 
####################################################### 
#                                                     # 
#                        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/T0003.inter 
# 
NUMBER-OF-PARENTS      2 
ALIGNMENT-DALI(1)      ../PARENTS/casp2.T0003.1gpr.rot 
ALIGNMENT-DALI(2)      ../PARENTS/casp2.T0003.1f3g.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 1162 atoms, MODEL 154 atoms, 154 common with TARGET 
           Number of atoms possible to evaluate: 154 
 
 
 CA-RMS TARGET<->PARENT(1gpr)	 1.649883 
 
 CA-RMS TARGET<->PARENT(1f3g)	 1.280893 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   306     ARMSMC  
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0   164     ARMSMC  
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0   208     ARMSMC  
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0   156     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0    27     ARMSMC  
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0   126     ARMSMC  
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    38     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .     0.00            0.0     0     0.0   178     ARMSMC  
     BURIED  . . . . . . . .     0.00            0.0     0     0.0   128     ARMSMC  
     CORE  . . . . . . . . .     0.00            0.0     0     0.0   268     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0   130     ARMSSC1 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    57     ARMSSC1 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    83     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0   113     ARMSSC1 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    73     ARMSSC1 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    67     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0    12     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    54     ARMSSC1 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    17     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    78     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    52     ARMSSC1 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0   113     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    94     ARMSSC2 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    35     ARMSSC2 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    57     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    70     ARMSSC2 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    71     ARMSSC2 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    47     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     8     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    39     ARMSSC2 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    15     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    60     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    34     ARMSSC2 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    79     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    32     ARMSSC3 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0     5     ARMSSC3 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    15     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    28     ARMSSC3 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    29     ARMSSC3 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    18     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     3     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    10     ARMSSC3 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     6     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    32     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    26     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    17     ARMSSC4 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0     2     ARMSSC4 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    10     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    17     ARMSSC4 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    17     ARMSSC4 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    10     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     2     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     6     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     4     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    17     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    13     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =   0.49443     r(1,2) =   0.52558     r(1,3) =  -0.69232 
 r(2,1) =  -0.11522     r(2,2) =  -0.74983     r(2,3) =  -0.65153 
 r(3,1) =  -0.86155     r(3,2) =   0.40190     r(3,3) =  -0.31018 
THE OFFSET VECTOR: 
 v(1) =  18.24487     v(2) =  22.18932     v(3) =  10.07936 
 
