     LARGE SHIFTS/INSERTIONS   19.87         81   100.0    81     CRMSSC  
     SURFACE . . . . . . . .   10.58        270   100.0   270     CRMSSC  
     BURIED  . . . . . . . .    7.23        189   100.0   189     CRMSSC  
     CORE  . . . . . . . . .    4.63        378   100.0   378     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    9.24        923   100.0   923     CRMSALL 
     WELL ORDERED  . . . . .    9.47        764   100.0   764     CRMSALL 
     NO INTER CONTACTS . . .    8.22        647   100.0   647     CRMSALL 
     SHIFTED CHAIN . . . . .   11.16        599   100.0   599     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .    3.42        475   100.0   475     CRMSALL 
     LARGE SHIFTS/INSERTIONS   19.50        177   100.0   177     CRMSALL 
     SURFACE . . . . . . . .   10.50        546   100.0   546     CRMSALL 
     BURIED  . . . . . . . .    7.04        377   100.0   377     CRMSALL 
     CORE  . . . . . . . . .    3.94        746   100.0   746     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    24.05     15   100.0    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     7.43      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3     8.06      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    23.74     75   100.0    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     7.11     24   100.0    24      38-VRDGI-42   
 MC  LOOP  3     8.32     19   100.0    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    24.18    106   100.0   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     7.93     38   100.0    38      38-VRDGI-42   
 ALL LOOP  3     9.44     33   100.0    33     115-EGRK-118  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     7.09     15   100.0    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     1.70      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3     2.10      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     7.34     75   100.0    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     2.24     24   100.0    24      38-VRDGI-42   
 MC  LOOP  3     2.42     19   100.0    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     7.79    106   100.0   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     4.21     38   100.0    38      38-VRDGI-42   
 ALL LOOP  3     3.97     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 . . . . . . . . . .    7.850      0.583       0.592    116   100.0   116     ERRCA  
     WELL ORDERED  . . . . .    8.093      0.601       0.607    105   100.0   105     ERRCA  
     NO INTER CONTACTS . . .    7.583      0.582       0.596     82   100.0    82     ERRCA  
     SHIFTED CHAIN . . . . .    7.791      0.528       0.525     77   100.0    77     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .    8.123      0.710       0.739     59   100.0    59     ERRCA  
     LARGE SHIFTS/INSERTIONS    8.217      0.255       0.179     24   100.0    24     ERRCA  
     SURFACE . . . . . . . .    7.676      0.529       0.535     69   100.0    69     ERRCA  
     BURIED  . . . . . . . .    8.106      0.663       0.677     47   100.0    47     ERRCA  
     CORE  . . . . . . . . .    7.754      0.669       0.700     92   100.0    92     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.753      0.572       0.584    573   100.0   573     ERRMC  
     WELL ORDERED  . . . . .    7.987      0.594       0.602    520   100.0   520     ERRMC  
     NO INTER CONTACTS . . .    7.526      0.575       0.590    407   100.0   407     ERRMC  
     SHIFTED CHAIN . . . . .    7.715      0.520       0.520    380   100.0   380     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .    8.027      0.698       0.729    293   100.0   293     ERRMC  
     LARGE SHIFTS/INSERTIONS    8.209      0.256       0.181    118   100.0   118     ERRMC  
     SURFACE . . . . . . . .    7.527      0.514       0.522    341   100.0   341     ERRMC  
     BURIED  . . . . . . . .    8.085      0.659       0.674    232   100.0   232     ERRMC  
     CORE  . . . . . . . . .    7.634      0.655       0.688    455   100.0   455     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.871      0.486       0.505    459   100.0   459     ERRSC  
     WELL ORDERED  . . . . .    7.514      0.530       0.552    340   100.0   340     ERRSC  
     NO INTER CONTACTS . . .    6.667      0.491       0.521    319   100.0   319     ERRSC  
     RELIABLE SIDE CHAINS  .    6.641      0.481       0.504    381   100.0   381     ERRSC  
     CHANGED ANGLES  . . . .    6.292      0.400       0.414    248   100.0   248     ERRSC  
     SHIFTED CHAIN . . . . .    6.962      0.448       0.454    291   100.0   291     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRSC  
     SECONDARY STRUCTURE . .    6.863      0.564       0.610    239   100.0   239     ERRSC  
     LARGE SHIFTS/INSERTIONS    8.190      0.252       0.170     81   100.0    81     ERRSC  
     SURFACE . . . . . . . .    6.596      0.433       0.444    270   100.0   270     ERRSC  
     BURIED  . . . . . . . .    7.263      0.560       0.593    189   100.0   189     ERRSC  
     CORE  . . . . . . . . .    6.588      0.536       0.577    378   100.0   378     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.320      0.531       0.547    923   100.0   923     ERRALL 
     WELL ORDERED  . . . . .    7.789      0.566       0.580    764   100.0   764     ERRALL 
     NO INTER CONTACTS . . .    7.117      0.536       0.559    647   100.0   647     ERRALL 
     SHIFTED CHAIN . . . . .    7.345      0.487       0.490    599   100.0   599     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .    7.465      0.633       0.672    475   100.0   475     ERRALL 
     LARGE SHIFTS/INSERTIONS    8.103      0.252       0.175    177   100.0   177     ERRALL 
     SURFACE . . . . . . . .    7.072      0.476       0.486    546   100.0   546     ERRALL 
     BURIED  . . . . . . . .    7.679      0.611       0.635    377   100.0   377     ERRALL 
     CORE  . . . . . . . . .    7.134      0.598       0.636    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)        25        63        73        80       104     116     116   DISTCA 
CA  (P)     21.55     54.31     62.93     68.97     89.66             116   DISTCA 
CA  (RMS)    0.76      1.19      1.42      1.85      3.77                   DISTCA 
 
ALL (N)       132       398       505       621       808     923     923   DISTALL 
ALL (P)     14.30     43.12     54.71     67.28     87.54             923   DISTALL 
ALL (RMS)    0.77      1.28      1.61      2.25      4.06                   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            24          RMSLSI 
CA  (P)       79.31         79.31         20.69          RMSLSI 
CA  (RMS)      1.19          3.05         19.59          RMSLSI 
 
 
 
END of the results output 
