 
####################################################### 
#                                                     # 
#                        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/T0024.inter 
# 
NUMBER-OF-PARENTS      2 
ALIGNMENT-DALI(1)      ../PARENTS/casp2.T0024.2aak.rot 
ALIGNMENT-DALI(2)      ../PARENTS/casp2.T0024.2uce.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 1282 atoms, MODEL 1318 atoms, 1282 common with TARGET 
           Number of atoms possible to evaluate: 1261 
 
 
 CA-RMS TARGET<->PARENT(2aak)	 1.357235 
 
 CA-RMS TARGET<->PARENT(2uce)	 1.386553 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    40.50           81.4   312    98.1   318     ARMSMC  
     WELL ORDERED  . . . . .    39.82           82.4   301    99.0   304     ARMSMC  
     NO INTER CONTACTS . . .    28.98           90.2   123    98.4   125     ARMSMC  
     SHIFTED CHAIN . . . . .    52.30           70.1   134    95.7   140     ARMSMC  
     ALTERNATIVE PARENT  . .    61.42           50.0    12   100.0    12     ARMSMC  
     SECONDARY STRUCTURE . .    41.03           85.3   163    99.4   164     ARMSMC  
     LARGE SHIFTS/INSERTIONS    83.09           43.3    30    83.3    36     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    49.00           72.7   176    97.2   181     ARMSMC  
     BURIED  . . . . . . . .    25.60           92.6   136    99.3   137     ARMSMC  
     CORE  . . . . . . . . .    32.87           85.5   282   100.0   282     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    76.88           48.5   136    97.8   139     ARMSSC1 
     WELL ORDERED  . . . . .    74.99           51.5   101   100.0   101     ARMSSC1 
     NO INTER CONTACTS . . .    68.36           56.0    50    98.0    51     ARMSSC1 
     RELIABLE SIDE CHAINS  .    77.96           46.9   130    97.7   133     ARMSSC1 
     CHANGED ANGLES  . . . .    91.88           29.6    71    95.9    74     ARMSSC1 
     SHIFTED CHAIN . . . . .    77.38           47.5    59    95.2    62     ARMSSC1 
     ALTERNATIVE PARENT  . .    97.80           33.3     6   100.0     6     ARMSSC1 
     SECONDARY STRUCTURE . .    79.56           39.4    71   100.0    71     ARMSSC1 
     LARGE SHIFTS/INSERTIONS   104.00           30.8    13    81.2    16     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    83.62           41.0    78    97.5    80     ARMSSC1 
     BURIED  . . . . . . . .    66.74           58.6    58    98.3    59     ARMSSC1 
     CORE  . . . . . . . . .    73.43           50.4   123   100.0   123     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    68.71           49.1   114    98.3   116     ARMSSC2 
     WELL ORDERED  . . . . .    71.62           52.1    71   100.0    71     ARMSSC2 
     NO INTER CONTACTS . . .    74.00           56.1    41   100.0    41     ARMSSC2 
     RELIABLE SIDE CHAINS  .    57.30           56.5    92   100.0    92     ARMSSC2 
     CHANGED ANGLES  . . . .    66.04           44.9    78    97.5    80     ARMSSC2 
     SHIFTED CHAIN . . . . .    65.96           44.0    50    96.2    52     ARMSSC2 
     ALTERNATIVE PARENT  . .    93.30           20.0     5   100.0     5     ARMSSC2 
     SECONDARY STRUCTURE . .    68.91           48.3    60   100.0    60     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    66.05           27.3    11    84.6    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    61.81           45.5    66    97.1    68     ARMSSC2 
     BURIED  . . . . . . . .    77.20           54.2    48   100.0    48     ARMSSC2 
     CORE  . . . . . . . . .    68.99           51.5   103   100.0   103     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    93.06           40.9    44   100.0    44     ARMSSC3 
     WELL ORDERED  . . . . .   104.94           20.0    10   100.0    10     ARMSSC3 