 Number of iteration 32                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.56           (Number of atoms:  111) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    3.05        154   100.0   154     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0198                            CRMSCA  
     WELL ORDERED  . . . . .    2.30         88   100.0    88     CRMSCA  
     NO INTER CONTACTS . . .    2.42        104   100.0   104     CRMSCA  
     SHIFTED CHAIN . . . . .    3.91         79   100.0    79     CRMSCA  
     ALTERNATIVE PARENT  . .    4.61         14   100.0    14     CRMSCA  
     SECONDARY STRUCTURE . .    2.30         63   100.0    63     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS    6.63         20   100.0    20     CRMSCA  
     SURFACE . . . . . . . .    3.54         90   100.0    90     CRMSCA  
     BURIED  . . . . . . . .    2.21         64   100.0    64     CRMSCA  
     CORE  . . . . . . . . .    2.04        134   100.0   134     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    3.05        154    20.4   756     CRMSMC  
     WELL ORDERED  . . . . .    2.30         88    19.9   442     CRMSMC  
     NO INTER CONTACTS . . .    2.42        104    20.5   507     CRMSMC  
     SHIFTED CHAIN . . . . .    3.91         79    20.3   389     CRMSMC  
     ALTERNATIVE PARENT  . .    4.61         14    20.6    68     CRMSMC  
     SECONDARY STRUCTURE . .    2.30         63    20.3   310     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS    6.63         20    20.4    98     CRMSMC  
     SURFACE . . . . . . . .    3.54         90    20.4   442     CRMSMC  
     BURIED  . . . . . . . .    2.21         64    20.4   314     CRMSMC  
     CORE  . . . . . . . . .    2.04        134    20.4   658     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   546     CRMSSC  
     WELL ORDERED  . . . . .    0.00          0     0.0   266     CRMSSC  
     NO INTER CONTACTS . . .    0.00          0     0.0   341     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   450     CRMSSC  
     CHANGED ANGLES  . . . .    0.00          0     0.0   287     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   229     CRMSSC  
     LARGE SHIFTS/INSERTIONS    0.00          0     0.0    78     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   333     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   213     CRMSSC  
     CORE  . . . . . . . . .    0.00          0     0.0   468     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    3.05        154    13.3  1162     CRMSALL 
     WELL ORDERED  . . . . .    2.30         88    14.0   627     CRMSALL 
     NO INTER CONTACTS . . .    2.42        104    13.7   757     CRMSALL 
     SHIFTED CHAIN . . . . .    3.91         79    13.5   585     CRMSALL 
     ALTERNATIVE PARENT  . .    4.61         14    13.7   102     CRMSALL 
     SECONDARY STRUCTURE . .    2.30         63    13.1   481     CRMSALL 
     LARGE SHIFTS/INSERTIONS    6.63         20    12.7   158     CRMSALL 
     SURFACE . . . . . . . .    3.54         90    13.0   693     CRMSALL 
     BURIED  . . . . . . . .    2.21         64    13.6   469     CRMSALL 
     CORE  . . . . . . . . .    2.04        134    13.3  1004     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     7.97      9   100.0     9       1-MWFFNKNLK-9    
 CA  LOOP  2     4.93      8   100.0     8     132-GGKTLEIV-139  
 CA  LOOP  3     6.13      3   100.0     3     152-ILK-154  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     7.97      9    20.0    45       1-MWFFNKNLK-9    
 MC  LOOP  2     4.93      8    21.1    38     132-GGKTLEIV-139  
 MC  LOOP  3     6.13      3    20.0    15     152-ILK-154  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     7.97      9    11.7    77       1-MWFFNKNLK-9    
 ALL LOOP  2     4.93      8    14.3    56     132-GGKTLEIV-139  
 ALL LOOP  3     6.13      3    12.0    25     152-ILK-154  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     4.10      9   100.0     9       1-MWFFNKNLK-9    
 CA  LOOP  2     2.21      8   100.0     8     132-GGKTLEIV-139  
 CA  LOOP  3     0.30      3   100.0     3     152-ILK-154  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     4.10      9    20.0    45       1-MWFFNKNLK-9    
 MC  LOOP  2     2.21      8    21.1    38     132-GGKTLEIV-139  
 MC  LOOP  3     0.30      3    20.0    15     152-ILK-154  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     4.10      9    11.7    77       1-MWFFNKNLK-9    
 ALL LOOP  2     2.21      8    14.3    56     132-GGKTLEIV-139  
 ALL LOOP  3     0.30      3    12.0    25     152-ILK-154  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.780      0.638       0.319    154   100.0   154     ERRCA  
     WELL ORDERED  . . . . .    1.621      0.656       0.328     88   100.0    88     ERRCA  
     NO INTER CONTACTS . . .    1.555      0.652       0.326    104   100.0   104     ERRCA  
     SHIFTED CHAIN . . . . .    2.239      0.626       0.313     79   100.0    79     ERRCA  
     ALTERNATIVE PARENT  . .    3.192      0.600       0.300     14   100.0    14     ERRCA  
     SECONDARY STRUCTURE . .    1.579      0.656       0.328     63   100.0    63     ERRCA  
     LARGE SHIFTS/INSERTIONS    3.674      0.499       0.250     20   100.0    20     ERRCA  
     SURFACE . . . . . . . .    1.967      0.624       0.312     90   100.0    90     ERRCA  
     BURIED  . . . . . . . .    1.517      0.657       0.329     64   100.0    64     ERRCA  
     CORE  . . . . . . . . .    1.497      0.659       0.329    134   100.0   134     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.780      0.638       0.319    154    20.4   756     ERRMC  
     WELL ORDERED  . . . . .    1.621      0.656       0.328     88    19.9   442     ERRMC  
     NO INTER CONTACTS . . .    1.555      0.652       0.326    104    20.5   507     ERRMC  
     SHIFTED CHAIN . . . . .    2.239      0.626       0.313     79    20.3   389     ERRMC  
     ALTERNATIVE PARENT  . .    3.192      0.600       0.300     14    20.6    68     ERRMC  
     SECONDARY STRUCTURE . .    1.579      0.656       0.328     63    20.3   310     ERRMC  
     LARGE SHIFTS/INSERTIONS    3.674      0.499       0.250     20    20.4    98     ERRMC  
     SURFACE . . . . . . . .    1.967      0.624       0.312     90    20.4   442     ERRMC  
     BURIED  . . . . . . . .    1.517      0.657       0.329     64    20.4   314     ERRMC  
     CORE  . . . . . . . . .    1.497      0.659       0.329    134    20.4   658     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.000      0.000       0.000      0     0.0   546     ERRSC  
     WELL ORDERED  . . . . .    0.000      0.000       0.000      0     0.0   266     ERRSC  
     NO INTER CONTACTS . . .    0.000      0.000       0.000      0     0.0   341     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   450     ERRSC  
     CHANGED ANGLES  . . . .    0.000      0.000       0.000      0     0.0   287     ERRSC  
     SHIFTED CHAIN . . . . .    0.000      0.000       0.000      0     0.0   269     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0    46     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   229     ERRSC  
     LARGE SHIFTS/INSERTIONS    0.000      0.000       0.000      0     0.0    78     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   333     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   213     ERRSC  
     CORE  . . . . . . . . .    0.000      0.000       0.000      0     0.0   468     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.780      0.638       0.319    154    13.3  1162     ERRALL 
     WELL ORDERED  . . . . .    1.621      0.656       0.328     88    14.0   627     ERRALL 
     NO INTER CONTACTS . . .    1.555      0.652       0.326    104    13.7   757     ERRALL 
     SHIFTED CHAIN . . . . .    2.239      0.626       0.313     79    13.5   585     ERRALL 
     ALTERNATIVE PARENT  . .    3.192      0.600       0.300     14    13.7   102     ERRALL 
     SECONDARY STRUCTURE . .    1.579      0.656       0.328     63    13.1   481     ERRALL 
     LARGE SHIFTS/INSERTIONS    3.674      0.499       0.250     20    12.7   158     ERRALL 
     SURFACE . . . . . . . .    1.967      0.624       0.312     90    13.0   693     ERRALL 
     BURIED  . . . . . . . .    1.517      0.657       0.329     64    13.6   469     ERRALL 
     CORE  . . . . . . . . .    1.497      0.659       0.329    134    13.3  1004     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        91       123       141       152     154     154   DISTCA 
CA  (P)     16.23     59.09     79.87     91.56     98.70             154   DISTCA 
CA  (RMS)    0.80      1.35      1.71      2.04      2.72                   DISTCA 
 
ALL (N)        25        91       123       141       152     154    1162   DISTALL 
ALL (P)      2.15      7.83     10.59     12.13     13.08            1162   DISTALL 
ALL (RMS)    0.80      1.35      1.71      2.04      2.72                   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)         134           134            20          RMSLSI 
CA  (P)       87.01         87.01         12.99          RMSLSI 
CA  (RMS)      1.12          2.04          6.63          RMSLSI 
 
 
 
END of the results output 
