 
####################################################### 
#                                                     # 
#                        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/T0064.inter 
CONANA-PAIR            ../CONANA/T0064.pair 
# 
NUMBER-OF-PARENTS      2 
ALIGNMENT-DALI(1)      ../PARENTS/casp3.T0064.1r69.rot 
ALIGNMENT-DALI(2)      ../PARENTS/casp3.T0064.2cro.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 845 atoms, MODEL 552 atoms, 513 common with TARGET 
           Number of atoms possible to evaluate: 513 
 
 
 CA-RMS TARGET<->PARENT(1r69)	 1.473148 
 
 CA-RMS TARGET<->PARENT(2cro)	 1.394009 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    58.30           73.2   194    96.5   201     ARMSMC  
     WELL ORDERED  . . . . .    51.80           77.6   161   100.0   161     ARMSMC  
     NO INTER CONTACTS . . .    50.25           80.0   100    95.2   105     ARMSMC  
     SHIFTED CHAIN . . . . .    58.56           73.1   134    95.0   141     ARMSMC  
     ALTERNATIVE PARENT  . .   117.92           25.0     4   100.0     4     ARMSMC  
     SECONDARY STRUCTURE . .    27.06           91.7   121    95.3   127     ARMSMC  
     LARGE SHIFTS/INSERTIONS    57.33           74.4    82    92.1    89     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    60.33           72.2   144    95.4   151     ARMSMC  
     BURIED  . . . . . . . .    51.99           76.0    50   100.0    50     ARMSMC  
     CORE  . . . . . . . . .    59.00           72.3   112   100.0   112     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     2.44          100.0     1     1.1    91     ARMSSC1 
     WELL ORDERED  . . . . .     2.44          100.0     1     1.9    54     ARMSSC1 
     NO INTER CONTACTS . . .     2.44          100.0     1     2.2    45     ARMSSC1 
     RELIABLE SIDE CHAINS  .     2.44          100.0     1     1.2    84     ARMSSC1 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    66     ARMSSC1 
     SHIFTED CHAIN . . . . .     2.44          100.0     1     1.6    64     ARMSSC1 
     ALTERNATIVE PARENT  . .     2.44          100.0     1    50.0     2     ARMSSC1 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    57     ARMSSC1 
     LARGE SHIFTS/INSERTIONS     2.44          100.0     1     2.4    42     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    69     ARMSSC1 
     BURIED  . . . . . . . .     2.44          100.0     1     4.5    22     ARMSSC1 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    49     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     7.39          100.0     1     1.6    64     ARMSSC2 
     WELL ORDERED  . . . . .     7.39          100.0     1     3.6    28     ARMSSC2 
     NO INTER CONTACTS . . .     7.39          100.0     1     3.0    33     ARMSSC2 
     RELIABLE SIDE CHAINS  .     7.39          100.0     1     2.0    49     ARMSSC2 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    47     ARMSSC2 
     SHIFTED CHAIN . . . . .     7.39          100.0     1     2.3    44     ARMSSC2 
     ALTERNATIVE PARENT  . .     7.39          100.0     1   100.0     1     ARMSSC2 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    42     ARMSSC2 
     LARGE SHIFTS/INSERTIONS     7.39          100.0     1     3.6    28     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    49     ARMSSC2 
     BURIED  . . . . . . . .     7.39          100.0     1     6.7    15     ARMSSC2 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    36     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    31     ARMSSC3 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0    10     ARMSSC3 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0    15     ARMSSC3 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    26     ARMSSC3 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    24     ARMSSC3 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0    20     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0    23     ARMSSC3 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0    14     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    28     ARMSSC3 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     3     ARMSSC3 
     CORE  . . . . . . . . .     0.00            0.0     0     0.0    17     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .     0.00            0.0     0     0.0    12     ARMSSC4 
     WELL ORDERED  . . . . .     0.00            0.0     0     0.0     3     ARMSSC4 
     NO INTER CONTACTS . . .     0.00            0.0     0     0.0     6     ARMSSC4 
     RELIABLE SIDE CHAINS  .     0.00            0.0     0     0.0    12     ARMSSC4 
     CHANGED ANGLES  . . . .     0.00            0.0     0     0.0    11     ARMSSC4 
     SHIFTED CHAIN . . . . .     0.00            0.0     0     0.0     6     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .     0.00            0.0     0     0.0     9     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     3     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .     0.00            0.0     0     0.0    10     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) =  -0.41264     r(1,2) =  -0.07508     r(1,3) =  -0.90780 
 r(2,1) =  -0.31051     r(2,2) =   0.94850     r(2,3) =   0.06269 
 r(3,1) =   0.85634     r(3,2) =   0.30775     r(3,3) =  -0.41470 
THE OFFSET VECTOR: 
 v(1) = 101.98929     v(2) = 165.99809     v(3) = -99.74603 
 