     NO INTER CONTACTS . . .    79.84           50.0    12   100.0    12     ARMSSC3 
     RELIABLE SIDE CHAINS  .    83.23           45.9    37   100.0    37     ARMSSC3 
     CHANGED ANGLES  . . . .    94.14           38.9    36   100.0    36     ARMSSC3 
     SHIFTED CHAIN . . . . .    92.53           56.5    23   100.0    23     ARMSSC3 
     ALTERNATIVE PARENT  . .   125.27           50.0     2   100.0     2     ARMSSC3 
     SECONDARY STRUCTURE . .   101.29           31.2    32   100.0    32     ARMSSC3 
     LARGE SHIFTS/INSERTIONS   111.56           50.0     4   100.0     4     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    91.95           44.4    36   100.0    36     ARMSSC3 
     BURIED  . . . . . . . .    97.91           25.0     8   100.0     8     ARMSSC3 
     CORE  . . . . . . . . .    91.01           40.0    40   100.0    40     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    72.10           54.5    22   100.0    22     ARMSSC4 
     WELL ORDERED  . . . . .   100.61            0.0     1   100.0     1     ARMSSC4 
     NO INTER CONTACTS . . .    73.98           57.1     7   100.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .    72.10           54.5    22   100.0    22     ARMSSC4 
     CHANGED ANGLES  . . . .    73.78           52.4    21   100.0    21     ARMSSC4 
     SHIFTED CHAIN . . . . .    75.39           61.5    13   100.0    13     ARMSSC4 
     ALTERNATIVE PARENT  . .     5.27          100.0     1   100.0     1     ARMSSC4 
     SECONDARY STRUCTURE . .    75.91           47.1    17   100.0    17     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     5.27          100.0     1   100.0     1     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    69.10           60.0    20   100.0    20     ARMSSC4 
     BURIED  . . . . . . . .    97.14            0.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    73.79           52.4    21   100.0    21     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.16169     r(1,2) =   0.22965     r(1,3) =  -0.95975 
 r(2,1) =   0.98657     r(2,2) =   0.06038     r(2,3) =  -0.15176 
 r(3,1) =   0.02310     r(3,2) =  -0.97140     r(3,3) =  -0.23633 
THE OFFSET VECTOR: 
 v(1) =   0.77125     v(2) =  -1.31205     v(3) =  20.92395 
 
 Number of iteration 24                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.00           (Number of atoms:  124) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.62        157    98.1   160     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0167                            CRMSCA  
     WELL ORDERED  . . . . .    2.63        155    99.4   156     CRMSCA  
     NO INTER CONTACTS . . .    1.58         62    98.4    63     CRMSCA  
     SHIFTED CHAIN . . . . .    3.63         68    95.8    71     CRMSCA  
     ALTERNATIVE PARENT  . .    3.79          6   100.0     6     CRMSCA  
     SECONDARY STRUCTURE . .    3.06         82   100.0    82     CRMSCA  
     SHIFTED SS UNITS  . . .    1.38          9   100.0     9     CRMSCA  
     LARGE SHIFTS/INSERTIONS    6.57         16    84.2    19     CRMSCA  
     SURFACE . . . . . . . .    3.22         89    97.8    91     CRMSCA  
     BURIED  . . . . . . . .    1.51         68    98.6    69     CRMSCA  
     CORE  . . . . . . . . .    1.66        141   100.0   141     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.64        776    98.2   790     CRMSMC  
     WELL ORDERED  . . . . .    2.59        744    99.5   748     CRMSMC  
     NO INTER CONTACTS . . .    1.69        305    98.7   309     CRMSMC  
     SHIFTED CHAIN . . . . .    3.62        337    96.0   351     CRMSMC  
     ALTERNATIVE PARENT  . .    3.77         30   100.0    30     CRMSMC  
     SECONDARY STRUCTURE . .    3.02        408   100.0   408     CRMSMC  
     SHIFTED SS UNITS  . . .    1.38         45   100.0    45     CRMSMC  
