 
####################################################### 
#                                                     # 
#                        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 . . . . . . . . . .    52.41           76.8   194    96.5   201     ARMSMC  
     WELL ORDERED  . . . . .    48.53           79.5   161   100.0   161     ARMSMC  
     NO INTER CONTACTS . . .    53.84           82.0   100    95.2   105     ARMSMC  
     SHIFTED CHAIN . . . . .    56.45           72.4   134    95.0   141     ARMSMC  
     ALTERNATIVE PARENT  . .    80.02           50.0     4   100.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    27.71           90.9   121    95.3   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    47.47           75.6    82    92.1    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    54.79           74.3   144    95.4   151     ARMSMC  
     BURIED  . . . . . . . .    44.84           84.0    50   100.0    50     ARMSMC  
     CORE  . . . . . . . . .    55.75           77.7   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) =  -0.29392     r(1,2) =  -0.75718     r(1,3) =   0.58334 
 r(2,1) =   0.80409     r(2,2) =   0.13409     r(2,3) =   0.57920 
 r(3,1) =  -0.51678     r(3,2) =   0.63929     r(3,3) =   0.56943 
THE OFFSET VECTOR: 
 v(1) =  23.38568     v(2) =  52.41138     v(3) =  34.04215 
 
 Number of iteration 24                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.94           (Number of atoms:   10) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   17.08        103   100.0   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1658                            CRMSCA  
     WELL ORDERED  . . . . .   17.39         85   100.0    85     CRMSCA  
     NO INTER CONTACTS . . .   15.70         54   100.0    54     CRMSCA  
     SHIFTED CHAIN . . . . .   15.55         73   100.0    73     CRMSCA  
     ALTERNATIVE PARENT  . .   13.86          2   100.0     2     CRMSCA  
     SECONDARY STRUCTURE . .   16.50         65   100.0    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS   15.82         47   100.0    47     CRMSCA  
     SURFACE . . . . . . . .   17.31         78   100.0    78     CRMSCA  
     BURIED  . . . . . . . .   16.33         25   100.0    25     CRMSCA  
     CORE  . . . . . . . . .   18.06         56   100.0    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   17.03        511   100.0   511     CRMSMC  
     WELL ORDERED  . . . . .   17.15        420   100.0   420     CRMSMC  
     NO INTER CONTACTS . . .   15.72        267   100.0   267     CRMSMC  
     SHIFTED CHAIN . . . . .   15.56        363   100.0   363     CRMSMC  
     ALTERNATIVE PARENT  . .   14.08         10   100.0    10     CRMSMC  
     SECONDARY STRUCTURE . .   16.45        324   100.0   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS   15.83        234   100.0   234     CRMSMC  
     SURFACE . . . . . . . .   17.25        387   100.0   387     CRMSMC  
     BURIED  . . . . . . . .   16.32        124   100.0   124     CRMSMC  
     CORE  . . . . . . . . .   17.98        277   100.0   277     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .   17.29         99    22.9   433     CRMSSC  
     WELL ORDERED  . . . . .   17.51         75    30.2   248     CRMSSC  
     NO INTER CONTACTS . . .   15.95         51    24.3   210     CRMSSC  
     RELIABLE SIDE CHAINS  .   17.29         99    26.7   371     CRMSSC  
     CHANGED ANGLES  . . . .    0.00          0     0.0   281     CRMSSC  
     SECONDARY STRUCTURE . .   16.87         64    21.5   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS   16.62         46    21.6   213     CRMSSC  
     SURFACE . . . . . . . .   17.83         75    21.8   344     CRMSSC  
     BURIED  . . . . . . . .   15.51         24    27.0    89     CRMSSC  
     CORE  . . . . . . . . .   17.85         53    24.1   220     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   17.03        511    60.5   845     CRMSALL 
     WELL ORDERED  . . . . .   17.15        420    70.8   593     CRMSALL 
     NO INTER CONTACTS . . .   15.72        267    62.7   426     CRMSALL 
     SHIFTED CHAIN . . . . .   15.56        363    60.4   601     CRMSALL 
     ALTERNATIVE PARENT  . .   14.08         10    71.4    14     CRMSALL 
     SECONDARY STRUCTURE . .   16.45        324    58.2   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS   15.83        234    58.4   401     CRMSALL 
     SURFACE . . . . . . . .   17.25        387    59.0   656     CRMSALL 
     BURIED  . . . . . . . .   16.32        124    65.6   189     CRMSALL 
     CORE  . . . . . . . . .   17.98        277    62.4   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    17.28      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2    15.25     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    17.37     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2    15.23    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    17.37     30    66.7    45      40-TNPSIQ-45   
