 
####################################################### 
#                                                     # 
#                        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 1319 atoms, 1282 common with TARGET 
           Number of atoms possible to evaluate: 1266 
 
 
 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 . . . . . . . . . .    43.29           79.3   314    98.7   318     ARMSMC  
     WELL ORDERED  . . . . .    41.76           80.7   301    99.0   304     ARMSMC  
     NO INTER CONTACTS . . .    33.90           86.4   125   100.0   125     ARMSMC  
     SHIFTED CHAIN . . . . .    59.81           68.4   136    97.1   140     ARMSMC  
     ALTERNATIVE PARENT  . .    52.78           58.3    12   100.0    12     ARMSMC  
     SECONDARY STRUCTURE . .    37.51           82.2   163    99.4   164     ARMSMC  
     LARGE SHIFTS/INSERTIONS    90.10           40.6    32    88.9    36     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    55.51           70.6   177    97.8   181     ARMSMC  
     BURIED  . . . . . . . .    17.74           90.5   137   100.0   137     ARMSMC  
     CORE  . . . . . . . . .    34.14           83.7   282   100.0   282     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    67.66           58.4   137    98.6   139     ARMSSC1 
     WELL ORDERED  . . . . .    63.99           61.4   101   100.0   101     ARMSSC1 
     NO INTER CONTACTS . . .    62.18           64.7    51   100.0    51     ARMSSC1 
     RELIABLE SIDE CHAINS  .    68.52           57.3   131    98.5   133     ARMSSC1 
     CHANGED ANGLES  . . . .    78.13           48.6    72    97.3    74     ARMSSC1 
     SHIFTED CHAIN . . . . .    78.47           45.0    60    96.8    62     ARMSSC1 
     ALTERNATIVE PARENT  . .    84.24           33.3     6   100.0     6     ARMSSC1 
     SECONDARY STRUCTURE . .    69.42           57.7    71   100.0    71     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    63.26           42.9    14    87.5    16     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    78.27           46.2    78    97.5    80     ARMSSC1 
     BURIED  . . . . . . . .    50.29           74.6    59   100.0    59     ARMSSC1 
     CORE  . . . . . . . . .    68.14           60.2   123   100.0   123     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    58.54           57.9   114    98.3   116     ARMSSC2 
     WELL ORDERED  . . . . .    52.83           63.4    71   100.0    71     ARMSSC2 
     NO INTER CONTACTS . . .    52.19           68.3    41   100.0    41     ARMSSC2 
     RELIABLE SIDE CHAINS  .    54.40           59.8    92   100.0    92     ARMSSC2 
     CHANGED ANGLES  . . . .    60.37           51.3    78    97.5    80     ARMSSC2 
     SHIFTED CHAIN . . . . .    66.76           48.0    50    96.2    52     ARMSSC2 
     ALTERNATIVE PARENT  . .    60.07           60.0     5   100.0     5     ARMSSC2 
     SECONDARY STRUCTURE . .    62.96           58.3    60   100.0    60     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    69.94           27.3    11    84.6    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    63.67           53.0    66    97.1    68     ARMSSC2 
     BURIED  . . . . . . . .    50.65           64.6    48   100.0    48     ARMSSC2 
     CORE  . . . . . . . . .    57.19           61.2   103   100.0   103     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    84.66           36.4    44   100.0    44     ARMSSC3 
     WELL ORDERED  . . . . .    79.79           60.0    10   100.0    10     ARMSSC3 
     NO INTER CONTACTS . . .    69.33           41.7    12   100.0    12     ARMSSC3 
     RELIABLE SIDE CHAINS  .    86.92           32.4    37   100.0    37     ARMSSC3 
     CHANGED ANGLES  . . . .    83.68           38.9    36   100.0    36     ARMSSC3 
