 
####################################################### 
#                                                     # 
#                        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 914 atoms, 845 common with TARGET 
           Number of atoms possible to evaluate: 202 
 
 
 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 . . . . . . . . . .    13.17           90.9    22    10.9   201     ARMSMC  
     WELL ORDERED  . . . . .    11.38           94.7    19    11.8   161     ARMSMC  
     NO INTER CONTACTS . . .    18.08           75.0     4     3.8   105     ARMSMC  
     SHIFTED CHAIN . . . . .    13.17           90.9    22    15.6   141     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    11.38           94.7    19    15.0   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    13.17           90.9    22    24.7    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    13.17           90.9    22    14.6   151     ARMSMC  
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    50     ARMSMC  
     CORE  . . . . . . . . .     0.00            0.0     0     0.0   112     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    64.87           53.8    13    14.3    91     ARMSSC1 
     WELL ORDERED  . . . . .    60.80           57.1     7    13.0    54     ARMSSC1 
     NO INTER CONTACTS . . .    10.76          100.0     2     4.4    45     ARMSSC1 
     RELIABLE SIDE CHAINS  .    59.46           58.3    12    14.3    84     ARMSSC1 
     CHANGED ANGLES  . . . .    64.87           53.8    13    19.7    66     ARMSSC1 
     SHIFTED CHAIN . . . . .    64.87           53.8    13    20.3    64     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     2     ARMSSC1 
     SECONDARY STRUCTURE . .    63.06           54.5    11    19.3    57     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    64.87           53.8    13    31.0    42     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    64.87           53.8    13    18.8    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 . . . . . . . . . .    66.14           55.6     9    14.1    64     ARMSSC2 
     WELL ORDERED  . . . . .    76.92           50.0     4    14.3    28     ARMSSC2 
     NO INTER CONTACTS . . .    35.46           50.0     2     6.1    33     ARMSSC2 
     RELIABLE SIDE CHAINS  .    54.51           57.1     7    14.3    49     ARMSSC2 
     CHANGED ANGLES  . . . .    66.14           55.6     9    19.1    47     ARMSSC2 
     SHIFTED CHAIN . . . . .    66.14           55.6     9    20.5    44     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     1     ARMSSC2 
     SECONDARY STRUCTURE . .    72.56           57.1     7    16.7    42     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    66.14           55.6     9    32.1    28     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    66.14           55.6     9    18.4    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 . . . . . . . . . .    12.86          100.0     2     6.5    31     ARMSSC3 
     WELL ORDERED  . . . . .    12.86          100.0     2    20.0    10     ARMSSC3 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    15     ARMSSC3 
     RELIABLE SIDE CHAINS  .    12.86          100.0     2     7.7    26     ARMSSC3 
     CHANGED ANGLES  . . . .     5.24          100.0     1     4.2    24     ARMSSC3 
     SHIFTED CHAIN . . . . .    12.86          100.0     2    10.0    20     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    12.86          100.0     2     8.7    23     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    12.86          100.0     2    14.3    14     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    12.86          100.0     2     7.1    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) =   0.18129     r(1,2) =   0.86747     r(1,3) =  -0.46328 
 r(2,1) =   0.50172     r(2,2) =  -0.48675     r(2,3) =  -0.71509 
 r(3,1) =  -0.84582     r(3,2) =  -0.10280     r(3,3) =  -0.52347 
THE OFFSET VECTOR: 
 v(1) =  34.40740     v(2) =  34.83646     v(3) =  40.93255 
 
