 
####################################################### 
#                                                     # 
#                        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 483 atoms, 475 common with TARGET 
           Number of atoms possible to evaluate: 452 
 
 
 CA-RMS TARGET<->PARENT(1dcp-E)	 1.412918 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    92.92           41.4   220    95.7   230     ARMSMC  
     WELL ORDERED  . . . . .    93.12           40.1   197    95.2   207     ARMSMC  
     NO INTER CONTACTS . . .    90.84           47.5   158    96.3   164     ARMSMC  
     SHIFTED CHAIN . . . . .    93.20           44.7   150    98.7   152     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    80.77           54.1   109    92.4   118     ARMSMC  
     LARGE SHIFTS/INSERTIONS   100.98           34.8    46   100.0    46     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    93.12           39.2   130    95.6   136     ARMSMC  
     BURIED  . . . . . . . .    92.64           44.4    90    95.7    94     ARMSMC  
     CORE  . . . . . . . . .    90.68           43.1   174    94.6   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) =   0.83117     r(1,2) =   0.33530     r(1,3) =   0.44355 
 r(2,1) =  -0.55602     r(2,2) =   0.50027     r(2,3) =   0.66375 
 r(3,1) =   0.00066     r(3,2) =  -0.79831     r(3,3) =   0.60224 
THE OFFSET VECTOR: 
 v(1) = -62.30886     v(2) =  22.92122     v(3) =  44.55643 
 