     SHIFTED CHAIN . . . . .    86.62           39.1    23   100.0    23     ARMSSC3 
     ALTERNATIVE PARENT  . .   133.11            0.0     2   100.0     2     ARMSSC3 
     SECONDARY STRUCTURE . .    95.74           25.0    32   100.0    32     ARMSSC3 
     LARGE SHIFTS/INSERTIONS   110.73           25.0     4   100.0     4     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    85.31           30.6    36   100.0    36     ARMSSC3 
     BURIED  . . . . . . . .    81.71           62.5     8   100.0     8     ARMSSC3 
     CORE  . . . . . . . . .    81.60           37.5    40   100.0    40     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    90.86           22.7    22   100.0    22     ARMSSC4 
     WELL ORDERED  . . . . .    98.79            0.0     1   100.0     1     ARMSSC4 
     NO INTER CONTACTS . . .   104.94           14.3     7   100.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .    90.86           22.7    22   100.0    22     ARMSSC4 
     CHANGED ANGLES  . . . .    89.81           23.8    21   100.0    21     ARMSSC4 
     SHIFTED CHAIN . . . . .    91.84           23.1    13   100.0    13     ARMSSC4 
     ALTERNATIVE PARENT  . .     7.50          100.0     1   100.0     1     ARMSSC4 
     SECONDARY STRUCTURE . .    93.51           17.6    17   100.0    17     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     7.50          100.0     1   100.0     1     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    90.38           25.0    20   100.0    20     ARMSSC4 
     BURIED  . . . . . . . .    95.55            0.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    92.99           19.0    21   100.0    21     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.17680     r(1,2) =   0.23648     r(1,3) =  -0.95542 
 r(2,1) =   0.98401     r(2,2) =   0.06375     r(2,3) =  -0.16631 
 r(3,1) =   0.02158     r(3,2) =  -0.96954     r(3,3) =  -0.24397 
THE OFFSET VECTOR: 
 v(1) =  28.17482     v(2) =  -0.11027     v(3) =  46.64736 
 
 Number of iteration 24                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.02           (Number of atoms:  129) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.89        158    98.8   160     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0183                            CRMSCA  
     WELL ORDERED  . . . . .    2.78        155    99.4   156     CRMSCA  
     NO INTER CONTACTS . . .    2.17         63   100.0    63     CRMSCA  
     SHIFTED CHAIN . . . . .    4.05         69    97.2    71     CRMSCA  
     ALTERNATIVE PARENT  . .    3.59          6   100.0     6     CRMSCA  
     SECONDARY STRUCTURE . .    3.05         82   100.0    82     CRMSCA  
     SHIFTED SS UNITS  . . .    1.44          9   100.0     9     CRMSCA  
     LARGE SHIFTS/INSERTIONS    7.51         17    89.5    19     CRMSCA  
     SURFACE . . . . . . . .    3.48         89    97.8    91     CRMSCA  
     BURIED  . . . . . . . .    1.87         69   100.0    69     CRMSCA  
     CORE  . . . . . . . . .    1.60        141   100.0   141     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.95        780    98.7   790     CRMSMC  
     WELL ORDERED  . . . . .    2.72        744    99.5   748     CRMSMC  
     NO INTER CONTACTS . . .    2.44        309   100.0   309     CRMSMC  
     SHIFTED CHAIN . . . . .    4.12        341    97.2   351     CRMSMC  
     ALTERNATIVE PARENT  . .    3.67         30   100.0    30     CRMSMC  
     SECONDARY STRUCTURE . .    3.01        408   100.0   408     CRMSMC  
     SHIFTED SS UNITS  . . .    1.48         45   100.0    45     CRMSMC  
     LARGE SHIFTS/INSERTIONS    7.70         82    89.1    92     CRMSMC  
     SURFACE . . . . . . . .    3.59        440    97.8   450     CRMSMC  
     BURIED  . . . . . . . .    1.82        340   100.0   340     CRMSMC  