 ALL LOOP  2    15.23    199    57.2   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     0.85      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     6.07     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     1.26     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2     6.10    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     1.26     30    66.7    45      40-TNPSIQ-45   
 ALL LOOP  2     6.10    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 . . . . . . . . . .   10.404      0.460       0.267    103   100.0   103     ERRCA  
     WELL ORDERED  . . . . .   10.995      0.490       0.288     85   100.0    85     ERRCA  
     NO INTER CONTACTS . . .    9.490      0.456       0.278     54   100.0    54     ERRCA  
     SHIFTED CHAIN . . . . .    8.702      0.398       0.231     73   100.0    73     ERRCA  
     ALTERNATIVE PARENT  . .    7.748      0.388       0.194      2   100.0     2     ERRCA  
     SECONDARY STRUCTURE . .    9.930      0.458       0.274     65   100.0    65     ERRCA  
     LARGE SHIFTS/INSERTIONS    8.632      0.378       0.204     47   100.0    47     ERRCA  
     SURFACE . . . . . . . .   10.272      0.434       0.239     78   100.0    78     ERRCA  
     BURIED  . . . . . . . .   10.813      0.540       0.356     25   100.0    25     ERRCA  
     CORE  . . . . . . . . .   11.890      0.529       0.320     56   100.0    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   10.336      0.458       0.264    511   100.0   511     ERRMC  
     WELL ORDERED  . . . . .   10.697      0.479       0.279    420   100.0   420     ERRMC  
     NO INTER CONTACTS . . .    9.505      0.459       0.278    267   100.0   267     ERRMC  
     SHIFTED CHAIN . . . . .    8.678      0.394       0.226    363   100.0   363     ERRMC  
     ALTERNATIVE PARENT  . .    7.931      0.391       0.196     10   100.0    10     ERRMC  
     SECONDARY STRUCTURE . .    9.848      0.455       0.270    324   100.0   324     ERRMC  
     LARGE SHIFTS/INSERTIONS    8.642      0.379       0.204    234   100.0   234     ERRMC  
     SURFACE . . . . . . . .   10.225      0.434       0.239    387   100.0   387     ERRMC  
     BURIED  . . . . . . . .   10.681      0.532       0.339    124   100.0   124     ERRMC  
     CORE  . . . . . . . . .   11.766      0.524       0.314    277   100.0   277     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   10.530      0.453       0.250     99    22.9   433     ERRSC  
     WELL ORDERED  . . . . .   10.958      0.476       0.268     75    30.2   248     ERRSC  
     NO INTER CONTACTS . . .    9.653      0.450       0.256     51    24.3   210     ERRSC  
     RELIABLE SIDE CHAINS  .   10.530      0.453       0.250     99    26.7   371     ERRSC  
     CHANGED ANGLES  . . . .    0.000      0.000       0.000      0     0.0   281     ERRSC  
     SHIFTED CHAIN . . . . .    8.838      0.388       0.212     71    23.0   309     ERRSC  
     ALTERNATIVE PARENT  . .    7.551      0.384       0.192      2    33.3     6     ERRSC  
     SECONDARY STRUCTURE . .   10.197      0.454       0.257     64    21.5   297     ERRSC  
     LARGE SHIFTS/INSERTIONS    9.282      0.388       0.202     46    21.6   213     ERRSC  
     SURFACE . . . . . . . .   10.707      0.441       0.235     75    21.8   344     ERRSC  
     BURIED  . . . . . . . .    9.976      0.493       0.296     24    27.0    89     ERRSC  
     CORE  . . . . . . . . .   11.613      0.510       0.292     53    24.1   220     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   10.336      0.458       0.264    511    60.5   845     ERRALL 
     WELL ORDERED  . . . . .   10.697      0.479       0.279    420    70.8   593     ERRALL 
     NO INTER CONTACTS . . .    9.505      0.459       0.278    267    62.7   426     ERRALL 
     SHIFTED CHAIN . . . . .    8.678      0.394       0.226    363    60.4   601     ERRALL 
     ALTERNATIVE PARENT  . .    7.931      0.391       0.196     10    71.4    14     ERRALL 
     SECONDARY STRUCTURE . .    9.848      0.455       0.270    324    58.2   557     ERRALL 
     LARGE SHIFTS/INSERTIONS    8.642      0.379       0.204    234    58.4   401     ERRALL 
     SURFACE . . . . . . . .   10.225      0.434       0.239    387    59.0   656     ERRALL 
     BURIED  . . . . . . . .   10.681      0.532       0.339    124    65.6   189     ERRALL 
     CORE  . . . . . . . . .   11.766      0.524       0.314    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         6        10        16        33     103     103   DISTCA 
CA  (P)      0.00      5.83      9.71     15.53     32.04             103   DISTCA 
CA  (RMS)    0.00      1.58      1.94      3.01      5.94                   DISTCA 
 
ALL (N)         5        24        47        80       159     511     845   DISTALL 
ALL (P)      0.59      2.84      5.56      9.47     18.82             845   DISTALL 
ALL (RMS)    0.68      1.44      2.01      3.08      5.81                   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         18.06         15.82          RMSLSI 
 
 
 
END of the results output 