     LARGE SHIFTS/INSERTIONS    6.52         78    84.8    92     CRMSMC  
     SURFACE . . . . . . . .    3.22        440    97.8   450     CRMSMC  
     BURIED  . . . . . . . .    1.57        336    98.8   340     CRMSMC  
     CORE  . . . . . . . . .    1.73        698   100.0   698     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    4.20        633    98.4   643     CRMSSC  
     WELL ORDERED  . . . . .    3.37        461   100.0   461     CRMSSC  
     NO INTER CONTACTS . . .    3.26        238    99.2   240     CRMSSC  
     RELIABLE SIDE CHAINS  .    4.21        559    98.9   565     CRMSSC  
     CHANGED ANGLES  . . . .    5.21        315    97.8   322     CRMSSC  
     SECONDARY STRUCTURE . .    4.78        347   100.0   347     CRMSSC  
     LARGE SHIFTS/INSERTIONS    8.41         52    83.9    62     CRMSSC  
     SURFACE . . . . . . . .    4.89        355    97.8   363     CRMSSC  
     BURIED  . . . . . . . .    3.09        278    99.3   280     CRMSSC  
     CORE  . . . . . . . . .    3.58        581   100.0   581     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    3.46       1261    98.4  1282     CRMSALL 
     WELL ORDERED  . . . . .    2.89       1063    99.6  1067     CRMSALL 
     NO INTER CONTACTS . . .    2.54        486    99.0   491     CRMSALL 
     SHIFTED CHAIN . . . . .    4.25        545    96.3   566     CRMSALL 
     ALTERNATIVE PARENT  . .    4.63         51   100.0    51     CRMSALL 
     SECONDARY STRUCTURE . .    3.96        675   100.0   675     CRMSALL 
     LARGE SHIFTS/INSERTIONS    7.30        116    84.7   137     CRMSALL 
     SURFACE . . . . . . . .    4.08        711    97.8   727     CRMSALL 
     BURIED  . . . . . . . .    2.41        550    99.1   555     CRMSALL 
     CORE  . . . . . . . . .    2.79       1145   100.0  1145     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    14.14      2    50.0     4       7-LNMS-10   
 CA  LOOP  2     4.96      7   100.0     7      38-KNPDGTM-44   
 CA  LOOP  3     5.75      2    66.7     3     164-APS-166  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    13.48     10    50.0    20       7-LNMS-10   
 MC  LOOP  2     4.86     34   100.0    34      38-KNPDGTM-44   
 MC  LOOP  3     6.35     10    71.4    14     164-APS-166  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    15.51     14    46.7    30       7-LNMS-10   
 ALL LOOP  2     5.05     51   100.0    51      38-KNPDGTM-44   
 ALL LOOP  3     6.95     12    70.6    17     164-APS-166  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 CA  LOOP  2     2.61      7   100.0     7      38-KNPDGTM-44   
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 MC  LOOP  2     2.90     34   100.0    34      38-KNPDGTM-44   
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 ALL LOOP  2     4.25     51   100.0    51      38-KNPDGTM-44   
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.669      1.000       0.500    157    98.1   160     ERRCA  
     WELL ORDERED  . . . . .    1.667      1.000       0.500    155    99.4   156     ERRCA  
     NO INTER CONTACTS . . .    1.066      1.000       0.500     62    98.4    63     ERRCA  
     SHIFTED CHAIN . . . . .    2.606      1.000       0.500     68    95.8    71     ERRCA  
     ALTERNATIVE PARENT  . .    3.414      1.000       0.500      6   100.0     6     ERRCA  
     SECONDARY STRUCTURE . .    1.917      1.000       0.500     82   100.0    82     ERRCA  
     LARGE SHIFTS/INSERTIONS    5.480      1.000       0.500     16    84.2    19     ERRCA  
     SURFACE . . . . . . . .    2.142      1.000       0.500     89    97.8    91     ERRCA  
     BURIED  . . . . . . . .    1.051      1.000       0.500     68    98.6    69     ERRCA  
     CORE  . . . . . . . . .    1.237      1.000       0.500    141   100.0   141     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.224      0.991       0.511    776    98.2   790     ERRMC  