     CORE  . . . . . . . . .    1.67        698   100.0   698     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    4.44        635    98.8   643     CRMSSC  
     WELL ORDERED  . . . . .    3.34        461   100.0   461     CRMSSC  
     NO INTER CONTACTS . . .    3.34        240   100.0   240     CRMSSC  
     RELIABLE SIDE CHAINS  .    4.51        561    99.3   565     CRMSSC  
     CHANGED ANGLES  . . . .    5.64        316    98.1   322     CRMSSC  
     SECONDARY STRUCTURE . .    4.85        347   100.0   347     CRMSSC  
     LARGE SHIFTS/INSERTIONS   10.03         54    87.1    62     CRMSSC  
     SURFACE . . . . . . . .    5.37        355    97.8   363     CRMSSC  
     BURIED  . . . . . . . .    2.87        280   100.0   280     CRMSSC  
     CORE  . . . . . . . . .    3.49        581   100.0   581     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    3.73       1266    98.8  1282     CRMSALL 
     WELL ORDERED  . . . . .    2.94       1063    99.6  1067     CRMSALL 
     NO INTER CONTACTS . . .    2.90        491   100.0   491     CRMSALL 
     SHIFTED CHAIN . . . . .    4.84        550    97.2   566     CRMSALL 
     ALTERNATIVE PARENT  . .    5.19         51   100.0    51     CRMSALL 
     SECONDARY STRUCTURE . .    4.01        675   100.0   675     CRMSALL 
     LARGE SHIFTS/INSERTIONS    8.71        121    88.3   137     CRMSALL 
     SURFACE . . . . . . . .    4.52        711    97.8   727     CRMSALL 
     BURIED  . . . . . . . .    2.37        555   100.0   555     CRMSALL 
     CORE  . . . . . . . . .    2.72       1145   100.0  1145     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    14.37      2    50.0     4       7-LNMS-10   
 CA  LOOP  2     5.81      7   100.0     7      38-KNPDGTM-44   
 CA  LOOP  3     7.96      3   100.0     3     164-APS-166  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    13.70     10    50.0    20       7-LNMS-10   
 MC  LOOP  2     5.67     34   100.0    34      38-KNPDGTM-44   
 MC  LOOP  3     9.70     14   100.0    14     164-APS-166  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    16.04     14    46.7    30       7-LNMS-10   
 ALL LOOP  2     6.39     51   100.0    51      38-KNPDGTM-44   
 ALL LOOP  3     9.82     17   100.0    17     164-APS-166  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 CA  LOOP  2     2.70      7   100.0     7      38-KNPDGTM-44   
 CA  LOOP  3     0.56      3   100.0     3     164-APS-166  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 MC  LOOP  2     2.83     34   100.0    34      38-KNPDGTM-44   
 MC  LOOP  3     5.43     14   100.0    14     164-APS-166  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 ALL LOOP  2     4.99     51   100.0    51      38-KNPDGTM-44   
 ALL LOOP  3     5.05     17   100.0    17     164-APS-166  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.162      0.322       0.262    158    98.8   160     ERRCA  
     WELL ORDERED  . . . . .    1.116      0.320       0.263    155    99.4   156     ERRCA  
     NO INTER CONTACTS . . .    0.862      0.324       0.307     63   100.0    63     ERRCA  
     SHIFTED CHAIN . . . . .    1.742      0.297       0.152     69    97.2    71     ERRCA  
     ALTERNATIVE PARENT  . .    1.901      0.366       0.183      6   100.0     6     ERRCA  
     SECONDARY STRUCTURE . .    1.230      0.325       0.252     82   100.0    82     ERRCA  
     LARGE SHIFTS/INSERTIONS    5.041      0.574       0.287     17    89.5    19     ERRCA  
     SURFACE . . . . . . . .    1.502      0.334       0.227     89    97.8    91     ERRCA  
     BURIED  . . . . . . . .    0.724      0.308       0.307     69   100.0    69     ERRCA  
