 
####################################################### 
#                                                     # 
#                        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/T0009.inter 
# 
NUMBER-OF-PARENTS      1 
ALIGNMENT-DALI(1)      ../PARENTS/casp2.T0009.2cbp.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) 
 
           TARGET 837 atoms, MODEL 837 atoms, 837 common with TARGET 
           Number of atoms possible to evaluate: 837 
 
 
 CA-RMS TARGET<->PARENT(2cbp)	 1.470937 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    63.90           68.7   214   100.0   214     ARMSMC  
     WELL ORDERED  . . . . .    50.93           76.8   181   100.0   181     ARMSMC  
     NO INTER CONTACTS . . .    59.71           71.3   164   100.0   164     ARMSMC  
     SHIFTED CHAIN . . . . .    86.16           50.0   110   100.0   110     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    45.12           76.2    80   100.0    80     ARMSMC  
     LARGE SHIFTS/INSERTIONS   103.15           30.4    46   100.0    46     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    75.21           58.3   132   100.0   132     ARMSMC  
     BURIED  . . . . . . . .    39.38           85.4    82   100.0    82     ARMSMC  
     CORE  . . . . . . . . .    47.84           79.2   168   100.0   168     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    65.05           61.7    94   100.0    94     ARMSSC1 
     WELL ORDERED  . . . . .    63.02           73.0    63   100.0    63     ARMSSC1 
     NO INTER CONTACTS . . .    59.33           65.3    75   100.0    75     ARMSSC1 
     RELIABLE SIDE CHAINS  .    63.04           63.4    82   100.0    82     ARMSSC1 
     CHANGED ANGLES  . . . .    71.42           46.8    47   100.0    47     ARMSSC1 
     SHIFTED CHAIN . . . . .    72.24           46.8    47   100.0    47     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SECONDARY STRUCTURE . .    62.96           69.4    36   100.0    36     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    65.53           42.9    21   100.0    21     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    73.02           51.7    58   100.0    58     ARMSSC1 
     BURIED  . . . . . . . .    49.59           77.8    36   100.0    36     ARMSSC1 
     CORE  . . . . . . . . .    64.91           67.1    73   100.0    73     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    80.17           49.2    61   100.0    61     ARMSSC2 
     WELL ORDERED  . . . . .    67.82           66.7    33   100.0    33     ARMSSC2 
     NO INTER CONTACTS . . .    74.43           51.0    51   100.0    51     ARMSSC2 
     RELIABLE SIDE CHAINS  .    61.20           57.1    42   100.0    42     ARMSSC2 
     CHANGED ANGLES  . . . .    92.22           35.0    40   100.0    40     ARMSSC2 
     SHIFTED CHAIN . . . . .    72.34           48.1    27   100.0    27     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SECONDARY STRUCTURE . .    81.44           51.9    27   100.0    27     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    79.01           38.5    13   100.0    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    84.46           39.5    38   100.0    38     ARMSSC2 
     BURIED  . . . . . . . .    72.53           65.2    23   100.0    23     ARMSSC2 
     CORE  . . . . . . . . .    80.48           52.1    48   100.0    48     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    62.44           44.4    18   100.0    18     ARMSSC3 
     WELL ORDERED  . . . . .    68.80           33.3     3   100.0     3     ARMSSC3 
     NO INTER CONTACTS . . .    58.08           47.1    17   100.0    17     ARMSSC3 
     RELIABLE SIDE CHAINS  .    59.97           53.8    13   100.0    13     ARMSSC3 
     CHANGED ANGLES  . . . .    64.20           41.2    17   100.0    17     ARMSSC3 
     SHIFTED CHAIN . . . . .    63.96           40.0    10   100.0    10     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    65.87           50.0    10   100.0    10     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    54.91           25.0     4   100.0     4     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    65.33           43.8    16   100.0    16     ARMSSC3 
     BURIED  . . . . . . . .    30.66           50.0     2   100.0     2     ARMSSC3 
     CORE  . . . . . . . . .    64.43           50.0    14   100.0    14     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    81.21           50.0     6   100.0     6     ARMSSC4 
     WELL ORDERED  . . . . .    14.31          100.0     1   100.0     1     ARMSSC4 
     NO INTER CONTACTS . . .    88.28           40.0     5   100.0     5     ARMSSC4 
     RELIABLE SIDE CHAINS  .    81.21           50.0     6   100.0     6     ARMSSC4 
     CHANGED ANGLES  . . . .    98.44           25.0     4   100.0     4     ARMSSC4 
     SHIFTED CHAIN . . . . .    96.13           33.3     3   100.0     3     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .    98.77           33.3     3   100.0     3     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     0     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    81.21           50.0     6   100.0     6     ARMSSC4 
     BURIED  . . . . . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     CORE  . . . . . . . . .    81.21           50.0     6   100.0     6     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =   0.55010     r(1,2) =   0.83358     r(1,3) =   0.05031 
 r(2,1) =   0.03893     r(2,2) =   0.03458     r(2,3) =  -0.99864 
 r(3,1) =  -0.83419     r(3,2) =   0.55131     r(3,3) =  -0.01343 
THE OFFSET VECTOR: 
 v(1) =   6.81500     v(2) =  34.88947     v(3) =  43.42666 
 