 Number of iteration 22                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   3.88           (Number of atoms:   23) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    3.88         23    22.3   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1685                            CRMSCA  
     WELL ORDERED  . . . . .    3.84         21    24.7    85     CRMSCA  
     NO INTER CONTACTS . . .    4.27          5     9.3    54     CRMSCA  
     SHIFTED CHAIN . . . . .    3.88         23    31.5    73     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     2     CRMSCA  
     SECONDARY STRUCTURE . .    3.84         21    32.3    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS    3.88         23    48.9    47     CRMSCA  
     SURFACE . . . . . . . .    3.88         23    29.5    78     CRMSCA  
     BURIED  . . . . . . . .    0.00          0     0.0    25     CRMSCA  
     CORE  . . . . . . . . .    0.00          0     0.0    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    4.01        115    22.5   511     CRMSMC  
     WELL ORDERED  . . . . .    3.95        103    24.5   420     CRMSMC  
     NO INTER CONTACTS . . .    4.54         25     9.4   267     CRMSMC  
     SHIFTED CHAIN . . . . .    4.01        115    31.7   363     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0    10     CRMSMC  
     SECONDARY STRUCTURE . .    3.97        105    32.4   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS    4.01        115    49.1   234     CRMSMC  
     SURFACE . . . . . . . .    4.01        115    29.7   387     CRMSMC  
     BURIED  . . . . . . . .    0.00          0     0.0   124     CRMSMC  
     CORE  . . . . . . . . .    0.00          0     0.0   277     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    5.87        110    25.4   433     CRMSSC  
     WELL ORDERED  . . . . .    5.64         64    25.8   248     CRMSSC  
     NO INTER CONTACTS . . .    6.18         22    10.5   210     CRMSSC  
     RELIABLE SIDE CHAINS  .    5.83        100    27.0   371     CRMSSC  
     CHANGED ANGLES  . . . .    6.22         87    31.0   281     CRMSSC  
     SECONDARY STRUCTURE . .    5.89        102    34.3   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS    5.87        110    51.6   213     CRMSSC  
     SURFACE . . . . . . . .    5.87        110    32.0   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 . . . . . . . . . .    5.08        202    23.9   845     CRMSALL 
     WELL ORDERED  . . . . .    4.72        148    25.0   593     CRMSALL 
     NO INTER CONTACTS . . .    5.45         42     9.9   426     CRMSALL 
     SHIFTED CHAIN . . . . .    5.08        202    33.6   601     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0    14     CRMSALL 
     SECONDARY STRUCTURE . .    5.09        186    33.4   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS    5.08        202    50.4   401     CRMSALL 
     SURFACE . . . . . . . .    5.08        202    30.8   656     CRMSALL 
     BURIED  . . . . . . . .    0.00          0     0.0   189     CRMSALL 
     CORE  . . . . . . . . .    0.00          0     0.0   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     0.00      0     0.0     6      40-TNPSIQ-45   
 CA  LOOP  2     3.88     23    57.5    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     0.00      0     0.0    30      40-TNPSIQ-45   
 MC  LOOP  2     4.01    115    57.8   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     0.00      0     0.0    45      40-TNPSIQ-45   
 ALL LOOP  2     5.08    202    58.0   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 CA  LOOP  2     3.88     23    57.5    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 MC  LOOP  2     4.01    115    57.8   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 ALL LOOP  2     5.08    202    58.0   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 . . . . . . . . . .    3.586      1.000       0.500     23    22.3   103     ERRCA  
     WELL ORDERED  . . . . .    3.543      1.000       0.500     21    24.7    85     ERRCA  
     NO INTER CONTACTS . . .    4.044      1.000       0.500      5     9.3    54     ERRCA  
     SHIFTED CHAIN . . . . .    3.586      1.000       0.500     23    31.5    73     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     2     ERRCA  
     SECONDARY STRUCTURE . .    3.543      1.000       0.500     21    32.3    65     ERRCA  
     LARGE SHIFTS/INSERTIONS    3.586      1.000       0.500     23    48.9    47     ERRCA  
     SURFACE . . . . . . . .    3.586      1.000       0.500     23    29.5    78     ERRCA  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0    25     ERRCA  
     CORE  . . . . . . . . .    0.000      0.000       0.000      0     0.0    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    3.662      1.000       0.500    115    22.5   511     ERRMC  
     WELL ORDERED  . . . . .    3.615      1.000       0.500    103    24.5   420     ERRMC  
     NO INTER CONTACTS . . .    4.195      1.000       0.500     25     9.4   267     ERRMC  
     SHIFTED CHAIN . . . . .    3.662      1.000       0.500    115    31.7   363     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0    10     ERRMC  
     SECONDARY STRUCTURE . .    3.621      1.000       0.500    105    32.4   324     ERRMC  
     LARGE SHIFTS/INSERTIONS    3.662      1.000       0.500    115    49.1   234     ERRMC  
     SURFACE . . . . . . . .    3.662      1.000       0.500    115    29.7   387     ERRMC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   124     ERRMC  
     CORE  . . . . . . . . .    0.000      0.000       0.000      0     0.0   277     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    5.532      1.000       0.500    110    25.4   433     ERRSC  
     WELL ORDERED  . . . . .    5.335      1.000       0.500     64    25.8   248     ERRSC  
     NO INTER CONTACTS . . .    5.870      1.000       0.500     22    10.5   210     ERRSC  
     RELIABLE SIDE CHAINS  .    5.499      1.000       0.500    100    27.0   371     ERRSC  
     CHANGED ANGLES  . . . .    5.952      1.000       0.500     87    31.0   281     ERRSC  
     SHIFTED CHAIN . . . . .    5.532      1.000       0.500    110    35.6   309     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     6     ERRSC  
     SECONDARY STRUCTURE . .    5.555      1.000       0.500    102    34.3   297     ERRSC  
     LARGE SHIFTS/INSERTIONS    5.532      1.000       0.500    110    51.6   213     ERRSC  
     SURFACE . . . . . . . .    5.532      1.000       0.500    110    32.0   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 . . . . . . . . . .    4.648      1.000       0.500    202    23.9   845     ERRALL 
     WELL ORDERED  . . . . .    4.306      1.000       0.500    148    25.0   593     ERRALL 
     NO INTER CONTACTS . . .    5.042      1.000       0.500     42     9.9   426     ERRALL 
     SHIFTED CHAIN . . . . .    4.648      1.000       0.500    202    33.6   601     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0    14     ERRALL 
     SECONDARY STRUCTURE . .    4.644      1.000       0.500    186    33.4   557     ERRALL 
     LARGE SHIFTS/INSERTIONS    4.648      1.000       0.500    202    50.4   401     ERRALL 
     SURFACE . . . . . . . .    4.648      1.000       0.500    202    30.8   656     ERRALL 
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   189     ERRALL 
     CORE  . . . . . . . . .    0.000      0.000       0.000      0     0.0   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)         1         5         8        18        23      23     103   DISTCA 
CA  (P)      0.97      4.85      7.77     17.48     22.33             103   DISTCA 
CA  (RMS)    1.00      1.58      1.96      3.22      3.88                   DISTCA 
 
ALL (N)         5        23        47       114       202     202     845   DISTALL 
ALL (P)      0.59      2.72      5.56     13.49     23.91             845   DISTALL 
ALL (RMS)    0.67      1.52      2.08      3.36      5.08                   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             0            23          RMSLSI 
CA  (P)       54.37          0.00         22.33          RMSLSI 
CA  (RMS)      1.04          0.00          3.88          RMSLSI 
 
 
 
END of the results output 
