 
####################################################### 
#                                                     # 
#                        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/T0064.inter 
CONANA-PAIR            ../CONANA/T0064.pair 
# 
NUMBER-OF-PARENTS      2 
ALIGNMENT-DALI(1)      ../PARENTS/casp3.T0064.1r69.rot 
ALIGNMENT-DALI(2)      ../PARENTS/casp3.T0064.2cro.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 845 atoms, MODEL 475 atoms, 443 common with TARGET 
           Number of atoms possible to evaluate: 380 
 
 
 CA-RMS TARGET<->PARENT(1r69)	 1.473148 
 
 CA-RMS TARGET<->PARENT(2cro)	 1.394009 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    65.64           67.2   174    86.6   201     ARMSMC  
     WELL ORDERED  . . . . .    63.26           69.3   150    93.2   161     ARMSMC  
     NO INTER CONTACTS . . .    55.27           74.7    91    86.7   105     ARMSMC  
     SHIFTED CHAIN . . . . .    70.44           61.3   119    84.4   141     ARMSMC  
     ALTERNATIVE PARENT  . .   105.22           25.0     4   100.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    59.18           74.6   114    89.8   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    78.11           54.7    75    84.3    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    72.96           63.1   130    86.1   151     ARMSMC  
     BURIED  . . . . . . . .    36.18           79.5    44    88.0    50     ARMSMC  
     CORE  . . . . . . . . .    54.32           76.8    99    88.4   112     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    91     ARMSSC1 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    54     ARMSSC1 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    45     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    84     ARMSSC1 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    66     ARMSSC1 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    64     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     2     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    57     ARMSSC1 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    42     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    69     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    22     ARMSSC1 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    49     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    64     ARMSSC2 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    28     ARMSSC2 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    33     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    49     ARMSSC2 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    47     ARMSSC2 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    44     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     1     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    42     ARMSSC2 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    28     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    49     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    15     ARMSSC2 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    36     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    31     ARMSSC3 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    10     ARMSSC3 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    15     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    26     ARMSSC3 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    24     ARMSSC3 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    20     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    23     ARMSSC3 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    14     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    28     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC3 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    17     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    12     ARMSSC4 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0     3     ARMSSC4 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0     6     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    12     ARMSSC4 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    11     ARMSSC4 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0     6     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     9     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     3     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    10     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     2     ARMSSC4 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0     9     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.79567     r(1,2) =  -0.48089     r(1,3) =  -0.36832 
 r(2,1) =  -0.47869     r(2,2) =   0.87179     r(2,3) =  -0.10414 
 r(3,1) =   0.37117     r(3,2) =   0.09345     r(3,3) =  -0.92385 
THE OFFSET VECTOR: 
 v(1) =  62.42181     v(2) =  54.34017     v(3) =  35.92249 
 
