 
####################################################### 
#                                                     # 
#                        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 529 atoms, 521 common with TARGET 
           Number of atoms possible to evaluate: 400 
 
 
 CA-RMS TARGET<->PARENT(1dcp-E)	 1.412918 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    84.28           46.3   190    82.6   230     ARMSMC  
     WELL ORDERED  . . . . .    82.85           47.9   169    81.6   207     ARMSMC  
     NO INTER CONTACTS . . .    83.25           49.6   133    81.1   164     ARMSMC  
     SHIFTED CHAIN . . . . .    85.62           45.5   134    88.2   152     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    72.50           59.1    93    78.8   118     ARMSMC  
     LARGE SHIFTS/INSERTIONS    96.34           37.1    35    76.1    46     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    85.09           46.2   117    86.0   136     ARMSMC  
     BURIED  . . . . . . . .    82.96           46.6    73    77.7    94     ARMSMC  
     CORE  . . . . . . . . .    81.31           48.4   155    84.2   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) =   0.51454     r(1,2) =   0.77116     r(1,3) =  -0.37492 
 r(2,1) =   0.56540     r(2,2) =  -0.63385     r(2,3) =  -0.52779 
 r(3,1) =  -0.64465     r(3,2) =   0.05959     r(3,3) =  -0.76215 
THE OFFSET VECTOR: 
 v(1) = -30.42904     v(2) =  -0.32448     v(3) =  68.43634 
 
