 
####################################################### 
#                                                     # 
#                        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: 845 
 
 
 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 . . . . . . . . . .    64.07           68.0   194    96.5   201     ARMSMC  
     WELL ORDERED  . . . . .    62.03           68.9   161   100.0   161     ARMSMC  
     NO INTER CONTACTS . . .    63.09           74.0   100    95.2   105     ARMSMC  
     SHIFTED CHAIN . . . . .    67.01           66.4   134    95.0   141     ARMSMC  
     ALTERNATIVE PARENT  . .    11.55          100.0     4   100.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    45.65           80.2   121    95.3   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    62.33           69.5    82    92.1    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    67.17           66.7   144    95.4   151     ARMSMC  
     BURIED  . . . . . . . .    54.16           72.0    50   100.0    50     ARMSMC  
     CORE  . . . . . . . . .    65.32           67.0   112   100.0   112     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    76.66           60.9    87    95.6    91     ARMSSC1 
     WELL ORDERED  . . . . .    69.47           66.7    54   100.0    54     ARMSSC1 
     NO INTER CONTACTS . . .    87.78           52.4    42    93.3    45     ARMSSC1 
     RELIABLE SIDE CHAINS  .    76.93           61.2    80    95.2    84     ARMSSC1 
     CHANGED ANGLES  . . . .    82.50           54.8    62    93.9    66     ARMSSC1 
     SHIFTED CHAIN . . . . .    74.15           63.3    60    93.8    64     ARMSSC1 
     ALTERNATIVE PARENT  . .     4.84          100.0     2   100.0     2     ARMSSC1 
     SECONDARY STRUCTURE . .    73.71           61.1    54    94.7    57     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    65.55           71.1    38    90.5    42     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    73.21           64.6    65    94.2    69     ARMSSC1 
     BURIED  . . . . . . . .    86.06           50.0    22   100.0    22     ARMSSC1 
     CORE  . . . . . . . . .    84.27           53.1    49   100.0    49     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    72.37           52.5    61    95.3    64     ARMSSC2 
     WELL ORDERED  . . . . .    70.01           57.1    28   100.0    28     ARMSSC2 
     NO INTER CONTACTS . . .    63.82           58.1    31    93.9    33     ARMSSC2 
     RELIABLE SIDE CHAINS  .    68.65           50.0    46    93.9    49     ARMSSC2 
     CHANGED ANGLES  . . . .    82.34           40.9    44    93.6    47     ARMSSC2 
     SHIFTED CHAIN . . . . .    70.62           51.2    41    93.2    44     ARMSSC2 
     ALTERNATIVE PARENT  . .    22.12          100.0     1   100.0     1     ARMSSC2 
     SECONDARY STRUCTURE . .    63.73           60.0    40    95.2    42     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    80.99           48.0    25    89.3    28     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    77.45           47.8    46    93.9    49     ARMSSC2 
     BURIED  . . . . . . . .    53.89           66.7    15   100.0    15     ARMSSC2 
     CORE  . . . . . . . . .    65.72           55.6    36   100.0    36     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    64.06           35.7    28    90.3    31     ARMSSC3 
     WELL ORDERED  . . . . .    31.20           60.0    10   100.0    10     ARMSSC3 
     NO INTER CONTACTS . . .    63.15           38.5    13    86.7    15     ARMSSC3 
     RELIABLE SIDE CHAINS  .    67.60           37.5    24    92.3    26     ARMSSC3 
     CHANGED ANGLES  . . . .    69.52           33.3    21    87.5    24     ARMSSC3 
     SHIFTED CHAIN . . . . .    65.84           41.2    17    85.0    20     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    57.77           42.9    21    91.3    23     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    70.37           45.5    11    78.6    14     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    60.09           40.0    25    89.3    28     ARMSSC3 
     BURIED  . . . . . . . .    90.60            0.0     3   100.0     3     ARMSSC3 
     CORE  . . . . . . . . .    59.62           29.4    17   100.0    17     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    90.38           20.0    10    83.3    12     ARMSSC4 
     WELL ORDERED  . . . . .   114.58            0.0     3   100.0     3     ARMSSC4 
     NO INTER CONTACTS . . .    86.26           20.0     5    83.3     6     ARMSSC4 
     RELIABLE SIDE CHAINS  .    90.38           20.0    10    83.3    12     ARMSSC4 
     CHANGED ANGLES  . . . .    87.33           22.2     9    81.8    11     ARMSSC4 
     SHIFTED CHAIN . . . . .    88.82           25.0     4    66.7     6     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .    88.27           14.3     7    77.8     9     ARMSSC4 
     LARGE SHIFTS/INSERTIONS   120.38            0.0     1    33.3     3     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    90.85           25.0     8    80.0    10     ARMSSC4 
     BURIED  . . . . . . . .    88.47            0.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    86.41           22.2     9   100.0     9     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.99806     r(1,2) =   0.03629     r(1,3) =   0.05051 
 r(2,1) =  -0.05541     r(2,2) =  -0.14995     r(2,3) =  -0.98714 
 r(3,1) =  -0.02825     r(3,2) =  -0.98803     r(3,3) =   0.15167 
THE OFFSET VECTOR: 
 v(1) =  17.97825     v(2) =  43.31028     v(3) =  42.72656 
 
