 
####################################################### 
#                                                     # 
#                        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 . . . . . . . . . .    66.56           63.4   194    96.5   201     ARMSMC  
     WELL ORDERED  . . . . .    67.33           62.1   161   100.0   161     ARMSMC  
     NO INTER CONTACTS . . .    63.11           69.0   100    95.2   105     ARMSMC  
     SHIFTED CHAIN . . . . .    71.62           59.7   134    95.0   141     ARMSMC  
     ALTERNATIVE PARENT  . .    79.34           75.0     4   100.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    56.99           72.7   121    95.3   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    71.25           64.6    82    92.1    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    70.13           61.8   144    95.4   151     ARMSMC  
     BURIED  . . . . . . . .    55.03           68.0    50   100.0    50     ARMSMC  
     CORE  . . . . . . . . .    62.91           62.5   112   100.0   112     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    72.80           57.5    87    95.6    91     ARMSSC1 
     WELL ORDERED  . . . . .    65.39           64.8    54   100.0    54     ARMSSC1 
     NO INTER CONTACTS . . .    78.52           50.0    42    93.3    45     ARMSSC1 
     RELIABLE SIDE CHAINS  .    72.82           57.5    80    95.2    84     ARMSSC1 
     CHANGED ANGLES  . . . .    75.30           56.5    62    93.9    66     ARMSSC1 
     SHIFTED CHAIN . . . . .    70.54           61.7    60    93.8    64     ARMSSC1 
     ALTERNATIVE PARENT  . .    21.68           50.0     2   100.0     2     ARMSSC1 
     SECONDARY STRUCTURE . .    71.66           61.1    54    94.7    57     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    61.04           68.4    38    90.5    42     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    72.29           60.0    65    94.2    69     ARMSSC1 
     BURIED  . . . . . . . .    74.28           50.0    22   100.0    22     ARMSSC1 
     CORE  . . . . . . . . .    80.75           49.0    49   100.0    49     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    80.94           44.3    61    95.3    64     ARMSSC2 
     WELL ORDERED  . . . . .    77.51           50.0    28   100.0    28     ARMSSC2 
     NO INTER CONTACTS . . .    77.63           45.2    31    93.9    33     ARMSSC2 
     RELIABLE SIDE CHAINS  .    75.00           45.7    46    93.9    49     ARMSSC2 
     CHANGED ANGLES  . . . .    89.70           34.1    44    93.6    47     ARMSSC2 
     SHIFTED CHAIN . . . . .    79.34           48.8    41    93.2    44     ARMSSC2 
     ALTERNATIVE PARENT  . .    28.90          100.0     1   100.0     1     ARMSSC2 
     SECONDARY STRUCTURE . .    75.01           47.5    40    95.2    42     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    89.82           36.0    25    89.3    28     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    85.09           39.1    46    93.9    49     ARMSSC2 
     BURIED  . . . . . . . .    66.62           60.0    15   100.0    15     ARMSSC2 
     CORE  . . . . . . . . .    74.15           50.0    36   100.0    36     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    72.86           35.7    28    90.3    31     ARMSSC3 
     WELL ORDERED  . . . . .    56.73           50.0    10   100.0    10     ARMSSC3 
     NO INTER CONTACTS . . .    60.70           38.5    13    86.7    15     ARMSSC3 
     RELIABLE SIDE CHAINS  .    67.19           37.5    24    92.3    26     ARMSSC3 
     CHANGED ANGLES  . . . .    82.08           28.6    21    87.5    24     ARMSSC3 
     SHIFTED CHAIN . . . . .    83.22           35.3    17    85.0    20     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    65.89           42.9    21    91.3    23     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    82.07           36.4    11    78.6    14     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    73.78           40.0    25    89.3    28     ARMSSC3 
     BURIED  . . . . . . . .    64.71            0.0     3   100.0     3     ARMSSC3 
     CORE  . . . . . . . . .    66.23           35.3    17   100.0    17     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    90.45           30.0    10    83.3    12     ARMSSC4 
     WELL ORDERED  . . . . .   136.55            0.0     3   100.0     3     ARMSSC4 
     NO INTER CONTACTS . . .    87.44           40.0     5    83.3     6     ARMSSC4 
     RELIABLE SIDE CHAINS  .    90.45           30.0    10    83.3    12     ARMSSC4 
     CHANGED ANGLES  . . . .    76.32           33.3     9    81.8    11     ARMSSC4 