 Number of iteration 27                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   0.90           (Number of atoms:   77) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.92        108   100.0   108     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0270                            CRMSCA  
     WELL ORDERED  . . . . .    2.24         91   100.0    91     CRMSCA  
     NO INTER CONTACTS . . .    2.99         83   100.0    83     CRMSCA  
     SHIFTED CHAIN . . . . .    3.76         56   100.0    56     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .    2.51         40   100.0    40     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS    5.26         24   100.0    24     CRMSCA  
     SURFACE . . . . . . . .    3.41         67   100.0    67     CRMSCA  
     BURIED  . . . . . . . .    1.84         41   100.0    41     CRMSCA  
     CORE  . . . . . . . . .    1.75         84   100.0    84     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    3.10        533   100.0   533     CRMSMC  
     WELL ORDERED  . . . . .    2.37        439   100.0   439     CRMSMC  
     NO INTER CONTACTS . . .    3.14        410   100.0   410     CRMSMC  
     SHIFTED CHAIN . . . . .    3.97        276   100.0   276     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .    2.65        199   100.0   199     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS    5.49        120   100.0   120     CRMSMC  
     SURFACE . . . . . . . .    3.61        332   100.0   332     CRMSMC  
     BURIED  . . . . . . . .    1.98        201   100.0   201     CRMSMC  
     CORE  . . . . . . . . .    1.91        413   100.0   413     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    5.31        405   100.0   405     CRMSSC  
     WELL ORDERED  . . . . .    4.50        274   100.0   274     CRMSSC  
     NO INTER CONTACTS . . .    5.52        327   100.0   327     CRMSSC  
     RELIABLE SIDE CHAINS  .    5.40        323   100.0   323     CRMSSC  
     CHANGED ANGLES  . . . .    7.04        184   100.0   184     CRMSSC  
     SECONDARY STRUCTURE . .    5.43        176   100.0   176     CRMSSC  
     LARGE SHIFTS/INSERTIONS    8.97         83   100.0    83     CRMSSC  
     SURFACE . . . . . . . .    6.18        234   100.0   234     CRMSSC  
     BURIED  . . . . . . . .    3.82        171   100.0   171     CRMSSC  
     CORE  . . . . . . . . .    3.84        322   100.0   322     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    4.23        837   100.0   837     CRMSALL 
     WELL ORDERED  . . . . .    3.40        635   100.0   635     CRMSALL 
     NO INTER CONTACTS . . .    4.40        659   100.0   659     CRMSALL 
     SHIFTED CHAIN . . . . .    5.42        417   100.0   417     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .    4.29        336   100.0   336     CRMSALL 
     LARGE SHIFTS/INSERTIONS    7.18        179   100.0   179     CRMSALL 
     SURFACE . . . . . . . .    4.88        502   100.0   502     CRMSALL 
     BURIED  . . . . . . . .    3.00        335   100.0   335     CRMSALL 
     CORE  . . . . . . . . .    2.96        658   100.0   658     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     5.69      8   100.0     8      16-PSSPNFYS-23   
 CA  LOOP  2     5.53      8   100.0     8      63-VNSDNDVE-70   
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     5.87     40   100.0    40      16-PSSPNFYS-23   
 MC  LOOP  2     5.74     40   100.0    40      63-VNSDNDVE-70   
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     8.85     63   100.0    63      16-PSSPNFYS-23   
 ALL LOOP  2     6.33     61   100.0    61      63-VNSDNDVE-70   
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     3.59      8   100.0     8      16-PSSPNFYS-23   
 CA  LOOP  2     2.76      8   100.0     8      63-VNSDNDVE-70   
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     4.09     40   100.0    40      16-PSSPNFYS-23   
 MC  LOOP  2     3.16     40   100.0    40      63-VNSDNDVE-70   
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     6.59     63   100.0    63      16-PSSPNFYS-23   
 ALL LOOP  2     3.99     61   100.0    61      63-VNSDNDVE-70   
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.730      0.457       0.465    108   100.0   108     ERRCA  
     WELL ORDERED  . . . . .    1.575      0.486       0.514     91   100.0    91     ERRCA  
