 
####################################################### 
#                                                     # 
#                        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/T0048.inter 
CONANA-PAIR            ../CONANA/T0048.pair 
# 
NUMBER-OF-PARENTS      1 
ALIGNMENT-DALI(1)      ../PARENTS/casp3.T0048.1dcp_E.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 923 atoms, MODEL 557 atoms, 542 common with TARGET 
           Number of atoms possible to evaluate: 372 
 
 
 CA-RMS TARGET<->PARENT(1dcp-E)	 1.412918 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    41.30           76.9   182    79.1   230     ARMSMC  
     WELL ORDERED  . . . . .    42.03           77.4   168    81.2   207     ARMSMC  
     NO INTER CONTACTS . . .    35.11           82.2   129    78.7   164     ARMSMC  
     SHIFTED CHAIN . . . . .    46.87           73.9   111    73.0   152     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    29.33           87.2   109    92.4   118     ARMSMC  
     LARGE SHIFTS/INSERTIONS   100.39           27.3    11    23.9    46     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    46.55           69.3   101    74.3   136     ARMSMC  
     BURIED  . . . . . . . .    33.61           86.4    81    86.2    94     ARMSMC  
     CORE  . . . . . . . . .    34.16           80.1   171    92.9   184     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    96     ARMSSC1 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    74     ARMSSC1 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    67     ARMSSC1 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    88     ARMSSC1 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    60     ARMSSC1 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    62     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    50     ARMSSC1 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    17     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    57     ARMSSC1 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    39     ARMSSC1 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    79     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    75     ARMSSC2 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    52     ARMSSC2 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    50     ARMSSC2 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    54     ARMSSC2 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    55     ARMSSC2 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    48     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    38     ARMSSC2 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    47     ARMSSC2 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0    28     ARMSSC2 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    62     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    29     ARMSSC3 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    13     ARMSSC3 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    20     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    26     ARMSSC3 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    28     ARMSSC3 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    22     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    17     ARMSSC3 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     7     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    23     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     6     ARMSSC3 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    22     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    13     ARMSSC4 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0     3     ARMSSC4 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    13     ARMSSC4 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    12     ARMSSC4 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    11     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     7     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     4     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    11     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) =  -0.65553     r(1,2) =   0.32793     r(1,3) =  -0.68025 
 r(2,1) =   0.44580     r(2,2) =  -0.55903     r(2,3) =  -0.69910 
 r(3,1) =  -0.60954     r(3,2) =  -0.76154     r(3,3) =   0.22027 
THE OFFSET VECTOR: 
 v(1) =  44.87619     v(2) =  48.24562     v(3) =  77.18337 
 