     SHIFTED CHAIN . . . . .    87.25           25.0     4    66.7     6     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .    89.88           28.6     7    77.8     9     ARMSSC4 
     LARGE SHIFTS/INSERTIONS   113.52            0.0     1    33.3     3     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    77.33           37.5     8    80.0    10     ARMSSC4 
     BURIED  . . . . . . . .   130.33            0.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    87.51           33.3     9   100.0     9     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.35798     r(1,2) =  -0.91758     r(1,3) =   0.17289 
 r(2,1) =  -0.93372     r(2,2) =   0.35282     r(2,3) =  -0.06075 
 r(3,1) =  -0.00525     r(3,2) =  -0.18318     r(3,3) =  -0.98307 
THE OFFSET VECTOR: 
 v(1) =   7.50340     v(2) =  52.19456     v(3) =  54.92642 
 
 Number of iteration 32                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.60           (Number of atoms:   10) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   14.39        103   100.0   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1398                            CRMSCA  
     WELL ORDERED  . . . . .   13.23         85   100.0    85     CRMSCA  
     NO INTER CONTACTS . . .   13.50         54   100.0    54     CRMSCA  
     SHIFTED CHAIN . . . . .   16.26         73   100.0    73     CRMSCA  
     ALTERNATIVE PARENT  . .   17.41          2   100.0     2     CRMSCA  
     SECONDARY STRUCTURE . .   13.22         65   100.0    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS   18.76         47   100.0    47     CRMSCA  
     SURFACE . . . . . . . .   15.56         78   100.0    78     CRMSCA  
     BURIED  . . . . . . . .    9.91         25   100.0    25     CRMSCA  
     CORE  . . . . . . . . .    9.26         56   100.0    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   14.47        511   100.0   511     CRMSMC  
     WELL ORDERED  . . . . .   13.12        420   100.0   420     CRMSMC  
     NO INTER CONTACTS . . .   13.52        267   100.0   267     CRMSMC  
     SHIFTED CHAIN . . . . .   16.34        363   100.0   363     CRMSMC  
     ALTERNATIVE PARENT  . .   17.19         10   100.0    10     CRMSMC  
     SECONDARY STRUCTURE . .   13.36        324   100.0   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS   18.79        234   100.0   234     CRMSMC  
     SURFACE . . . . . . . .   15.63        387   100.0   387     CRMSMC  
     BURIED  . . . . . . . .   10.01        124   100.0   124     CRMSMC  
     CORE  . . . . . . . . .    9.38        277   100.0   277     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .   15.58        433   100.0   433     CRMSSC  
     WELL ORDERED  . . . . .   14.02        248   100.0   248     CRMSSC  
     NO INTER CONTACTS . . .   15.84        210   100.0   210     CRMSSC  
     RELIABLE SIDE CHAINS  .   15.57        371   100.0   371     CRMSSC  
     CHANGED ANGLES  . . . .   16.68        281   100.0   281     CRMSSC  
     SECONDARY STRUCTURE . .   14.99        297   100.0   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS   19.16        213   100.0   213     CRMSSC  
     SURFACE . . . . . . . .   16.64        344   100.0   344     CRMSSC  
     BURIED  . . . . . . . .   10.54         89   100.0    89     CRMSSC  
     CORE  . . . . . . . . .   11.06        220   100.0   220     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   15.01        845   100.0   845     CRMSALL 
     WELL ORDERED  . . . . .   13.47        593   100.0   593     CRMSALL 
     NO INTER CONTACTS . . .   14.64        426   100.0   426     CRMSALL 
     SHIFTED CHAIN . . . . .   16.77        601   100.0   601     CRMSALL 
     ALTERNATIVE PARENT  . .   16.89         14   100.0    14     CRMSALL 
     SECONDARY STRUCTURE . .   14.22        557   100.0   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS   18.98        401   100.0   401     CRMSALL 
     SURFACE . . . . . . . .   16.13        656   100.0   656     CRMSALL 
     BURIED  . . . . . . . .   10.22        189   100.0   189     CRMSALL 
     CORE  . . . . . . . . .   10.16        444   100.0   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    19.44      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2    18.85     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    19.33     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2    18.91    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    20.50     45   100.0    45      40-TNPSIQ-45   
 ALL LOOP  2    18.97    348   100.0   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.00      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     6.34     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     3.53     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2     6.49    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     4.94     45   100.0    45      40-TNPSIQ-45   
