 
####################################################### 
#                                                     # 
#                        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 550 atoms, 511 common with TARGET 
           Number of atoms possible to evaluate: 511 
 
 
 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 . . . . . . . . . .    62.39           66.5   194    96.5   201     ARMSMC  
     WELL ORDERED  . . . . .    57.98           70.8   161   100.0   161     ARMSMC  
     NO INTER CONTACTS . . .    53.86           69.0   100    95.2   105     ARMSMC  
     SHIFTED CHAIN . . . . .    68.63           59.7   134    95.0   141     ARMSMC  
     ALTERNATIVE PARENT  . .    67.43           25.0     4   100.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    39.30           86.0   121    95.3   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    66.03           61.0    82    92.1    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    63.80           65.3   144    95.4   151     ARMSMC  
     BURIED  . . . . . . . .    58.12           70.0    50   100.0    50     ARMSMC  
     CORE  . . . . . . . . .    59.58           70.5   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) =  -0.96467     r(1,2) =  -0.25498     r(1,3) =  -0.06631 
 r(2,1) =  -0.19018     r(2,2) =   0.84810     r(2,3) =  -0.49454 
 r(3,1) =   0.18233     r(3,2) =  -0.46445     r(3,3) =  -0.86662 
THE OFFSET VECTOR: 
 v(1) =  16.48870     v(2) =  45.72485     v(3) =  63.56136 
 