     NO INTER CONTACTS . . .    1.754      0.465       0.471     83   100.0    83     ERRCA  
     SHIFTED CHAIN . . . . .    1.850      0.328       0.307     56   100.0    56     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .    1.646      0.501       0.520     40   100.0    40     ERRCA  
     LARGE SHIFTS/INSERTIONS    2.490      0.311       0.233     24   100.0    24     ERRCA  
     SURFACE . . . . . . . .    1.744      0.380       0.375     67   100.0    67     ERRCA  
     BURIED  . . . . . . . .    1.708      0.585       0.612     41   100.0    41     ERRCA  
     CORE  . . . . . . . . .    1.514      0.499       0.531     84   100.0    84     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.758      0.446       0.454    533   100.0   533     ERRMC  
     WELL ORDERED  . . . . .    1.562      0.473       0.505    439   100.0   439     ERRMC  
     NO INTER CONTACTS . . .    1.767      0.454       0.463    410   100.0   410     ERRMC  
     SHIFTED CHAIN . . . . .    1.935      0.335       0.313    276   100.0   276     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .    1.615      0.484       0.507    199   100.0   199     ERRMC  
     LARGE SHIFTS/INSERTIONS    2.500      0.294       0.208    120   100.0   120     ERRMC  
     SURFACE . . . . . . . .    1.816      0.377       0.368    332   100.0   332     ERRMC  
     BURIED  . . . . . . . .    1.663      0.560       0.595    201   100.0   201     ERRMC  
     CORE  . . . . . . . . .    1.542      0.490       0.525    413   100.0   413     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.475      0.421       0.376    405   100.0   405     ERRSC  
     WELL ORDERED  . . . . .    2.109      0.459       0.455    274   100.0   274     ERRSC  
     NO INTER CONTACTS . . .    2.515      0.420       0.381    327   100.0   327     ERRSC  
     RELIABLE SIDE CHAINS  .    2.531      0.430       0.392    323   100.0   323     ERRSC  
     CHANGED ANGLES  . . . .    3.317      0.357       0.243    184   100.0   184     ERRSC  
     SHIFTED CHAIN . . . . .    3.191      0.346       0.247    193   100.0   193     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRSC  
     SECONDARY STRUCTURE . .    2.349      0.395       0.371    176   100.0   176     ERRSC  
     LARGE SHIFTS/INSERTIONS    4.595      0.369       0.205     83   100.0    83     ERRSC  
     SURFACE . . . . . . . .    2.851      0.355       0.270    234   100.0   234     ERRSC  
     BURIED  . . . . . . . .    1.962      0.510       0.521    171   100.0   171     ERRSC  
     CORE  . . . . . . . . .    1.929      0.434       0.420    322   100.0   322     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.078      0.435       0.419    837   100.0   837     ERRALL 
     WELL ORDERED  . . . . .    1.779      0.467       0.484    635   100.0   635     ERRALL 
     NO INTER CONTACTS . . .    2.117      0.440       0.426    659   100.0   659     ERRALL 
     SHIFTED CHAIN . . . . .    2.482      0.343       0.289    417   100.0   417     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .    1.987      0.442       0.441    336   100.0   336     ERRALL 
     LARGE SHIFTS/INSERTIONS    3.406      0.329       0.210    179   100.0   179     ERRALL 
     SURFACE . . . . . . . .    2.267      0.369       0.326    502   100.0   502     ERRALL 
     BURIED  . . . . . . . .    1.795      0.535       0.559    335   100.0   335     ERRALL 
     CORE  . . . . . . . . .    1.717      0.464       0.476    658   100.0   658     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)        56        75        81        97       107     108     108   DISTCA 
CA  (P)     51.85     69.44     75.00     89.81     99.07             108   DISTCA 
CA  (RMS)    0.54      0.84      1.09      1.93      2.75                   DISTCA 
 
ALL (N)       374       501       561       676       803     837     837   DISTALL 
ALL (P)     44.68     59.86     67.03     80.76     95.94             837   DISTALL 
ALL (RMS)    0.57      0.85      1.14      1.93      3.36                   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)          84            84            24          RMSLSI 
CA  (P)       77.78         77.78         22.22          RMSLSI 
CA  (RMS)      1.02          1.75          5.26          RMSLSI 
 
 
 
END of the results output 