 Number of iteration 27                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.47           (Number of atoms:    8) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .   26.16        103   100.0   103     CRMSCA  
     CRN = ALL/NP  . . . . .    0.2540                            CRMSCA  
     WELL ORDERED  . . . . .   23.67         85   100.0    85     CRMSCA  
     NO INTER CONTACTS . . .   26.73         54   100.0    54     CRMSCA  
     SHIFTED CHAIN . . . . .   29.90         73   100.0    73     CRMSCA  
     ALTERNATIVE PARENT  . .   33.70          2   100.0     2     CRMSCA  
     SECONDARY STRUCTURE . .   27.94         65   100.0    65     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS   34.96         47   100.0    47     CRMSCA  
     SURFACE . . . . . . . .   28.57         78   100.0    78     CRMSCA  
     BURIED  . . . . . . . .   16.48         25   100.0    25     CRMSCA  
     CORE  . . . . . . . . .   15.25         56   100.0    56     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .   26.40        511   100.0   511     CRMSMC  
     WELL ORDERED  . . . . .   23.98        420   100.0   420     CRMSMC  
     NO INTER CONTACTS . . .   26.93        267   100.0   267     CRMSMC  
     SHIFTED CHAIN . . . . .   30.12        363   100.0   363     CRMSMC  
     ALTERNATIVE PARENT  . .   33.21         10   100.0    10     CRMSMC  
     SECONDARY STRUCTURE . .   28.21        324   100.0   324     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS   35.23        234   100.0   234     CRMSMC  
     SURFACE . . . . . . . .   28.86        387   100.0   387     CRMSMC  
     BURIED  . . . . . . . .   16.53        124   100.0   124     CRMSMC  
     CORE  . . . . . . . . .   15.42        277   100.0   277     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .   26.46        101    23.3   433     CRMSSC  
     WELL ORDERED  . . . . .   24.02         77    31.0   248     CRMSSC  
     NO INTER CONTACTS . . .   27.30         53    25.2   210     CRMSSC  
     RELIABLE SIDE CHAINS  .   26.46        101    27.2   371     CRMSSC  
     CHANGED ANGLES  . . . .    0.00          0     0.0   281     CRMSSC  
     SECONDARY STRUCTURE . .   27.70         64    21.5   297     CRMSSC  
     LARGE SHIFTS/INSERTIONS   34.59         48    22.5   213     CRMSSC  
     SURFACE . . . . . . . .   28.71         75    21.8   344     CRMSSC  
     BURIED  . . . . . . . .   18.51         26    29.2    89     CRMSSC  
     CORE  . . . . . . . . .   15.85         53    24.1   220     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .   26.43        513    60.7   845     CRMSALL 
     WELL ORDERED  . . . . .   24.03        422    71.2   593     CRMSALL 
     NO INTER CONTACTS . . .   26.98        269    63.1   426     CRMSALL 
     SHIFTED CHAIN . . . . .   30.13        365    60.7   601     CRMSALL 
     ALTERNATIVE PARENT  . .   33.08         12    85.7    14     CRMSALL 
     SECONDARY STRUCTURE . .   28.21        324    58.2   557     CRMSALL 
     LARGE SHIFTS/INSERTIONS   35.21        236    58.9   401     CRMSALL 
     SURFACE . . . . . . . .   28.86        387    59.0   656     CRMSALL 
     BURIED  . . . . . . . .   16.90        126    66.7   189     CRMSALL 
     CORE  . . . . . . . . .   15.42        277    62.4   444     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    27.92      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2    36.03     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    27.42     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2    36.42    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    27.76     32    71.1    45      40-TNPSIQ-45   
 ALL LOOP  2    36.42    199    57.2   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.09      6   100.0     6      40-TNPSIQ-45   
 CA  LOOP  2     8.91     40   100.0    40      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     3.32     30   100.0    30      40-TNPSIQ-45   
 MC  LOOP  2     8.94    199   100.0   199      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     3.35     32    71.1    45      40-TNPSIQ-45   
 ALL LOOP  2     8.94    199    57.2   348      64-EKHETLDSEWEKLVRDAMTSGVSKKQFREFLDYQKWRKSQ-108  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   20.574      1.000       0.500    103   100.0   103     ERRCA  
     WELL ORDERED  . . . . .   18.846      1.000       0.500     85   100.0    85     ERRCA  
     NO INTER CONTACTS . . .   20.758      1.000       0.500     54   100.0    54     ERRCA  
