 
####################################################### 
#                                                     # 
#                        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 939 atoms, 923 common with TARGET 
           Number of atoms possible to evaluate: 923 
 
 
 CA-RMS TARGET<->PARENT(1dcp-E)	 1.412918 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    88.78           42.6   230   100.0   230     ARMSMC  
     WELL ORDERED  . . . . .    88.83           43.5   207   100.0   207     ARMSMC  
     NO INTER CONTACTS . . .    86.56           44.5   164   100.0   164     ARMSMC  
     SHIFTED CHAIN . . . . .    90.08           41.4   152   100.0   152     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    85.35           50.0   118   100.0   118     ARMSMC  
     LARGE SHIFTS/INSERTIONS    88.77           37.0    46   100.0    46     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    90.63           41.9   136   100.0   136     ARMSMC  
     BURIED  . . . . . . . .    86.03           43.6    94   100.0    94     ARMSMC  
     CORE  . . . . . . . . .    88.78           44.0   184   100.0   184     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    92.98           32.3    96   100.0    96     ARMSSC1 
     WELL ORDERED  . . . . .    92.99           33.8    74   100.0    74     ARMSSC1 
     NO INTER CONTACTS . . .    95.00           28.4    67   100.0    67     ARMSSC1 
     RELIABLE SIDE CHAINS  .    92.97           31.8    88   100.0    88     ARMSSC1 
     CHANGED ANGLES  . . . .    92.74           33.3    60   100.0    60     ARMSSC1 
     SHIFTED CHAIN . . . . .    89.86           37.1    62   100.0    62     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SECONDARY STRUCTURE . .    91.13           30.0    50   100.0    50     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    79.90           52.9    17   100.0    17     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    84.52           42.1    57   100.0    57     ARMSSC1 
     BURIED  . . . . . . . .   104.12           17.9    39   100.0    39     ARMSSC1 
     CORE  . . . . . . . . .    95.56           27.8    79   100.0    79     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    82.54           38.7    75   100.0    75     ARMSSC2 
     WELL ORDERED  . . . . .    87.20           38.5    52   100.0    52     ARMSSC2 
     NO INTER CONTACTS . . .    79.67           40.0    50   100.0    50     ARMSSC2 
     RELIABLE SIDE CHAINS  .    79.03           44.4    54   100.0    54     ARMSSC2 
     CHANGED ANGLES  . . . .    82.21           36.4    55   100.0    55     ARMSSC2 
     SHIFTED CHAIN . . . . .    74.57           43.8    48   100.0    48     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SECONDARY STRUCTURE . .    77.70           42.1    38   100.0    38     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    77.69           38.5    13   100.0    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    74.96           40.4    47   100.0    47     ARMSSC2 
     BURIED  . . . . . . . .    93.90           35.7    28   100.0    28     ARMSSC2 
     CORE  . . . . . . . . .    83.52           38.7    62   100.0    62     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    90.34           34.5    29   100.0    29     ARMSSC3 
     WELL ORDERED  . . . . .    79.22           38.5    13   100.0    13     ARMSSC3 
     NO INTER CONTACTS . . .    80.10           35.0    20   100.0    20     ARMSSC3 
     RELIABLE SIDE CHAINS  .    86.97           34.6    26   100.0    26     ARMSSC3 
     CHANGED ANGLES  . . . .    91.90           32.1    28   100.0    28     ARMSSC3 
     SHIFTED CHAIN . . . . .    98.36           27.3    22   100.0    22     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    87.60           35.3    17   100.0    17     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    92.88           28.6     7   100.0     7     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    88.95           34.8    23   100.0    23     ARMSSC3 
     BURIED  . . . . . . . .    95.48           33.3     6   100.0     6     ARMSSC3 
     CORE  . . . . . . . . .    89.52           36.4    22   100.0    22     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    77.05           30.8    13   100.0    13     ARMSSC4 
     WELL ORDERED  . . . . .    59.13           66.7     3   100.0     3     ARMSSC4 
     NO INTER CONTACTS . . .    71.64           42.9     7   100.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .    77.05           30.8    13   100.0    13     ARMSSC4 
     CHANGED ANGLES  . . . .    73.33           33.3    12   100.0    12     ARMSSC4 
     SHIFTED CHAIN . . . . .    70.09           36.4    11   100.0    11     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .    77.81           28.6     7   100.0     7     ARMSSC4 
     LARGE SHIFTS/INSERTIONS    41.52           50.0     4   100.0     4     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    77.87           27.3    11   100.0    11     ARMSSC4 
     BURIED  . . . . . . . .    72.40           50.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    88.37           22.2     9   100.0     9     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =   0.72621     r(1,2) =   0.65029     r(1,3) =  -0.22301 
 r(2,1) =   0.64316     r(2,2) =  -0.52809     r(2,3) =   0.55449 
 r(3,1) =   0.24281     r(3,2) =  -0.54611     r(3,3) =  -0.80175 
THE OFFSET VECTOR: 
 v(1) = -45.65262     v(2) =   0.86543     v(3) =  26.94811 
 