 Number of iteration 24                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.45           (Number of atoms:    9) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   21.74        113    97.4   116     CRMSCA  
     CRN = ALL/NP  . . . . .    0.1924                            CRMSCA  
     WELL ORDERED  . . . . .   20.61        102    97.1   105     CRMSCA  
     NO INTER CONTACTS . . .   22.22         80    97.6    82     CRMSCA  
     SHIFTED CHAIN . . . . .   22.42         77   100.0    77     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .   21.17         56    94.9    59     CRMSCA  
     SHIFTED SS UNITS  . . .   23.18          3   100.0     3     CRMSCA  
     LARGE SHIFTS/INSERTIONS   23.04         24   100.0    24     CRMSCA  
     SURFACE . . . . . . . .   21.91         67    97.1    69     CRMSCA  
     BURIED  . . . . . . . .   21.48         46    97.9    47     CRMSCA  
     CORE  . . . . . . . . .   21.37         89    96.7    92     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   21.72        452    78.9   573     CRMSMC  
     WELL ORDERED  . . . . .   20.66        412    79.2   520     CRMSMC  
     NO INTER CONTACTS . . .   22.13        320    78.6   407     CRMSMC  
     SHIFTED CHAIN . . . . .   22.43        308    81.1   380     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .   21.25        224    76.5   293     CRMSMC  
     SHIFTED SS UNITS  . . .   23.12         12    80.0    15     CRMSMC  
     LARGE SHIFTS/INSERTIONS   22.93         96    81.4   118     CRMSMC  
     SURFACE . . . . . . . .   21.98        268    78.6   341     CRMSMC  
     BURIED  . . . . . . . .   21.34        184    79.3   232     CRMSMC  
     CORE  . . . . . . . . .   21.39        356    78.2   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 . . . . . . . . . .   21.72        452    49.0   923     CRMSALL 
     WELL ORDERED  . . . . .   20.66        412    53.9   764     CRMSALL 
     NO INTER CONTACTS . . .   22.13        320    49.5   647     CRMSALL 
     SHIFTED CHAIN . . . . .   22.43        308    51.4   599     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .   21.25        224    47.2   475     CRMSALL 
     LARGE SHIFTS/INSERTIONS   22.93         96    54.2   177     CRMSALL 
     SURFACE . . . . . . . .   21.98        268    49.1   546     CRMSALL 
     BURIED  . . . . . . . .   21.34        184    48.8   377     CRMSALL 
     CORE  . . . . . . . . .   21.39        356    47.7   746     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    18.38     15   100.0    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2    29.27      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3    29.09      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    18.40     60    80.0    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2    29.21     20    83.3    24      38-VRDGI-42   
 MC  LOOP  3    28.60     16    84.2    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    18.40     60    56.6   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2    29.21     20    52.6    38      38-VRDGI-42   
 ALL LOOP  3    28.60     16    48.5    33     115-EGRK-118  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     5.11     15   100.0    15       3-ALTQAHCEACRADAP-17   
 CA  LOOP  2     2.01      5   100.0     5      38-VRDGI-42   
 CA  LOOP  3     2.20      4   100.0     4     115-EGRK-118  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     4.99     60    80.0    75       3-ALTQAHCEACRADAP-17   
 MC  LOOP  2     2.51     20    83.3    24      38-VRDGI-42   
 MC  LOOP  3     2.48     16    84.2    19     115-EGRK-118  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     4.99     60    56.6   106       3-ALTQAHCEACRADAP-17   
 ALL LOOP  2     2.51     20    52.6    38      38-VRDGI-42   
 ALL LOOP  3     2.48     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 . . . . . . . . . .   19.093      1.000       0.500    113    97.4   116     ERRCA  
     WELL ORDERED  . . . . .   17.926      1.000       0.500    102    97.1   105     ERRCA  
     NO INTER CONTACTS . . .   19.717      1.000       0.500     80    97.6    82     ERRCA  
     SHIFTED CHAIN . . . . .   20.022      1.000       0.500     77   100.0    77     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .   18.070      1.000       0.500     56    94.9    59     ERRCA  
     LARGE SHIFTS/INSERTIONS   22.071      1.000       0.500     24   100.0    24     ERRCA  
     SURFACE . . . . . . . .   19.239      1.000       0.500     67    97.1    69     ERRCA  
     BURIED  . . . . . . . .   18.881      1.000       0.500     46    97.9    47     ERRCA  
     CORE  . . . . . . . . .   18.290      1.000       0.500     89    96.7    92     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   19.071      1.000       0.500    452    78.9   573     ERRMC  
     WELL ORDERED  . . . . .   17.980      1.000       0.500    412    79.2   520     ERRMC  
     NO INTER CONTACTS . . .   19.620      1.000       0.500    320    78.6   407     ERRMC  
     SHIFTED CHAIN . . . . .   19.989      1.000       0.500    308    81.1   380     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .   18.075      1.000       0.500    224    76.5   293     ERRMC  
     LARGE SHIFTS/INSERTIONS   22.006      1.000       0.500     96    81.4   118     ERRMC  
     SURFACE . . . . . . . .   19.289      1.000       0.500    268    78.6   341     ERRMC  
     BURIED  . . . . . . . .   18.753      1.000       0.500    184    79.3   232     ERRMC  
     CORE  . . . . . . . . .   18.280      1.000       0.500    356    78.2   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 . . . . . . . . . .   19.071      1.000       0.500    452    49.0   923     ERRALL 
     WELL ORDERED  . . . . .   17.980      1.000       0.500    412    53.9   764     ERRALL 
     NO INTER CONTACTS . . .   19.620      1.000       0.500    320    49.5   647     ERRALL 
     SHIFTED CHAIN . . . . .   19.989      1.000       0.500    308    51.4   599     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .   18.075      1.000       0.500    224    47.2   475     ERRALL 
     LARGE SHIFTS/INSERTIONS   22.006      1.000       0.500     96    54.2   177     ERRALL 
     SURFACE . . . . . . . .   19.289      1.000       0.500    268    49.1   546     ERRALL 
     BURIED  . . . . . . . .   18.753      1.000       0.500    184    48.8   377     ERRALL 
     CORE  . . . . . . . . .   18.280      1.000       0.500    356    47.7   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         7         9        13        29     113     116   DISTCA 
CA  (P)      0.86      6.03      7.76     11.21     25.00             116   DISTCA 
CA  (RMS)    0.93      1.24      1.45      2.59      6.05                   DISTCA 
 
ALL (N)         7        26        36        57       111     452     923   DISTALL 
ALL (P)      0.76      2.82      3.90      6.18     12.03             923   DISTALL 
ALL (RMS)    0.80      1.20      1.65      2.74      5.73                   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            89            24          RMSLSI 
CA  (P)       79.31         76.72         20.69          RMSLSI 
CA  (RMS)      1.19         21.37         23.04          RMSLSI 
 
 
 
END of the results output 