 ALL LOOP  2     7.50    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 . . . . . . . . . .    6.654      0.313       0.237    103   100.0   103     ERRCA  
     WELL ORDERED  . . . . .    5.871      0.295       0.234     85   100.0    85     ERRCA  
     NO INTER CONTACTS . . .    6.573      0.339       0.275     54   100.0    54     ERRCA  
     SHIFTED CHAIN . . . . .    7.673      0.320       0.209     73   100.0    73     ERRCA  
     ALTERNATIVE PARENT  . .    8.325      0.313       0.157      2   100.0     2     ERRCA  
     SECONDARY STRUCTURE . .    6.211      0.322       0.260     65   100.0    65     ERRCA  
     LARGE SHIFTS/INSERTIONS    9.222      0.319       0.162     47   100.0    47     ERRCA  
     SURFACE . . . . . . . .    7.252      0.313       0.216     78   100.0    78     ERRCA  
     BURIED  . . . . . . . .    4.787      0.312       0.300     25   100.0    25     ERRCA  
     CORE  . . . . . . . . .    4.498      0.308       0.299     56   100.0    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.665      0.310       0.233    511   100.0   511     ERRMC  
     WELL ORDERED  . . . . .    5.821      0.294       0.233    420   100.0   420     ERRMC  
     NO INTER CONTACTS . . .    6.513      0.333       0.268    267   100.0   267     ERRMC  
     SHIFTED CHAIN . . . . .    7.713      0.319       0.205    363   100.0   363     ERRMC  
     ALTERNATIVE PARENT  . .    8.128      0.309       0.154     10   100.0    10     ERRMC  
     SECONDARY STRUCTURE . .    6.265      0.320       0.256    324   100.0   324     ERRMC  
     LARGE SHIFTS/INSERTIONS    9.241      0.319       0.162    234   100.0   234     ERRMC  
     SURFACE . . . . . . . .    7.282      0.311       0.215    387   100.0   387     ERRMC  
     BURIED  . . . . . . . .    4.739      0.306       0.289    124   100.0   124     ERRMC  
     CORE  . . . . . . . . .    4.488      0.303       0.292    277   100.0   277     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    7.089      0.296       0.204    433   100.0   433     ERRSC  
     WELL ORDERED  . . . . .    6.190      0.288       0.219    248   100.0   248     ERRSC  
     NO INTER CONTACTS . . .    7.341      0.303       0.210    210   100.0   210     ERRSC  
     RELIABLE SIDE CHAINS  .    7.136      0.300       0.209    371   100.0   371     ERRSC  
     CHANGED ANGLES  . . . .    7.710      0.295       0.185    281   100.0   281     ERRSC  
     SHIFTED CHAIN . . . . .    8.140      0.311       0.190    309   100.0   309     ERRSC  
     ALTERNATIVE PARENT  . .    7.250      0.284       0.142      6   100.0     6     ERRSC  
     SECONDARY STRUCTURE . .    6.989      0.310       0.230    297   100.0   297     ERRSC  
     LARGE SHIFTS/INSERTIONS    9.653      0.329       0.175    213   100.0   213     ERRSC  
     SURFACE . . . . . . . .    7.867      0.311       0.203    344   100.0   344     ERRSC  
     BURIED  . . . . . . . .    4.083      0.238       0.210     89   100.0    89     ERRSC  
     CORE  . . . . . . . . .    4.607      0.264       0.233    220   100.0   220     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    6.882      0.304       0.220    845   100.0   845     ERRALL 
     WELL ORDERED  . . . . .    5.976      0.293       0.229    593   100.0   593     ERRALL 
     NO INTER CONTACTS . . .    6.922      0.321       0.243    426   100.0   426     ERRALL 
     SHIFTED CHAIN . . . . .    7.937      0.316       0.199    601   100.0   601     ERRALL 
     ALTERNATIVE PARENT  . .    7.821      0.300       0.150     14   100.0    14     ERRALL 
     SECONDARY STRUCTURE . .    6.647      0.316       0.244    557   100.0   557     ERRALL 
     LARGE SHIFTS/INSERTIONS    9.445      0.324       0.168    401   100.0   401     ERRALL 
     SURFACE . . . . . . . .    7.572      0.312       0.210    656   100.0   656     ERRALL 
     BURIED  . . . . . . . .    4.487      0.279       0.258    189   100.0   189     ERRALL 
     CORE  . . . . . . . . .    4.567      0.287       0.268    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)         0         9        11        20        41     103     103   DISTCA 
CA  (P)      0.00      8.74     10.68     19.42     39.81             103   DISTCA 
CA  (RMS)    0.00      1.51      1.74      2.95      5.67                   DISTCA 
 
ALL (N)         6        40        76       144       320     845     845   DISTALL 
ALL (P)      0.71      4.73      8.99     17.04     37.87             845   DISTALL 
ALL (RMS)    0.86      1.52      2.07      3.15      5.97                   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          9.26         18.76          RMSLSI 
 
 
 
END of the results output 
