 
####################################################### 
#                                                     # 
#                        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 444 atoms, 412 common with TARGET 
           Number of atoms possible to evaluate: 412 
 
 
 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 . . . . . . . . . .   105.69           19.6   194    96.5   201     ARMSMC  
     WELL ORDERED  . . . . .   107.66           18.6   161   100.0   161     ARMSMC  
     NO INTER CONTACTS . . .   108.78           20.0   100    95.2   105     ARMSMC  
     SHIFTED CHAIN . . . . .   102.61           17.9   134    95.0   141     ARMSMC  
     ALTERNATIVE PARENT  . .    92.42           25.0     4   100.0     4     ARMSMC  
     SECONDARY STRUCTURE . .   108.82           19.0   121    95.3   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS   102.69           19.5    82    92.1    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .   102.68           20.1   144    95.4   151     ARMSMC  
     BURIED  . . . . . . . .   113.90           18.0    50   100.0    50     ARMSMC  
     CORE  . . . . . . . . .   107.83           19.6   112   100.0   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) =  -0.04636     r(1,2) =   0.61814     r(1,3) =  -0.78470 
 r(2,1) =  -0.55343     r(2,2) =  -0.66986     r(2,3) =  -0.49498 
 r(3,1) =  -0.83161     r(3,2) =   0.41133     r(3,3) =   0.37315 
THE OFFSET VECTOR: 
 v(1) =  16.42797     v(2) =  37.81662     v(3) =  37.70353 
 