 Number of iteration 24                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.61           (Number of atoms:    6) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   17.86        100    86.2   116     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1786                            CRMSCA  
     WELL ORDERED  . . . . .   15.85         90    85.7   105     CRMSCA  
     NO INTER CONTACTS . . .   17.24         69    84.1    82     CRMSCA  
     SHIFTED CHAIN . . . . .   19.23         70    90.9    77     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .   12.68         49    83.1    59     CRMSCA  
     SHIFTED SS UNITS  . . .   18.74          3   100.0     3     CRMSCA  
     LARGE SHIFTS/INSERTIONS   22.35         19    79.2    24     CRMSCA  
     SURFACE . . . . . . . .   18.78         61    88.4    69     CRMSCA  
     BURIED  . . . . . . . .   16.32         39    83.0    47     CRMSCA  
     CORE  . . . . . . . . .   16.64         81    88.0    92     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   17.91        400    69.8   573     CRMSMC  
     WELL ORDERED  . . . . .   15.99        362    69.6   520     CRMSMC  
     NO INTER CONTACTS . . .   17.25        276    67.8   407     CRMSMC  
     SHIFTED CHAIN . . . . .   19.35        280    73.7   380     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .   12.67        196    66.9   293     CRMSMC  
     SHIFTED SS UNITS  . . .   18.48         12    80.0    15     CRMSMC  
     LARGE SHIFTS/INSERTIONS   22.69         76    64.4   118     CRMSMC  
     SURFACE . . . . . . . .   18.91        244    71.6   341     CRMSMC  
     BURIED  . . . . . . . .   16.23        156    67.2   232     CRMSMC  
     CORE  . . . . . . . . .   16.60        324    71.2   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 . . . . . . . . . .   17.91        400    43.3   923     CRMSALL 
     WELL ORDERED  . . . . .   15.99        362    47.4   764     CRMSALL 
     NO INTER CONTACTS . . .   17.25        276    42.7   647     CRMSALL 
     SHIFTED CHAIN . . . . .   19.35        280    46.7   599     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .   12.67        196    41.3   475     CRMSALL 
     LARGE SHIFTS/INSERTIONS   22.69         76    42.9   177     CRMSALL 
     SURFACE . . . . . . . .   18.91        244    44.7   546     CRMSALL 
     BURIED  . . . . . . . .   16.23        156    41.4   377     CRMSALL 
     CORE  . . . . . . . . .   16.60        324    43.4   746     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    20.54     10    66.7    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2    10.01      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3    34.53      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    20.95     40    53.3    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2    10.36     20    83.3    24      38-VRDGI-42   
 MC  LOOP  3    34.83     16    84.2    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    20.95     40    37.7   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2    10.36     20    52.6    38      38-VRDGI-42   
 ALL LOOP  3    34.83     16    48.5    33     115-EGRK-118  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.73     10    66.7    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     2.27      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3     1.00      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     3.73     40    53.3    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     3.02     20    83.3    24      38-VRDGI-42   
 MC  LOOP  3     1.46     16    84.2    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     3.73     40    37.7   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     3.02     20    52.6    38      38-VRDGI-42   
 ALL LOOP  3     1.46     16    48.5    33     115-EGRK-118  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   15.589      1.000       0.500    100    86.2   116     ERRCA  
     WELL ORDERED  . . . . .   13.995      1.000       0.500     90    85.7   105     ERRCA  
     NO INTER CONTACTS . . .   15.192      1.000       0.500     69    84.1    82     ERRCA  
     SHIFTED CHAIN . . . . .   16.836      1.000       0.500     70    90.9    77     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .   10.958      1.000       0.500     49    83.1    59     ERRCA  
     LARGE SHIFTS/INSERTIONS   20.044      1.000       0.500     19    79.2    24     ERRCA  
     SURFACE . . . . . . . .   16.160      1.000       0.500     61    88.4    69     ERRCA  
     BURIED  . . . . . . . .   14.697      1.000       0.500     39    83.0    47     ERRCA  
     CORE  . . . . . . . . .   14.545      1.000       0.500     81    88.0    92     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   15.626      1.000       0.500    400    69.8   573     ERRMC  
     WELL ORDERED  . . . . .   14.088      1.000       0.500    362    69.6   520     ERRMC  
     NO INTER CONTACTS . . .   15.199      1.000       0.500    276    67.8   407     ERRMC  
     SHIFTED CHAIN . . . . .   16.942      1.000       0.500    280    73.7   380     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .   10.973      1.000       0.500    196    66.9   293     ERRMC  
     LARGE SHIFTS/INSERTIONS   20.415      1.000       0.500     76    64.4   118     ERRMC  
     SURFACE . . . . . . . .   16.299      1.000       0.500    244    71.6   341     ERRMC  
     BURIED  . . . . . . . .   14.573      1.000       0.500    156    67.2   232     ERRMC  
     CORE  . . . . . . . . .   14.503      1.000       0.500    324    71.2   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 . . . . . . . . . .   15.626      1.000       0.500    400    43.3   923     ERRALL 
     WELL ORDERED  . . . . .   14.088      1.000       0.500    362    47.4   764     ERRALL 
     NO INTER CONTACTS . . .   15.199      1.000       0.500    276    42.7   647     ERRALL 
     SHIFTED CHAIN . . . . .   16.942      1.000       0.500    280    46.7   599     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .   10.973      1.000       0.500    196    41.3   475     ERRALL 
     LARGE SHIFTS/INSERTIONS   20.415      1.000       0.500     76    42.9   177     ERRALL 
     SURFACE . . . . . . . .   16.299      1.000       0.500    244    44.7   546     ERRALL 
     BURIED  . . . . . . . .   14.573      1.000       0.500    156    41.4   377     ERRALL 
     CORE  . . . . . . . . .   14.503      1.000       0.500    324    43.4   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)         1         5         6        12        28     100     116   DISTCA 
CA  (P)      0.86      4.31      5.17     10.34     24.14             116   DISTCA 
CA  (RMS)    0.77      1.42      1.61      3.23      6.34                   DISTCA 
 
ALL (N)         6        13        25        47       112     400     923   DISTALL 
ALL (P)      0.65      1.41      2.71      5.09     12.13             923   DISTALL 
ALL (RMS)    0.74      1.19      1.99      3.22      6.25                   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            81            19          RMSLSI 
CA  (P)       79.31         69.83         16.38          RMSLSI 
CA  (RMS)      1.19         16.64         22.35          RMSLSI 
 
 
 
END of the results output 