     SHIFTED CHAIN . . . . .   24.872      1.000       0.500     73   100.0    73     ERRCA  
     ALTERNATIVE PARENT  . .   33.401      1.000       0.500      2   100.0     2     ERRCA  
     SECONDARY STRUCTURE . .   22.507      1.000       0.500     65   100.0    65     ERRCA  
     LARGE SHIFTS/INSERTIONS   31.302      1.000       0.500     47   100.0    47     ERRCA  
     SURFACE . . . . . . . .   22.804      1.000       0.500     78   100.0    78     ERRCA  
     BURIED  . . . . . . . .   13.615      1.000       0.500     25   100.0    25     ERRCA  
     CORE  . . . . . . . . .   11.570      1.000       0.500     56   100.0    56     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   20.761      1.000       0.500    511   100.0   511     ERRMC  
     WELL ORDERED  . . . . .   19.122      1.000       0.500    420   100.0   420     ERRMC  
     NO INTER CONTACTS . . .   20.830      1.000       0.500    267   100.0   267     ERRMC  
     SHIFTED CHAIN . . . . .   25.028      1.000       0.500    363   100.0   363     ERRMC  
     ALTERNATIVE PARENT  . .   32.890      1.000       0.500     10   100.0    10     ERRMC  
     SECONDARY STRUCTURE . .   22.622      1.000       0.500    324   100.0   324     ERRMC  
     LARGE SHIFTS/INSERTIONS   31.499      1.000       0.500    234   100.0   234     ERRMC  
     SURFACE . . . . . . . .   23.082      1.000       0.500    387   100.0   387     ERRMC  
     BURIED  . . . . . . . .   13.516      1.000       0.500    124   100.0   124     ERRMC  
     CORE  . . . . . . . . .   11.690      1.000       0.500    277   100.0   277     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   21.475      1.000       0.500    101    23.3   433     ERRSC  
     WELL ORDERED  . . . . .   19.928      1.000       0.500     77    31.0   248     ERRSC  
     NO INTER CONTACTS . . .   21.972      1.000       0.500     53    25.2   210     ERRSC  
     RELIABLE SIDE CHAINS  .   21.475      1.000       0.500    101    27.2   371     ERRSC  
     CHANGED ANGLES  . . . .    0.000      0.000       0.000      0     0.0   281     ERRSC  
     SHIFTED CHAIN . . . . .   25.266      1.000       0.500     73    23.6   309     ERRSC  
     ALTERNATIVE PARENT  . .   33.693      1.000       0.500      4    66.7     6     ERRSC  
     SECONDARY STRUCTURE . .   22.714      1.000       0.500     64    21.5   297     ERRSC  
     LARGE SHIFTS/INSERTIONS   31.218      1.000       0.500     48    22.5   213     ERRSC  
     SURFACE . . . . . . . .   23.465      1.000       0.500     75    21.8   344     ERRSC  
     BURIED  . . . . . . . .   15.735      1.000       0.500     26    29.2    89     ERRSC  
     CORE  . . . . . . . . .   12.652      1.000       0.500     53    24.1   220     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .   20.806      1.000       0.500    513    60.7   845     ERRALL 
     WELL ORDERED  . . . . .   19.185      1.000       0.500    422    71.2   593     ERRALL 
     NO INTER CONTACTS . . .   20.917      1.000       0.500    269    63.1   426     ERRALL 
     SHIFTED CHAIN . . . . .   25.068      1.000       0.500    365    60.7   601     ERRALL 
     ALTERNATIVE PARENT  . .   32.816      1.000       0.500     12    85.7    14     ERRALL 
     SECONDARY STRUCTURE . .   22.622      1.000       0.500    324    58.2   557     ERRALL 
     LARGE SHIFTS/INSERTIONS   31.507      1.000       0.500    236    58.9   401     ERRALL 
     SURFACE . . . . . . . .   23.082      1.000       0.500    387    59.0   656     ERRALL 
     BURIED  . . . . . . . .   13.816      1.000       0.500    126    66.7   189     ERRALL 
     CORE  . . . . . . . . .   11.690      1.000       0.500    277    62.4   444     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)         3         7         8        19        36     103     103   DISTCA 
CA  (P)      2.91      6.80      7.77     18.45     34.95             103   DISTCA 
CA  (RMS)    0.79      1.32      1.47      3.45      5.61                   DISTCA 
 
ALL (N)         3        17        41        93       177     513     845   DISTALL 
ALL (P)      0.36      2.01      4.85     11.01     20.95             845   DISTALL 
ALL (RMS)    0.79      1.50      2.14      3.44      5.57                   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)          56            56            47          RMSLSI 
CA  (P)       54.37         54.37         45.63          RMSLSI 
CA  (RMS)      1.04         15.25         34.96          RMSLSI 
 
 
 
END of the results output 