     CORE  . . . . . . . . .    0.694      0.292       0.259    141   100.0   141     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.162      0.309       0.247    780    98.7   790     ERRMC  
     WELL ORDERED  . . . . .    1.068      0.304       0.247    744    99.5   748     ERRMC  
     NO INTER CONTACTS . . .    0.882      0.306       0.285    309   100.0   309     ERRMC  
     SHIFTED CHAIN . . . . .    1.772      0.301       0.158    341    97.2   351     ERRMC  
     ALTERNATIVE PARENT  . .    1.929      0.373       0.199     30   100.0    30     ERRMC  
     SECONDARY STRUCTURE . .    1.208      0.317       0.245    408   100.0   408     ERRMC  
     LARGE SHIFTS/INSERTIONS    5.116      0.566       0.283     82    89.1    92     ERRMC  
     SURFACE . . . . . . . .    1.540      0.332       0.227    440    97.8   450     ERRMC  
     BURIED  . . . . . . . .    0.672      0.279       0.272    340   100.0   340     ERRMC  
     CORE  . . . . . . . . .    0.697      0.279       0.242    698   100.0   698     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.186      0.395       0.259    635    98.8   643     ERRSC  
     WELL ORDERED  . . . . .    1.553      0.350       0.254    461   100.0   461     ERRSC  
     NO INTER CONTACTS . . .    1.564      0.344       0.243    240   100.0   240     ERRSC  
     RELIABLE SIDE CHAINS  .    2.192      0.390       0.256    561    99.3   565     ERRSC  
     CHANGED ANGLES  . . . .    3.257      0.485       0.265    316    98.1   322     ERRSC  
     SHIFTED CHAIN . . . . .    3.128      0.460       0.240    275    97.2   283     ERRSC  
     ALTERNATIVE PARENT  . .    4.201      0.569       0.292     27   100.0    27     ERRSC  
     SECONDARY STRUCTURE . .    2.403      0.403       0.250    347   100.0   347     ERRSC  
     LARGE SHIFTS/INSERTIONS    7.362      0.675       0.337     54    87.1    62     ERRSC  
     SURFACE . . . . . . . .    2.976      0.454       0.252    355    97.8   363     ERRSC  
     BURIED  . . . . . . . .    1.184      0.321       0.269    280   100.0   280     ERRSC  
     CORE  . . . . . . . . .    1.705      0.369       0.252    581   100.0   581     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.645      0.351       0.254   1266    98.8  1282     ERRALL 
     WELL ORDERED  . . . . .    1.245      0.323       0.251   1063    99.6  1067     ERRALL 
     NO INTER CONTACTS . . .    1.205      0.327       0.268    491   100.0   491     ERRALL 
     SHIFTED CHAIN . . . . .    2.409      0.376       0.196    550    97.2   566     ERRALL 
     ALTERNATIVE PARENT  . .    3.050      0.467       0.241     51   100.0    51     ERRALL 
     SECONDARY STRUCTURE . .    1.786      0.359       0.248    675   100.0   675     ERRALL 
     LARGE SHIFTS/INSERTIONS    5.967      0.604       0.302    121    88.3   137     ERRALL 
     SURFACE . . . . . . . .    2.215      0.390       0.239    711    97.8   727     ERRALL 
     BURIED  . . . . . . . .    0.915      0.302       0.273    555   100.0   555     ERRALL 
     CORE  . . . . . . . . .    1.189      0.325       0.249   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)        88       123       129       146       155     158     160   DISTCA 
CA  (P)     55.00     76.88     80.62     91.25     96.88             160   DISTCA 
CA  (RMS)    0.62      0.92      1.02      1.60      2.26                   DISTCA 
 
ALL (N)       579       851       956      1108      1227    1266    1282   DISTALL 
ALL (P)     45.16     66.38     74.57     86.43     95.71            1282   DISTALL 
ALL (RMS)    0.64      0.96      1.22      1.85      2.83                   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            17          RMSLSI 
CA  (P)       88.12         88.12         10.62          RMSLSI 
CA  (RMS)      1.05          1.60          7.51          RMSLSI 
 
 
 
END of the results output 