 Number of iteration 33                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.80           (Number of atoms:   10) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   26.98        103   100.0   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.2619                            CRMSCA  
     WELL ORDERED  . . . . .   23.90         85   100.0    85     CRMSCA  
     NO INTER CONTACTS . . .   23.14         54   100.0    54     CRMSCA  
     SHIFTED CHAIN . . . . .   31.69         73   100.0    73     CRMSCA  
     ALTERNATIVE PARENT  . .    4.55          2   100.0     2     CRMSCA  
     SECONDARY STRUCTURE . .   27.97         65   100.0    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS   38.16         47   100.0    47     CRMSCA  
     SURFACE . . . . . . . .   30.24         78   100.0    78     CRMSCA  
     BURIED  . . . . . . . .   12.01         25   100.0    25     CRMSCA  
     CORE  . . . . . . . . .   10.80         56   100.0    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   27.23        511   100.0   511     CRMSMC  
     WELL ORDERED  . . . . .   23.89        420   100.0   420     CRMSMC  
     NO INTER CONTACTS . . .   23.46        267   100.0   267     CRMSMC  
     SHIFTED CHAIN . . . . .   31.96        363   100.0   363     CRMSMC  
     ALTERNATIVE PARENT  . .    4.80         10   100.0    10     CRMSMC  
     SECONDARY STRUCTURE . .   28.19        324   100.0   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS   38.45        234   100.0   234     CRMSMC  
     SURFACE . . . . . . . .   30.54        387   100.0   387     CRMSMC  
     BURIED  . . . . . . . .   12.00        124   100.0   124     CRMSMC  
     CORE  . . . . . . . . .   10.89        277   100.0   277     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .   27.25         99    22.9   433     CRMSSC  
     WELL ORDERED  . . . . .   23.87         75    30.2   248     CRMSSC  
     NO INTER CONTACTS . . .   23.21         51    24.3   210     CRMSSC  
     RELIABLE SIDE CHAINS  .   27.25         99    26.7   371     CRMSSC  
     CHANGED ANGLES  . . . .    0.00          0     0.0   281     CRMSSC  
     SECONDARY STRUCTURE . .   27.98         64    21.5   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS   38.15         46    21.6   213     CRMSSC  
     SURFACE . . . . . . . .   30.58         75    21.8   344     CRMSSC  
     BURIED  . . . . . . . .   11.88         24    27.0    89     CRMSSC  
     CORE  . . . . . . . . .   11.13         53    24.1   220     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   27.23        511    60.5   845     CRMSALL 
     WELL ORDERED  . . . . .   23.89        420    70.8   593     CRMSALL 
     NO INTER CONTACTS . . .   23.46        267    62.7   426     CRMSALL 
     SHIFTED CHAIN . . . . .   31.96        363    60.4   601     CRMSALL 
     ALTERNATIVE PARENT  . .    4.80         10    71.4    14     CRMSALL 
     SECONDARY STRUCTURE . .   28.19        324    58.2   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS   38.45        234    58.4   401     CRMSALL 
     SURFACE . . . . . . . .   30.54        387    59.0   656     CRMSALL 
     BURIED  . . . . . . . .   12.00        124    65.6   189     CRMSALL 
     CORE  . . . . . . . . .   10.89        277    62.4   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     6.51      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2    41.13     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     6.84     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2    41.46    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     6.84     30    66.7    45      40-TNPSIQ-45   
 ALL LOOP  2    41.46    199    57.2   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     2.35      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     7.39     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     2.62     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2     7.43    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     2.62     30    66.7    45      40-TNPSIQ-45   
 ALL LOOP  2     7.43    199    57.2   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 . . . . . . . . . .   16.189      0.483       0.272    103   100.0   103     ERRCA  
     WELL ORDERED  . . . . .   14.288      0.476       0.268     85   100.0    85     ERRCA  
     NO INTER CONTACTS . . .   11.825      0.413       0.244     54   100.0    54     ERRCA  
     SHIFTED CHAIN . . . . .   21.531      0.559       0.303     73   100.0    73     ERRCA  
     ALTERNATIVE PARENT  . .    1.453      0.138       0.097      2   100.0     2     ERRCA  
     SECONDARY STRUCTURE . .   17.079      0.490       0.265     65   100.0    65     ERRCA  
     LARGE SHIFTS/INSERTIONS   29.360      0.656       0.337     47   100.0    47     ERRCA  
     SURFACE . . . . . . . .   19.413      0.517       0.284     78   100.0    78     ERRCA  
     BURIED  . . . . . . . .    6.131      0.380       0.234     25   100.0    25     ERRCA  
     CORE  . . . . . . . . .    5.135      0.339       0.217     56   100.0    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   16.384      0.488       0.277    511   100.0   511     ERRMC  
     WELL ORDERED  . . . . .   14.170      0.473       0.269    420   100.0   420     ERRMC  
     NO INTER CONTACTS . . .   12.016      0.419       0.249    267   100.0   267     ERRMC  
     SHIFTED CHAIN . . . . .   21.720      0.558       0.303    363   100.0   363     ERRMC  
     ALTERNATIVE PARENT  . .    1.708      0.166       0.144     10   100.0    10     ERRMC  
     SECONDARY STRUCTURE . .   17.226      0.494       0.266    324   100.0   324     ERRMC  
     LARGE SHIFTS/INSERTIONS   29.590      0.656       0.338    234   100.0   234     ERRMC  
     SURFACE . . . . . . . .   19.703      0.527       0.295    387   100.0   387     ERRMC  
     BURIED  . . . . . . . .    6.024      0.368       0.221    124   100.0   124     ERRMC  
     CORE  . . . . . . . . .    5.228      0.347       0.225    277   100.0   277     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   16.417      0.476       0.258     99    22.9   433     ERRSC  
     WELL ORDERED  . . . . .   14.313      0.460       0.250     75    30.2   248     ERRSC  
     NO INTER CONTACTS . . .   11.664      0.396       0.222     51    24.3   210     ERRSC  
     RELIABLE SIDE CHAINS  .   16.417      0.476       0.258     99    26.7   371     ERRSC  
     CHANGED ANGLES  . . . .    0.000      0.000       0.000      0     0.0   281     ERRSC  
     SHIFTED CHAIN . . . . .   21.453      0.544       0.289     71    23.0   309     ERRSC  
     ALTERNATIVE PARENT  . .    1.171      0.089       0.046      2    33.3     6     ERRSC  
     SECONDARY STRUCTURE . .   17.140      0.486       0.252     64    21.5   297     ERRSC  
     LARGE SHIFTS/INSERTIONS   29.340      0.653       0.334     46    21.6   213     ERRSC  
     SURFACE . . . . . . . .   19.800      0.516       0.274     75    21.8   344     ERRSC  
     BURIED  . . . . . . . .    5.844      0.354       0.206     24    27.0    89     ERRSC  
     CORE  . . . . . . . . .    5.200      0.324       0.191     53    24.1   220     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   16.384      0.488       0.277    511    60.5   845     ERRALL 
     WELL ORDERED  . . . . .   14.170      0.473       0.269    420    70.8   593     ERRALL 
     NO INTER CONTACTS . . .   12.016      0.419       0.249    267    62.7   426     ERRALL 
     SHIFTED CHAIN . . . . .   21.720      0.558       0.303    363    60.4   601     ERRALL 
     ALTERNATIVE PARENT  . .    1.708      0.166       0.144     10    71.4    14     ERRALL 
     SECONDARY STRUCTURE . .   17.226      0.494       0.266    324    58.2   557     ERRALL 
     LARGE SHIFTS/INSERTIONS   29.590      0.656       0.338    234    58.4   401     ERRALL 
     SURFACE . . . . . . . .   19.703      0.527       0.295    387    59.0   656     ERRALL 
     BURIED  . . . . . . . .    6.024      0.368       0.221    124    65.6   189     ERRALL 
     CORE  . . . . . . . . .    5.228      0.347       0.225    277    62.4   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)         0         7        10        25        42     103     103   DISTCA 
CA  (P)      0.00      6.80      9.71     24.27     40.78             103   DISTCA 
CA  (RMS)    0.00      1.62      1.80      3.39      5.34                   DISTCA 
 
ALL (N)         2        32        54       122       205     511     845   DISTALL 
ALL (P)      0.24      3.79      6.39     14.44     24.26             845   DISTALL 
ALL (RMS)    0.72      1.62      1.97      3.28      5.27                   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         10.80         38.16          RMSLSI 
 
 
 
END of the results output 