 Number of iteration 27                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.54           (Number of atoms:    4) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   16.53        116   100.0   116     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1425                            CRMSCA  
     WELL ORDERED  . . . . .   15.64        105   100.0   105     CRMSCA  
     NO INTER CONTACTS . . .   15.75         82   100.0    82     CRMSCA  
     SHIFTED CHAIN . . . . .   17.29         77   100.0    77     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .   14.02         59   100.0    59     CRMSCA  
     SHIFTED SS UNITS  . . .   21.34          3   100.0     3     CRMSCA  
     LARGE SHIFTS/INSERTIONS   22.53         24   100.0    24     CRMSCA  
     SURFACE . . . . . . . .   18.10         69   100.0    69     CRMSCA  
     BURIED  . . . . . . . .   13.92         47   100.0    47     CRMSCA  
     CORE  . . . . . . . . .   14.57         92   100.0    92     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   16.54        573   100.0   573     CRMSMC  
     WELL ORDERED  . . . . .   15.65        520   100.0   520     CRMSMC  
     NO INTER CONTACTS . . .   15.79        407   100.0   407     CRMSMC  
     SHIFTED CHAIN . . . . .   17.25        380   100.0   380     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .   14.08        293   100.0   293     CRMSMC  
     SHIFTED SS UNITS  . . .   21.04         15   100.0    15     CRMSMC  
     LARGE SHIFTS/INSERTIONS   22.35        118   100.0   118     CRMSMC  
     SURFACE . . . . . . . .   18.11        341   100.0   341     CRMSMC  
     BURIED  . . . . . . . .   13.91        232   100.0   232     CRMSMC  
     CORE  . . . . . . . . .   14.67        455   100.0   455     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .   17.67        459   100.0   459     CRMSSC  
     WELL ORDERED  . . . . .   16.25        340   100.0   340     CRMSSC  
     NO INTER CONTACTS . . .   16.39        319   100.0   319     CRMSSC  
     RELIABLE SIDE CHAINS  .   17.87        381   100.0   381     CRMSSC  
     CHANGED ANGLES  . . . .   18.72        248   100.0   248     CRMSSC  
     SECONDARY STRUCTURE . .   15.85        239   100.0   239     CRMSSC  
     LARGE SHIFTS/INSERTIONS   24.94         81   100.0    81     CRMSSC  
     SURFACE . . . . . . . .   19.51        270   100.0   270     CRMSSC  
     BURIED  . . . . . . . .   14.64        189   100.0   189     CRMSSC  
     CORE  . . . . . . . . .   15.68        378   100.0   378     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   17.09        923   100.0   923     CRMSALL 
     WELL ORDERED  . . . . .   15.92        764   100.0   764     CRMSALL 
     NO INTER CONTACTS . . .   16.08        647   100.0   647     CRMSALL 
     SHIFTED CHAIN . . . . .   17.90        599   100.0   599     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .   14.94        475   100.0   475     CRMSALL 
     LARGE SHIFTS/INSERTIONS   23.60        177   100.0   177     CRMSALL 
     SURFACE . . . . . . . .   18.77        546   100.0   546     CRMSALL 
     BURIED  . . . . . . . .   14.30        377   100.0   377     CRMSALL 
     CORE  . . . . . . . . .   15.14        746   100.0   746     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    15.81     15   100.0    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2    27.79      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3    33.82      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    15.74     75   100.0    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2    27.62     24   100.0    24      38-VRDGI-42   
 MC  LOOP  3    34.06     19   100.0    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    16.81    106   100.0   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2    28.58     38   100.0    38      38-VRDGI-42   
 ALL LOOP  3    33.74     33   100.0    33     115-EGRK-118  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     5.40     15   100.0    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     2.06      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3     1.82      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     5.58     75   100.0    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     2.69     24   100.0    24      38-VRDGI-42   
 MC  LOOP  3     2.50     19   100.0    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     6.20    106   100.0   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     4.40     38   100.0    38      38-VRDGI-42   
