 
####################################################### 
#                                                     # 
#                        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: 330 
 
 
 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 . . . . . . . . . .    34.55           82.8    64    31.8   201     ARMSMC  
     WELL ORDERED  . . . . .    36.89           84.3    51    31.7   161     ARMSMC  
     NO INTER CONTACTS . . .    16.74           85.7    14    13.3   105     ARMSMC  
     SHIFTED CHAIN . . . . .    34.55           82.8    64    45.4   141     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    38.53           83.0    47    37.0   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    34.55           82.8    64    71.9    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    34.55           82.8    64    42.4   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 . . . . . . . . . .    94.34           37.9    29    31.9    91     ARMSSC1 
     WELL ORDERED  . . . . .   100.40           31.2    16    29.6    54     ARMSSC1 
     NO INTER CONTACTS . . .   113.54           20.0     5    11.1    45     ARMSSC1 
     RELIABLE SIDE CHAINS  .    95.25           37.0    27    32.1    84     ARMSSC1 
     CHANGED ANGLES  . . . .    94.34           37.9    29    43.9    66     ARMSSC1 
     SHIFTED CHAIN . . . . .    94.34           37.9    29    45.3    64     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     2     ARMSSC1 
     SECONDARY STRUCTURE . .    96.42           33.3    21    36.8    57     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    94.34           37.9    29    69.0    42     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    94.34           37.9    29    42.0    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 . . . . . . . . . .    77.29           44.4    18    28.1    64     ARMSSC2 
     WELL ORDERED  . . . . .    45.88           71.4     7    25.0    28     ARMSSC2 
     NO INTER CONTACTS . . .    72.10           40.0     5    15.2    33     ARMSSC2 
     RELIABLE SIDE CHAINS  .    74.73           42.9    14    28.6    49     ARMSSC2 
     CHANGED ANGLES  . . . .    77.29           44.4    18    38.3    47     ARMSSC2 
     SHIFTED CHAIN . . . . .    77.29           44.4    18    40.9    44     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     1     ARMSSC2 
     SECONDARY STRUCTURE . .    68.11           50.0    14    33.3    42     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    77.29           44.4    18    64.3    28     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    77.29           44.4    18    36.7    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 . . . . . . . . . .    51.66           57.1     7    22.6    31     ARMSSC3 
     WELL ORDERED  . . . . .    13.69          100.0     4    40.0    10     ARMSSC3 
     NO INTER CONTACTS . . .    24.51           50.0     2    13.3    15     ARMSSC3 
     RELIABLE SIDE CHAINS  .    51.66           57.1     7    26.9    26     ARMSSC3 
     CHANGED ANGLES  . . . .    66.98           25.0     4    16.7    24     ARMSSC3 
     SHIFTED CHAIN . . . . .    51.66           57.1     7    35.0    20     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    45.74           66.7     6    26.1    23     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    51.66           57.1     7    50.0    14     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    51.66           57.1     7    25.0    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) =   0.41499     r(1,2) =   0.07997     r(1,3) =   0.90631 
 r(2,1) =  -0.47258     r(2,2) =   0.87016     r(2,3) =   0.13961 
 r(3,1) =  -0.77747     r(3,2) =  -0.48624     r(3,3) =   0.39890 
THE OFFSET VECTOR: 
 v(1) = -18.66357     v(2) =  37.67215     v(3) =  38.01831 
 