 Number of iteration 32                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.68           (Number of atoms:   12) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   12.70         95    92.2   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1337                            CRMSCA  
     WELL ORDERED  . . . . .   12.70         80    94.1    85     CRMSCA  
     NO INTER CONTACTS . . .    9.89         51    94.4    54     CRMSCA  
     SHIFTED CHAIN . . . . .   14.15         67    91.8    73     CRMSCA  
     ALTERNATIVE PARENT  . .   14.41          2   100.0     2     CRMSCA  
     SECONDARY STRUCTURE . .   11.76         62    95.4    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS   15.44         44    93.6    47     CRMSCA  
     SURFACE . . . . . . . .   13.86         72    92.3    78     CRMSCA  
     BURIED  . . . . . . . .    8.04         23    92.0    25     CRMSCA  
     CORE  . . . . . . . . .    9.74         51    91.1    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   12.61        380    74.4   511     CRMSMC  
     WELL ORDERED  . . . . .   12.42        329    78.3   420     CRMSMC  
     NO INTER CONTACTS . . .    9.83        204    76.4   267     CRMSMC  
     SHIFTED CHAIN . . . . .   14.03        268    73.8   363     CRMSMC  
     ALTERNATIVE PARENT  . .   14.04          8    80.0    10     CRMSMC  
     SECONDARY STRUCTURE . .   11.74        248    76.5   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS   15.29        176    75.2   234     CRMSMC  
     SURFACE . . . . . . . .   13.74        288    74.4   387     CRMSMC  
     BURIED  . . . . . . . .    8.09         92    74.2   124     CRMSMC  
     CORE  . . . . . . . . .    9.72        204    73.6   277     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   433     CRMSSC  
     WELL ORDERED  . . . . .    0.00          0     0.0   248     CRMSSC  
     NO INTER CONTACTS . . .    0.00          0     0.0   210     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   371     CRMSSC  
     CHANGED ANGLES  . . . .    0.00          0     0.0   281     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS    0.00          0     0.0   213     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   344     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0    89     CRMSSC  
     CORE  . . . . . . . . .    0.00          0     0.0   220     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   12.61        380    45.0   845     CRMSALL 
     WELL ORDERED  . . . . .   12.42        329    55.5   593     CRMSALL 
     NO INTER CONTACTS . . .    9.83        204    47.9   426     CRMSALL 
     SHIFTED CHAIN . . . . .   14.03        268    44.6   601     CRMSALL 
     ALTERNATIVE PARENT  . .   14.04          8    57.1    14     CRMSALL 
     SECONDARY STRUCTURE . .   11.74        248    44.5   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS   15.29        176    43.9   401     CRMSALL 
     SURFACE . . . . . . . .   13.74        288    43.9   656     CRMSALL 
     BURIED  . . . . . . . .    8.09         92    48.7   189     CRMSALL 
     CORE  . . . . . . . . .    9.72        204    45.9   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    10.85      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2    16.12     37    92.5    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    10.53     24    80.0    30      40-TNPSIQ-45   
 MC  LOOP  2    16.00    148    74.4   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    10.53     24    53.3    45      40-TNPSIQ-45   
 ALL LOOP  2    16.00    148    42.5   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     0.99      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     7.59     37    92.5    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     1.11     24    80.0    30      40-TNPSIQ-45   
 MC  LOOP  2     7.31    148    74.4   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     1.11     24    53.3    45      40-TNPSIQ-45   
 ALL LOOP  2     7.31    148    42.5   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   10.607      1.000       0.500     95    92.2   103     ERRCA  
     WELL ORDERED  . . . . .   10.465      1.000       0.500     80    94.1    85     ERRCA  
     NO INTER CONTACTS . . .    8.144      1.000       0.500     51    94.4    54     ERRCA  
     SHIFTED CHAIN . . . . .   12.085      1.000       0.500     67    91.8    73     ERRCA  
     ALTERNATIVE PARENT  . .   14.185      1.000       0.500      2   100.0     2     ERRCA  
     SECONDARY STRUCTURE . .    9.280      1.000       0.500     62    95.4    65     ERRCA  
     LARGE SHIFTS/INSERTIONS   13.314      1.000       0.500     44    93.6    47     ERRCA  
     SURFACE . . . . . . . .   11.766      1.000       0.500     72    92.3    78     ERRCA  
     BURIED  . . . . . . . .    6.979      1.000       0.500     23    92.0    25     ERRCA  
     CORE  . . . . . . . . .    8.272      1.000       0.500     51    91.1    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   10.505      1.000       0.500    380    74.4   511     ERRMC  
     WELL ORDERED  . . . . .   10.255      1.000       0.500    329    78.3   420     ERRMC  
     NO INTER CONTACTS . . .    8.069      1.000       0.500    204    76.4   267     ERRMC  
     SHIFTED CHAIN . . . . .   11.936      1.000       0.500    268    73.8   363     ERRMC  
     ALTERNATIVE PARENT  . .   13.815      1.000       0.500      8    80.0    10     ERRMC  
     SECONDARY STRUCTURE . .    9.207      1.000       0.500    248    76.5   324     ERRMC  
     LARGE SHIFTS/INSERTIONS   13.146      1.000       0.500    176    75.2   234     ERRMC  
     SURFACE . . . . . . . .   11.627      1.000       0.500    288    74.4   387     ERRMC  
     BURIED  . . . . . . . .    6.994      1.000       0.500     92    74.2   124     ERRMC  
     CORE  . . . . . . . . .    8.227      1.000       0.500    204    73.6   277     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   433     ERRSC  
     WELL ORDERED  . . . . .    0.000      0.000       0.000      0     0.0   248     ERRSC  
     NO INTER CONTACTS . . .    0.000      0.000       0.000      0     0.0   210     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   371     ERRSC  
     CHANGED ANGLES  . . . .    0.000      0.000       0.000      0     0.0   281     ERRSC  
     SHIFTED CHAIN . . . . .    0.000      0.000       0.000      0     0.0   309     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     6     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   297     ERRSC  
     LARGE SHIFTS/INSERTIONS    0.000      0.000       0.000      0     0.0   213     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   344     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0    89     ERRSC  
     CORE  . . . . . . . . .    0.000      0.000       0.000      0     0.0   220     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   10.505      1.000       0.500    380    45.0   845     ERRALL 
     WELL ORDERED  . . . . .   10.255      1.000       0.500    329    55.5   593     ERRALL 
     NO INTER CONTACTS . . .    8.069      1.000       0.500    204    47.9   426     ERRALL 
     SHIFTED CHAIN . . . . .   11.936      1.000       0.500    268    44.6   601     ERRALL 
     ALTERNATIVE PARENT  . .   13.815      1.000       0.500      8    57.1    14     ERRALL 
     SECONDARY STRUCTURE . .    9.207      1.000       0.500    248    44.5   557     ERRALL 
     LARGE SHIFTS/INSERTIONS   13.146      1.000       0.500    176    43.9   401     ERRALL 
     SURFACE . . . . . . . .   11.627      1.000       0.500    288    43.9   656     ERRALL 
     BURIED  . . . . . . . .    6.994      1.000       0.500     92    48.7   189     ERRALL 
     CORE  . . . . . . . . .    8.227      1.000       0.500    204    45.9   444     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)         2         9        12        22        52      95     103   DISTCA 
CA  (P)      1.94      8.74     11.65     21.36     50.49             103   DISTCA 
CA  (RMS)    0.81      1.49      1.68      2.95      5.85                   DISTCA 
 
ALL (N)         7        30        50       105       207     380     845   DISTALL 
ALL (P)      0.83      3.55      5.92     12.43     24.50             845   DISTALL 
ALL (RMS)    0.75      1.44      1.93      3.28      5.78                   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)          56            51            44          RMSLSI 
CA  (P)       54.37         49.51         42.72          RMSLSI 
CA  (RMS)      1.04          9.74         15.44          RMSLSI 
 
 
 
END of the results output 