 ALL LOOP  3     4.22     33   100.0    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 . . . . . . . . . .   14.301      0.898       0.449    116   100.0   116     ERRCA  
     WELL ORDERED  . . . . .   13.495      0.894       0.447    105   100.0   105     ERRCA  
     NO INTER CONTACTS . . .   13.506      0.889       0.444     82   100.0    82     ERRCA  
     SHIFTED CHAIN . . . . .   14.901      0.906       0.453     77   100.0    77     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .   11.784      0.876       0.438     59   100.0    59     ERRCA  
     LARGE SHIFTS/INSERTIONS   20.394      0.942       0.471     24   100.0    24     ERRCA  
     SURFACE . . . . . . . .   15.987      0.908       0.454     69   100.0    69     ERRCA  
     BURIED  . . . . . . . .   11.826      0.883       0.441     47   100.0    47     ERRCA  
     CORE  . . . . . . . . .   12.712      0.886       0.443     92   100.0    92     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   14.317      0.900       0.450    573   100.0   573     ERRMC  
     WELL ORDERED  . . . . .   13.527      0.897       0.448    520   100.0   520     ERRMC  
     NO INTER CONTACTS . . .   13.573      0.894       0.447    407   100.0   407     ERRMC  
     SHIFTED CHAIN . . . . .   14.872      0.906       0.453    380   100.0   380     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .   11.846      0.882       0.441    293   100.0   293     ERRMC  
     LARGE SHIFTS/INSERTIONS   20.187      0.941       0.471    118   100.0   118     ERRMC  
     SURFACE . . . . . . . .   15.993      0.911       0.456    341   100.0   341     ERRMC  
     BURIED  . . . . . . . .   11.854      0.884       0.442    232   100.0   232     ERRMC  
     CORE  . . . . . . . . .   12.795      0.890       0.445    455   100.0   455     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   15.574      0.910       0.455    459   100.0   459     ERRSC  
     WELL ORDERED  . . . . .   14.395      0.907       0.454    340   100.0   340     ERRSC  
     NO INTER CONTACTS . . .   14.402      0.902       0.451    319   100.0   319     ERRSC  
     RELIABLE SIDE CHAINS  .   15.756      0.913       0.456    381   100.0   381     ERRSC  
     CHANGED ANGLES  . . . .   16.523      0.912       0.456    248   100.0   248     ERRSC  
     SHIFTED CHAIN . . . . .   16.255      0.908       0.454    291   100.0   291     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRSC  
     SECONDARY STRUCTURE . .   13.640      0.897       0.449    239   100.0   239     ERRSC  
     LARGE SHIFTS/INSERTIONS   22.961      0.946       0.473     81   100.0    81     ERRSC  
     SURFACE . . . . . . . .   17.346      0.915       0.458    270   100.0   270     ERRSC  
     BURIED  . . . . . . . .   13.043      0.902       0.451    189   100.0   189     ERRSC  
     CORE  . . . . . . . . .   13.991      0.902       0.451    378   100.0   378     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   14.899      0.904       0.452    923   100.0   923     ERRALL 
     WELL ORDERED  . . . . .   13.898      0.900       0.450    764   100.0   764     ERRALL 
     NO INTER CONTACTS . . .   13.956      0.897       0.448    647   100.0   647     ERRALL 
     SHIFTED CHAIN . . . . .   15.506      0.906       0.453    599   100.0   599     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .   12.686      0.888       0.444    475   100.0   475     ERRALL 
     LARGE SHIFTS/INSERTIONS   21.466      0.943       0.472    177   100.0   177     ERRALL 
     SURFACE . . . . . . . .   16.612      0.912       0.456    546   100.0   546     ERRALL 
     BURIED  . . . . . . . .   12.418      0.892       0.446    377   100.0   377     ERRALL 
     CORE  . . . . . . . . .   13.341      0.895       0.447    746   100.0   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         3         4         9        29     116     116   DISTCA 
CA  (P)      0.86      2.59      3.45      7.76     25.00             116   DISTCA 
CA  (RMS)    0.97      1.13      1.54      3.50      7.17                   DISTCA 
 
ALL (N)         4        10        26        56       207     923     923   DISTALL 
ALL (P)      0.43      1.08      2.82      6.07     22.43             923   DISTALL 
ALL (RMS)    0.81      1.36      2.09      3.40      7.20                   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            92            24          RMSLSI 
CA  (P)       79.31         79.31         20.69          RMSLSI 
CA  (RMS)      1.19         14.57         22.53          RMSLSI 
 
 
 
END of the results output 