 Number of iteration 31                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.59           (Number of atoms:   10) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   14.15        103   100.0   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1374                            CRMSCA  
     WELL ORDERED  . . . . .   13.12         85   100.0    85     CRMSCA  
     NO INTER CONTACTS . . .   12.60         54   100.0    54     CRMSCA  
     SHIFTED CHAIN . . . . .   15.19         73   100.0    73     CRMSCA  
     ALTERNATIVE PARENT  . .    1.30          2   100.0     2     CRMSCA  
     SECONDARY STRUCTURE . .   13.35         65   100.0    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS   17.10         47   100.0    47     CRMSCA  
     SURFACE . . . . . . . .   15.29         78   100.0    78     CRMSCA  
     BURIED  . . . . . . . .    9.82         25   100.0    25     CRMSCA  
     CORE  . . . . . . . . .   11.09         56   100.0    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   14.25        511   100.0   511     CRMSMC  
     WELL ORDERED  . . . . .   13.08        420   100.0   420     CRMSMC  
     NO INTER CONTACTS . . .   12.69        267   100.0   267     CRMSMC  
     SHIFTED CHAIN . . . . .   15.29        363   100.0   363     CRMSMC  
     ALTERNATIVE PARENT  . .    2.02         10   100.0    10     CRMSMC  
     SECONDARY STRUCTURE . .   13.52        324   100.0   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS   17.22        234   100.0   234     CRMSMC  
     SURFACE . . . . . . . .   15.42        387   100.0   387     CRMSMC  
     BURIED  . . . . . . . .    9.70        124   100.0   124     CRMSMC  
     CORE  . . . . . . . . .   11.14        277   100.0   277     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .   15.77        433   100.0   433     CRMSSC  
     WELL ORDERED  . . . . .   15.56        248   100.0   248     CRMSSC  
     NO INTER CONTACTS . . .   15.10        210   100.0   210     CRMSSC  
     RELIABLE SIDE CHAINS  .   15.88        371   100.0   371     CRMSSC  
     CHANGED ANGLES  . . . .   16.67        281   100.0   281     CRMSSC  
     SECONDARY STRUCTURE . .   15.20        297   100.0   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS   18.71        213   100.0   213     CRMSSC  
     SURFACE . . . . . . . .   16.90        344   100.0   344     CRMSSC  
     BURIED  . . . . . . . .   10.31         89   100.0    89     CRMSSC  
     CORE  . . . . . . . . .   12.27        220   100.0   220     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   15.03        845   100.0   845     CRMSALL 
     WELL ORDERED  . . . . .   14.14        593   100.0   593     CRMSALL 
     NO INTER CONTACTS . . .   13.90        426   100.0   426     CRMSALL 
     SHIFTED CHAIN . . . . .   16.05        601   100.0   601     CRMSALL 
     ALTERNATIVE PARENT  . .    2.51         14   100.0    14     CRMSALL 
     SECONDARY STRUCTURE . .   14.44        557   100.0   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS   18.03        401   100.0   401     CRMSALL 
     SURFACE . . . . . . . .   16.20        656   100.0   656     CRMSALL 
     BURIED  . . . . . . . .    9.96        189   100.0   189     CRMSALL 
     CORE  . . . . . . . . .   11.68        444   100.0   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     2.78      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2    18.28     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     3.05     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2    18.40    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     3.76     45   100.0    45      40-TNPSIQ-45   
 ALL LOOP  2    19.08    348   100.0   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     2.05      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     6.56     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     2.41     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2     6.65    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     3.52     45   100.0    45      40-TNPSIQ-45   
 ALL LOOP  2     8.59    348   100.0   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 . . . . . . . . . .    6.276      0.299       0.229    103   100.0   103     ERRCA  
     WELL ORDERED  . . . . .    5.543      0.277       0.218     85   100.0    85     ERRCA  