 Number of iteration 32                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.28           (Number of atoms:   83) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.61         93    80.2   116     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0280                            CRMSCA  
     WELL ORDERED  . . . . .    2.67         86    81.9   105     CRMSCA  
     NO INTER CONTACTS . . .    2.41         66    80.5    82     CRMSCA  
     SHIFTED CHAIN . . . . .    3.17         57    74.0    77     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .    2.40         56    94.9    59     CRMSCA  
     SHIFTED SS UNITS  . . .    9.48          1    33.3     3     CRMSCA  
     LARGE SHIFTS/INSERTIONS    7.69          6    25.0    24     CRMSCA  
     SURFACE . . . . . . . .    3.02         52    75.4    69     CRMSCA  
     BURIED  . . . . . . . .    1.97         41    87.2    47     CRMSCA  
     CORE  . . . . . . . . .    1.79         87    94.6    92     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.61        372    64.9   573     CRMSMC  
     WELL ORDERED  . . . . .    2.68        345    66.3   520     CRMSMC  
     NO INTER CONTACTS . . .    2.36        264    64.9   407     CRMSMC  
     SHIFTED CHAIN . . . . .    3.18        228    60.0   380     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .    2.44        224    76.5   293     CRMSMC  
     SHIFTED SS UNITS  . . .    9.97          4    26.7    15     CRMSMC  
     LARGE SHIFTS/INSERTIONS    7.51         24    20.3   118     CRMSMC  
     SURFACE . . . . . . . .    3.05        208    61.0   341     CRMSMC  
     BURIED  . . . . . . . .    1.91        164    70.7   232     CRMSMC  
     CORE  . . . . . . . . .    1.84        348    76.5   455     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    0.00          0     0.0   459     CRMSSC  
     WELL ORDERED  . . . . .    0.00          0     0.0   340     CRMSSC  
     NO INTER CONTACTS . . .    0.00          0     0.0   319     CRMSSC  
     RELIABLE SIDE CHAINS  .    0.00          0     0.0   381     CRMSSC  
     CHANGED ANGLES  . . . .    0.00          0     0.0   248     CRMSSC  
     SECONDARY STRUCTURE . .    0.00          0     0.0   239     CRMSSC  
     LARGE SHIFTS/INSERTIONS    0.00          0     0.0    81     CRMSSC  
     SURFACE . . . . . . . .    0.00          0     0.0   270     CRMSSC  
     BURIED  . . . . . . . .    0.00          0     0.0   189     CRMSSC  
     CORE  . . . . . . . . .    0.00          0     0.0   378     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    2.61        372    40.3   923     CRMSALL 
     WELL ORDERED  . . . . .    2.68        345    45.2   764     CRMSALL 
     NO INTER CONTACTS . . .    2.36        264    40.8   647     CRMSALL 
     SHIFTED CHAIN . . . . .    3.18        228    38.1   599     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .    2.44        224    47.2   475     CRMSALL 
     LARGE SHIFTS/INSERTIONS    7.51         24    13.6   177     CRMSALL 
     SURFACE . . . . . . . .    3.05        208    38.1   546     CRMSALL 
     BURIED  . . . . . . . .    1.91        164    43.5   377     CRMSALL 
     CORE  . . . . . . . . .    1.84        348    46.6   746     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.91      1     6.7    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     8.24      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3     0.00      0     0.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     3.45      4     5.3    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     8.08     20    83.3    24      38-VRDGI-42   
 MC  LOOP  3     0.00      0     0.0    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     3.45      4     3.8   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     8.08     20    52.6    38      38-VRDGI-42   
 ALL LOOP  3     0.00      0     0.0    33     115-EGRK-118  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 CA  LOOP  2     2.36      5   100.0     5      38-VRDGI-42   
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 MC  LOOP  2     2.63     20    83.3    24      38-VRDGI-42   
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 ALL LOOP  2     2.63     20    52.6    38      38-VRDGI-42   
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.812      0.517       0.574     93    80.2   116     ERRCA  
     WELL ORDERED  . . . . .    2.846      0.524       0.577     86    81.9   105     ERRCA  
     NO INTER CONTACTS . . .    2.795      0.524       0.585     66    80.5    82     ERRCA  
     SHIFTED CHAIN . . . . .    2.710      0.459       0.518     57    74.0    77     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .    2.877      0.541       0.596     56    94.9    59     ERRCA  
     LARGE SHIFTS/INSERTIONS    3.494      0.275       0.152      6    25.0    24     ERRCA  
     SURFACE . . . . . . . .    2.667      0.470       0.521     52    75.4    69     ERRCA  
     BURIED  . . . . . . . .    2.995      0.577       0.642     41    87.2    47     ERRCA  
     CORE  . . . . . . . . .    2.765      0.534       0.603     87    94.6    92     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.798      0.514       0.571    372    64.9   573     ERRMC  
     WELL ORDERED  . . . . .    2.825      0.519       0.572    345    66.3   520     ERRMC  
     NO INTER CONTACTS . . .    2.798      0.524       0.585    264    64.9   407     ERRMC  
     SHIFTED CHAIN . . . . .    2.720      0.464       0.520    228    60.0   380     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .    2.859      0.535       0.591    224    76.5   293     ERRMC  
     LARGE SHIFTS/INSERTIONS    3.404      0.274       0.147     24    20.3   118     ERRMC  
     SURFACE . . . . . . . .    2.662      0.467       0.518    208    61.0   341     ERRMC  
     BURIED  . . . . . . . .    2.970      0.572       0.638    164    70.7   232     ERRMC  
     CORE  . . . . . . . . .    2.756      0.530       0.600    348    76.5   455     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.000      0.000       0.000      0     0.0   459     ERRSC  
     WELL ORDERED  . . . . .    0.000      0.000       0.000      0     0.0   340     ERRSC  
     NO INTER CONTACTS . . .    0.000      0.000       0.000      0     0.0   319     ERRSC  
     RELIABLE SIDE CHAINS  .    0.000      0.000       0.000      0     0.0   381     ERRSC  
     CHANGED ANGLES  . . . .    0.000      0.000       0.000      0     0.0   248     ERRSC  
     SHIFTED CHAIN . . . . .    0.000      0.000       0.000      0     0.0   291     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRSC  
     SECONDARY STRUCTURE . .    0.000      0.000       0.000      0     0.0   239     ERRSC  
     LARGE SHIFTS/INSERTIONS    0.000      0.000       0.000      0     0.0    81     ERRSC  
     SURFACE . . . . . . . .    0.000      0.000       0.000      0     0.0   270     ERRSC  
     BURIED  . . . . . . . .    0.000      0.000       0.000      0     0.0   189     ERRSC  
     CORE  . . . . . . . . .    0.000      0.000       0.000      0     0.0   378     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.798      0.514       0.571    372    40.3   923     ERRALL 
     WELL ORDERED  . . . . .    2.825      0.519       0.572    345    45.2   764     ERRALL 
     NO INTER CONTACTS . . .    2.798      0.524       0.585    264    40.8   647     ERRALL 
     SHIFTED CHAIN . . . . .    2.720      0.464       0.520    228    38.1   599     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .    2.859      0.535       0.591    224    47.2   475     ERRALL 
     LARGE SHIFTS/INSERTIONS    3.404      0.274       0.147     24    13.6   177     ERRALL 
     SURFACE . . . . . . . .    2.662      0.467       0.518    208    38.1   546     ERRALL 
     BURIED  . . . . . . . .    2.970      0.572       0.638    164    43.5   377     ERRALL 
     CORE  . . . . . . . . .    2.756      0.530       0.600    348    46.6   746     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)        31        76        85        88        90      93     116   DISTCA 
CA  (P)     26.72     65.52     73.28     75.86     77.59             116   DISTCA 
CA  (RMS)    0.76      1.16      1.33      1.54      1.90                   DISTCA 
 
ALL (N)       120       308       336       351       365     372     923   DISTALL 
ALL (P)     13.00     33.37     36.40     38.03     39.54             923   DISTALL 
ALL (RMS)    0.77      1.19      1.33      1.53      2.23                   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)          92            87             6          RMSLSI 
CA  (P)       79.31         75.00          5.17          RMSLSI 
CA  (RMS)      1.19          1.79          7.69          RMSLSI 
 
 
 
END of the results output 