 Number of iteration 35                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.51           (Number of atoms:   12) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   14.60        103   100.0   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1418                            CRMSCA  
     WELL ORDERED  . . . . .   14.00         85   100.0    85     CRMSCA  
     NO INTER CONTACTS . . .   17.66         54   100.0    54     CRMSCA  
     SHIFTED CHAIN . . . . .   15.00         73   100.0    73     CRMSCA  
     ALTERNATIVE PARENT  . .   29.73          2   100.0     2     CRMSCA  
     SECONDARY STRUCTURE . .   13.68         65   100.0    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS   13.04         47   100.0    47     CRMSCA  
     SURFACE . . . . . . . .   13.93         78   100.0    78     CRMSCA  
     BURIED  . . . . . . . .   16.52         25   100.0    25     CRMSCA  
     CORE  . . . . . . . . .   15.79         56   100.0    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   14.43        412    80.6   511     CRMSMC  
     WELL ORDERED  . . . . .   14.01        345    82.1   420     CRMSMC  
     NO INTER CONTACTS . . .   17.37        216    80.9   267     CRMSMC  
     SHIFTED CHAIN . . . . .   14.83        292    80.4   363     CRMSMC  
     ALTERNATIVE PARENT  . .   29.75          8    80.0    10     CRMSMC  
     SECONDARY STRUCTURE . .   13.52        260    80.2   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS   12.87        188    80.3   234     CRMSMC  
     SURFACE . . . . . . . .   13.74        312    80.6   387     CRMSMC  
     BURIED  . . . . . . . .   16.40        100    80.6   124     CRMSMC  
     CORE  . . . . . . . . .   15.62        224    80.9   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 . . . . . . . . . .   14.43        412    48.8   845     CRMSALL 
     WELL ORDERED  . . . . .   14.01        345    58.2   593     CRMSALL 
     NO INTER CONTACTS . . .   17.37        216    50.7   426     CRMSALL 
     SHIFTED CHAIN . . . . .   14.83        292    48.6   601     CRMSALL 
     ALTERNATIVE PARENT  . .   29.75          8    57.1    14     CRMSALL 
     SECONDARY STRUCTURE . .   13.52        260    46.7   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS   12.87        188    46.9   401     CRMSALL 
     SURFACE . . . . . . . .   13.74        312    47.6   656     CRMSALL 
     BURIED  . . . . . . . .   16.40        100    52.9   189     CRMSALL 
     CORE  . . . . . . . . .   15.62        224    50.5   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    29.16      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     7.70     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    28.52     24    80.0    30      40-TNPSIQ-45   
 MC  LOOP  2     7.83    160    80.4   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    28.52     24    53.3    45      40-TNPSIQ-45   
 ALL LOOP  2     7.83    160    46.0   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.11      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     7.23     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     3.28     24    80.0    30      40-TNPSIQ-45   
 MC  LOOP  2     7.30    160    80.4   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     3.28     24    53.3    45      40-TNPSIQ-45   
 ALL LOOP  2     7.30    160    46.0   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 . . . . . . . . . .    8.158      0.414       0.255    103   100.0   103     ERRCA  
     WELL ORDERED  . . . . .    7.728      0.406       0.256     85   100.0    85     ERRCA  
     NO INTER CONTACTS . . .   11.106      0.473       0.245     54   100.0    54     ERRCA  
     SHIFTED CHAIN . . . . .    8.535      0.437       0.285     73   100.0    73     ERRCA  
     ALTERNATIVE PARENT  . .   24.554      0.708       0.354      2   100.0     2     ERRCA  
     SECONDARY STRUCTURE . .    7.709      0.414       0.260     65   100.0    65     ERRCA  
     LARGE SHIFTS/INSERTIONS    6.843      0.412       0.310     47   100.0    47     ERRCA  
     SURFACE . . . . . . . .    7.402      0.395       0.261     78   100.0    78     ERRCA  
     BURIED  . . . . . . . .   10.518      0.472       0.236     25   100.0    25     ERRCA  
     CORE  . . . . . . . . .    9.262      0.415       0.209     56   100.0    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    8.006      0.405       0.249    412    80.6   511     ERRMC  
     WELL ORDERED  . . . . .    7.702      0.397       0.248    345    82.1   420     ERRMC  
     NO INTER CONTACTS . . .   10.916      0.471       0.246    216    80.9   267     ERRMC  
     SHIFTED CHAIN . . . . .    8.400      0.429       0.278    292    80.4   363     ERRMC  
     ALTERNATIVE PARENT  . .   24.609      0.709       0.354      8    80.0    10     ERRMC  
     SECONDARY STRUCTURE . .    7.548      0.403       0.250    260    80.2   324     ERRMC  
     LARGE SHIFTS/INSERTIONS    6.737      0.403       0.301    188    80.3   234     ERRMC  
     SURFACE . . . . . . . .    7.241      0.385       0.254    312    80.6   387     ERRMC  
     BURIED  . . . . . . . .   10.393      0.468       0.234    100    80.6   124     ERRMC  
     CORE  . . . . . . . . .    9.071      0.407       0.206    224    80.9   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 . . . . . . . . . .    8.006      0.405       0.249    412    48.8   845     ERRALL 
     WELL ORDERED  . . . . .    7.702      0.397       0.248    345    58.2   593     ERRALL 
     NO INTER CONTACTS . . .   10.916      0.471       0.246    216    50.7   426     ERRALL 
     SHIFTED CHAIN . . . . .    8.400      0.429       0.278    292    48.6   601     ERRALL 
     ALTERNATIVE PARENT  . .   24.609      0.709       0.354      8    57.1    14     ERRALL 
     SECONDARY STRUCTURE . .    7.548      0.403       0.250    260    46.7   557     ERRALL 
     LARGE SHIFTS/INSERTIONS    6.737      0.403       0.301    188    46.9   401     ERRALL 
     SURFACE . . . . . . . .    7.241      0.385       0.254    312    47.6   656     ERRALL 
     BURIED  . . . . . . . .   10.393      0.468       0.234    100    52.9   189     ERRALL 
     CORE  . . . . . . . . .    9.071      0.407       0.206    224    50.5   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        11        14        24        50     103     103   DISTCA 
CA  (P)      1.94     10.68     13.59     23.30     48.54             103   DISTCA 
CA  (RMS)    0.94      1.46      1.78      2.77      5.99                   DISTCA 
 
ALL (N)         8        34        52        99       202     412     845   DISTALL 
ALL (P)      0.95      4.02      6.15     11.72     23.91             845   DISTALL 
ALL (RMS)    0.87      1.38      1.84      2.98      6.01                   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            56            47          RMSLSI 
CA  (P)       54.37         54.37         45.63          RMSLSI 
CA  (RMS)      1.04         15.79         13.04          RMSLSI 
 
 
 
END of the results output 