     NO INTER CONTACTS . . .    6.006      0.332       0.297     54   100.0    54     ERRCA  
     SHIFTED CHAIN . . . . .    7.193      0.331       0.247     73   100.0    73     ERRCA  
     ALTERNATIVE PARENT  . .    7.816      0.772       0.799      2   100.0     2     ERRCA  
     SECONDARY STRUCTURE . .    5.516      0.270       0.217     65   100.0    65     ERRCA  
     LARGE SHIFTS/INSERTIONS    8.335      0.340       0.230     47   100.0    47     ERRCA  
     SURFACE . . . . . . . .    6.822      0.297       0.210     78   100.0    78     ERRCA  
     BURIED  . . . . . . . .    4.573      0.304       0.289     25   100.0    25     ERRCA  
     CORE  . . . . . . . . .    4.549      0.264       0.228     56   100.0    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.293      0.295       0.226    511   100.0   511     ERRMC  
     WELL ORDERED  . . . . .    5.496      0.276       0.219    420   100.0   420     ERRMC  
     NO INTER CONTACTS . . .    6.016      0.328       0.294    267   100.0   267     ERRMC  
     SHIFTED CHAIN . . . . .    7.200      0.325       0.243    363   100.0   363     ERRMC  
     ALTERNATIVE PARENT  . .    7.122      0.663       0.716     10   100.0    10     ERRMC  
     SECONDARY STRUCTURE . .    5.639      0.273       0.218    324   100.0   324     ERRMC  
     LARGE SHIFTS/INSERTIONS    8.326      0.331       0.220    234   100.0   234     ERRMC  
     SURFACE . . . . . . . .    6.866      0.293       0.205    387   100.0   387     ERRMC  
     BURIED  . . . . . . . .    4.503      0.300       0.290    124   100.0   124     ERRMC  
     CORE  . . . . . . . . .    4.575      0.265       0.231    277   100.0   277     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.053      0.289       0.200    433   100.0   433     ERRSC  
     WELL ORDERED  . . . . .    6.828      0.283       0.197    248   100.0   248     ERRSC  
     NO INTER CONTACTS . . .    6.981      0.309       0.249    210   100.0   210     ERRSC  
     RELIABLE SIDE CHAINS  .    7.109      0.290       0.199    371   100.0   371     ERRSC  
     CHANGED ANGLES  . . . .    7.587      0.294       0.195    281   100.0   281     ERRSC  
     SHIFTED CHAIN . . . . .    7.857      0.310       0.212    309   100.0   309     ERRSC  
     ALTERNATIVE PARENT  . .    5.928      0.497       0.600      6   100.0     6     ERRSC  
     SECONDARY STRUCTURE . .    6.515      0.272       0.192    297   100.0   297     ERRSC  
     LARGE SHIFTS/INSERTIONS    9.220      0.329       0.200    213   100.0   213     ERRSC  
     SURFACE . . . . . . . .    7.657      0.291       0.183    344   100.0   344     ERRSC  
     BURIED  . . . . . . . .    4.718      0.283       0.269     89   100.0    89     ERRSC  
     CORE  . . . . . . . . .    4.955      0.251       0.201    220   100.0   220     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.691      0.294       0.216    845   100.0   845     ERRALL 
     WELL ORDERED  . . . . .    6.057      0.281       0.213    593   100.0   593     ERRALL 
     NO INTER CONTACTS . . .    6.513      0.322       0.277    426   100.0   426     ERRALL 
     SHIFTED CHAIN . . . . .    7.552      0.319       0.230    601   100.0   601     ERRALL 
     ALTERNATIVE PARENT  . .    6.693      0.604       0.676     14   100.0    14     ERRALL 
     SECONDARY STRUCTURE . .    6.113      0.274       0.207    557   100.0   557     ERRALL 
     LARGE SHIFTS/INSERTIONS    8.807      0.331       0.211    401   100.0   401     ERRALL 
     SURFACE . . . . . . . .    7.283      0.293       0.195    656   100.0   656     ERRALL 
     BURIED  . . . . . . . .    4.636      0.297       0.287    189   100.0   189     ERRALL 
     CORE  . . . . . . . . .    4.780      0.261       0.220    444   100.0   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         8        11        21        37     103     103   DISTCA 
CA  (P)      0.97      7.77     10.68     20.39     35.92             103   DISTCA 
CA  (RMS)    0.65      1.41      1.76      3.10      5.40                   DISTCA 
 
ALL (N)         7        31        71       151       296     845     845   DISTALL 
ALL (P)      0.83      3.67      8.40     17.87     35.03             845   DISTALL 
ALL (RMS)    0.74      1.50      2.12      3.23      5.79                   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         11.09         17.10          RMSLSI 
 
 
 
END of the results output 