 Number of iteration 22                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   8.35           (Number of atoms:   38) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    8.35         38    36.9   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.2198                            CRMSCA  
     WELL ORDERED  . . . . .    6.43         28    32.9    85     CRMSCA  
     NO INTER CONTACTS . . .    8.78         11    20.4    54     CRMSCA  
     SHIFTED CHAIN . . . . .    8.35         38    52.1    73     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     2     CRMSCA  
     SECONDARY STRUCTURE . .    7.28         28    43.1    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS    8.35         38    80.9    47     CRMSCA  
     SURFACE . . . . . . . .    8.35         38    48.7    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 . . . . . . . . . .    8.41        189    37.0   511     CRMSMC  
     WELL ORDERED  . . . . .    6.51        138    32.9   420     CRMSMC  
     NO INTER CONTACTS . . .    9.06         54    20.2   267     CRMSMC  
     SHIFTED CHAIN . . . . .    8.41        189    52.1   363     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0    10     CRMSMC  
     SECONDARY STRUCTURE . .    7.32        140    43.2   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS    8.41        189    80.8   234     CRMSMC  
     SURFACE . . . . . . . .    8.41        189    48.8   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 . . . . . . . . . .   10.48        178    41.1   433     CRMSSC  
     WELL ORDERED  . . . . .    7.52         92    37.1   248     CRMSSC  
     NO INTER CONTACTS . . .   10.84         54    25.7   210     CRMSSC  
     RELIABLE SIDE CHAINS  .   10.29        158    42.6   371     CRMSSC  
     CHANGED ANGLES  . . . .   10.81        141    50.2   281     CRMSSC  
     SECONDARY STRUCTURE . .    9.23        144    48.5   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS   10.48        178    83.6   213     CRMSSC  
     SURFACE . . . . . . . .   10.48        178    51.7   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 . . . . . . . . . .    9.51        330    39.1   845     CRMSALL 
     WELL ORDERED  . . . . .    6.91        205    34.6   593     CRMSALL 
     NO INTER CONTACTS . . .   10.02         98    23.0   426     CRMSALL 
     SHIFTED CHAIN . . . . .    9.51        330    54.9   601     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0    14     CRMSALL 
     SECONDARY STRUCTURE . .    8.41        256    46.0   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS    9.51        330    82.3   401     CRMSALL 
     SURFACE . . . . . . . .    9.51        330    50.3   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     8.35     38    95.0    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     8.41    189    95.0   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     9.51    330    94.8   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 CA  LOOP  2     8.35     38    95.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 MC  LOOP  2     8.41    189    95.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 ALL LOOP  2     9.51    330    94.8   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 . . . . . . . . . .    5.956      0.618       0.309     38    36.9   103     ERRCA  
     WELL ORDERED  . . . . .    4.623      0.592       0.296     28    32.9    85     ERRCA  
     NO INTER CONTACTS . . .    6.279      0.602       0.301     11    20.4    54     ERRCA  
     SHIFTED CHAIN . . . . .    5.956      0.618       0.309     38    52.1    73     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     2     ERRCA  
     SECONDARY STRUCTURE . .    5.323      0.622       0.311     28    43.1    65     ERRCA  
     LARGE SHIFTS/INSERTIONS    5.956      0.618       0.309     38    80.9    47     ERRCA  
     SURFACE . . . . . . . .    5.956      0.618       0.309     38    48.7    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 . . . . . . . . . .    5.998      0.619       0.309    189    37.0   511     ERRMC  
     WELL ORDERED  . . . . .    4.685      0.594       0.297    138    32.9   420     ERRMC  
     NO INTER CONTACTS . . .    6.502      0.607       0.303     54    20.2   267     ERRMC  
     SHIFTED CHAIN . . . . .    5.998      0.619       0.309    189    52.1   363     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0    10     ERRMC  
     SECONDARY STRUCTURE . .    5.326      0.619       0.310    140    43.2   324     ERRMC  
     LARGE SHIFTS/INSERTIONS    5.998      0.619       0.309    189    80.8   234     ERRMC  
     SURFACE . . . . . . . .    5.998      0.619       0.309    189    48.8   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 . . . . . . . . . .    7.934      0.694       0.347    178    41.1   433     ERRSC  
     WELL ORDERED  . . . . .    5.749      0.672       0.336     92    37.1   248     ERRSC  
     NO INTER CONTACTS . . .    8.465      0.703       0.351     54    25.7   210     ERRSC  
     RELIABLE SIDE CHAINS  .    7.775      0.692       0.346    158    42.6   371     ERRSC  
     CHANGED ANGLES  . . . .    8.252      0.705       0.353    141    50.2   281     ERRSC  
     SHIFTED CHAIN . . . . .    7.934      0.694       0.347    178    57.6   309     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     6     ERRSC  
     SECONDARY STRUCTURE . .    7.059      0.688       0.344    144    48.5   297     ERRSC  
     LARGE SHIFTS/INSERTIONS    7.934      0.694       0.347    178    83.6   213     ERRSC  
     SURFACE . . . . . . . .    7.934      0.694       0.347    178    51.7   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 . . . . . . . . . .    6.961      0.656       0.328    330    39.1   845     ERRALL 
     WELL ORDERED  . . . . .    5.094      0.625       0.313    205    34.6   593     ERRALL 
     NO INTER CONTACTS . . .    7.505      0.656       0.328     98    23.0   426     ERRALL 
     SHIFTED CHAIN . . . . .    6.961      0.656       0.328    330    54.9   601     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0    14     ERRALL 
     SECONDARY STRUCTURE . .    6.248      0.655       0.328    256    46.0   557     ERRALL 
     LARGE SHIFTS/INSERTIONS    6.961      0.656       0.328    330    82.3   401     ERRALL 
     SURFACE . . . . . . . .    6.961      0.656       0.328    330    50.3   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)         0         2         3        11        28      38     103   DISTCA 
CA  (P)      0.00      1.94      2.91     10.68     27.18             103   DISTCA 
CA  (RMS)    0.00      1.78      1.99      3.39      5.97                   DISTCA 
 
ALL (N)         0         5        17        79       230     330     845   DISTALL 
ALL (P)      0.00      0.59      2.01      9.35     27.22             845   DISTALL 
ALL (RMS)    0.00      1.64      2.22      3.82      6.41                   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            38          RMSLSI 
CA  (P)       54.37          0.00         36.89          RMSLSI 
CA  (RMS)      1.04          0.00          8.35          RMSLSI 
 
 
 
END of the results output 
