 
####################################################### 
#                                                     # 
#                        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 562 atoms, 547 common with TARGET 
           Number of atoms possible to evaluate: 368 
 
 
 CA-RMS TARGET<->PARENT(1dcp-E)	 1.412918 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    40.90           76.7   180    78.3   230     ARMSMC  
     WELL ORDERED  . . . . .    41.54           77.2   167    80.7   207     ARMSMC  
     NO INTER CONTACTS . . .    34.35           81.9   127    77.4   164     ARMSMC  
     SHIFTED CHAIN . . . . .    48.19           72.7   110    72.4   152     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    29.49           86.9   107    90.7   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 . . . . . . . .    48.00           68.0   100    73.5   136     ARMSMC  
     BURIED  . . . . . . . .    29.74           87.5    80    85.1    94     ARMSMC  
     CORE  . . . . . . . . .    33.55           79.9   169    91.8   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) =  -0.65549     r(1,2) =   0.32822     r(1,3) =  -0.68015 
 r(2,1) =   0.44626     r(2,2) =  -0.55821     r(2,3) =  -0.69947 
 r(3,1) =  -0.60925     r(3,2) =  -0.76202     r(3,3) =   0.21943 
THE OFFSET VECTOR: 
 v(1) =  44.88818     v(2) =  48.20700     v(3) =  77.20371 
 
 Number of iteration 36                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.31           (Number of atoms:   84) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.58         92    79.3   116     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0280                            CRMSCA  
     WELL ORDERED  . . . . .    2.63         86    81.9   105     CRMSCA  
     NO INTER CONTACTS . . .    2.36         65    79.3    82     CRMSCA  
     SHIFTED CHAIN . . . . .    3.14         56    72.7    77     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .    2.42         55    93.2    59     CRMSCA  
     SHIFTED SS UNITS  . . .    9.51          1    33.3     3     CRMSCA  
     LARGE SHIFTS/INSERTIONS    7.71          6    25.0    24     CRMSCA  
     SURFACE . . . . . . . .    2.98         51    73.9    69     CRMSCA  
     BURIED  . . . . . . . .    1.98         41    87.2    47     CRMSCA  
     CORE  . . . . . . . . .    1.72         86    93.5    92     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.58        368    64.2   573     CRMSMC  
     WELL ORDERED  . . . . .    2.63        344    66.2   520     CRMSMC  
     NO INTER CONTACTS . . .    2.30        260    63.9   407     CRMSMC  
     SHIFTED CHAIN . . . . .    3.14        224    58.9   380     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .    2.46        220    75.1   293     CRMSMC  
     SHIFTED SS UNITS  . . .   10.00          4    26.7    15     CRMSMC  
     LARGE SHIFTS/INSERTIONS    7.53         24    20.3   118     CRMSMC  
     SURFACE . . . . . . . .    3.00        204    59.8   341     CRMSMC  
     BURIED  . . . . . . . .    1.92        164    70.7   232     CRMSMC  
     CORE  . . . . . . . . .    1.77        344    75.6   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 . . . . . . . . . .    2.58        368    39.9   923     CRMSALL 
     WELL ORDERED  . . . . .    2.63        344    45.0   764     CRMSALL 
     NO INTER CONTACTS . . .    2.30        260    40.2   647     CRMSALL 
     SHIFTED CHAIN . . . . .    3.14        224    37.4   599     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .    2.46        220    46.3   475     CRMSALL 
     LARGE SHIFTS/INSERTIONS    7.53         24    13.6   177     CRMSALL 
     SURFACE . . . . . . . .    3.00        204    37.4   546     CRMSALL 
     BURIED  . . . . . . . .    1.92        164    43.5   377     CRMSALL 
     CORE  . . . . . . . . .    1.77        344    46.1   746     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.94      1     6.7    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     8.26      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     3.48      4     5.3    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     8.10     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     3.48      4     3.8   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     8.10     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 . . . . . . . . . .    1.720      1.000       0.500     92    79.3   116     ERRCA  
     WELL ORDERED  . . . . .    1.727      1.000       0.500     86    81.9   105     ERRCA  
     NO INTER CONTACTS . . .    1.605      1.000       0.500     65    79.3    82     ERRCA  
     SHIFTED CHAIN . . . . .    2.151      1.000       0.500     56    72.7    77     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .    1.601      1.000       0.500     55    93.2    59     ERRCA  
     LARGE SHIFTS/INSERTIONS    6.998      1.000       0.500      6    25.0    24     ERRCA  
     SURFACE . . . . . . . .    2.043      1.000       0.500     51    73.9    69     ERRCA  
     BURIED  . . . . . . . .    1.318      1.000       0.500     41    87.2    47     ERRCA  
     CORE  . . . . . . . . .    1.351      1.000       0.500     86    93.5    92     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.733      1.000       0.500    368    64.2   573     ERRMC  
     WELL ORDERED  . . . . .    1.745      1.000       0.500    344    66.2   520     ERRMC  
     NO INTER CONTACTS . . .    1.585      1.000       0.500    260    63.9   407     ERRMC  
     SHIFTED CHAIN . . . . .    2.148      1.000       0.500    224    58.9   380     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .    1.638      1.000       0.500    220    75.1   293     ERRMC  
     LARGE SHIFTS/INSERTIONS    6.897      1.000       0.500     24    20.3   118     ERRMC  
     SURFACE . . . . . . . .    2.067      1.000       0.500    204    59.8   341     ERRMC  
     BURIED  . . . . . . . .    1.318      1.000       0.500    164    70.7   232     ERRMC  
     CORE  . . . . . . . . .    1.373      1.000       0.500    344    75.6   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 . . . . . . . . . .    1.733      1.000       0.500    368    39.9   923     ERRALL 
     WELL ORDERED  . . . . .    1.745      1.000       0.500    344    45.0   764     ERRALL 
     NO INTER CONTACTS . . .    1.585      1.000       0.500    260    40.2   647     ERRALL 
     SHIFTED CHAIN . . . . .    2.148      1.000       0.500    224    37.4   599     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .    1.638      1.000       0.500    220    46.3   475     ERRALL 
     LARGE SHIFTS/INSERTIONS    6.897      1.000       0.500     24    13.6   177     ERRALL 
     SURFACE . . . . . . . .    2.067      1.000       0.500    204    37.4   546     ERRALL 
     BURIED  . . . . . . . .    1.318      1.000       0.500    164    43.5   377     ERRALL 
     CORE  . . . . . . . . .    1.373      1.000       0.500    344    46.1   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        87        89      92     116   DISTCA 
CA  (P)     26.72     65.52     73.28     75.00     76.72             116   DISTCA 
CA  (RMS)    0.76      1.16      1.33      1.46      1.84                   DISTCA 
 
ALL (N)       121       308       336       349       361     368     923   DISTALL 
ALL (P)     13.11     33.37     36.40     37.81     39.11             923   DISTALL 
ALL (RMS)    0.77      1.19      1.33      1.50      2.18                   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            86             6          RMSLSI 
CA  (P)       79.31         74.14          5.17          RMSLSI 
CA  (RMS)      1.19          1.72          7.71          RMSLSI 
 
 
 
END of the results output 