     WELL ORDERED  . . . . .    2.173      0.992       0.511    744    99.5   748     ERRMC  
     NO INTER CONTACTS . . .    1.599      0.996       0.511    305    98.7   309     ERRMC  
     SHIFTED CHAIN . . . . .    3.080      0.984       0.509    337    96.0   351     ERRMC  
     ALTERNATIVE PARENT  . .    3.923      0.971       0.510     30   100.0    30     ERRMC  
     SECONDARY STRUCTURE . .    2.132      0.993       0.504    408   100.0   408     ERRMC  
     LARGE SHIFTS/INSERTIONS    6.066      0.965       0.510     78    84.8    92     ERRMC  
     SURFACE . . . . . . . .    2.615      0.990       0.510    440    97.8   450     ERRMC  
     BURIED  . . . . . . . .    1.713      0.993       0.514    336    98.8   340     ERRMC  
     CORE  . . . . . . . . .    1.795      0.994       0.511    698   100.0   698     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   13.999      0.796       0.727    633    98.4   643     ERRSC  
     WELL ORDERED  . . . . .   13.458      0.835       0.732    461   100.0   461     ERRSC  
     NO INTER CONTACTS . . .   14.133      0.829       0.749    238    99.2   240     ERRSC  
     RELIABLE SIDE CHAINS  .   13.629      0.803       0.721    559    98.9   565     ERRSC  
     CHANGED ANGLES  . . . .   16.135      0.702       0.740    315    97.8   322     ERRSC  
     SHIFTED CHAIN . . . . .   13.613      0.752       0.695    273    96.5   283     ERRSC  
     ALTERNATIVE PARENT  . .   13.279      0.670       0.657     27   100.0    27     ERRSC  
     SECONDARY STRUCTURE . .   13.476      0.783       0.706    347   100.0   347     ERRSC  
     LARGE SHIFTS/INSERTIONS   12.231      0.589       0.578     52    83.9    62     ERRSC  
     SURFACE . . . . . . . .   13.529      0.762       0.697    355    97.8   363     ERRSC  
     BURIED  . . . . . . . .   14.598      0.839       0.765    278    99.3   280     ERRSC  
     CORE  . . . . . . . . .   14.157      0.814       0.741    581   100.0   581     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.832      0.897       0.614   1261    98.4  1282     ERRALL 
     WELL ORDERED  . . . . .    6.724      0.928       0.600   1063    99.6  1067     ERRALL 
     NO INTER CONTACTS . . .    7.462      0.916       0.622    486    99.0   491     ERRALL 
     SHIFTED CHAIN . . . . .    8.073      0.876       0.598    545    96.3   566     ERRALL 
     ALTERNATIVE PARENT  . .    8.483      0.826       0.583     51   100.0    51     ERRALL 
     SECONDARY STRUCTURE . .    7.804      0.888       0.606    675   100.0   675     ERRALL 
     LARGE SHIFTS/INSERTIONS    8.357      0.816       0.535    116    84.7   137     ERRALL 
     SURFACE . . . . . . . .    7.785      0.881       0.598    711    97.8   727     ERRALL 
     BURIED  . . . . . . . .    7.892      0.918       0.634    550    99.1   555     ERRALL 
     CORE  . . . . . . . . .    7.778      0.906       0.622   1145   100.0  1145     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)        82       122       128       149       155     157     160   DISTCA 
CA  (P)     51.25     76.25     80.00     93.12     96.88             160   DISTCA 
CA  (RMS)    0.62      0.97      1.10      1.74      2.09                   DISTCA 
 
ALL (N)       488       801       960      1126      1234    1261    1282   DISTALL 
ALL (P)     38.07     62.48     74.88     87.83     96.26            1282   DISTALL 
ALL (RMS)    0.65      1.05      1.40      1.96      2.76                   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)         141           141            16          RMSLSI 
CA  (P)       88.12         88.12         10.00          RMSLSI 
CA  (RMS)      1.05          1.66          6.57          RMSLSI 
 
 
 
END of the results output 
