 
####################################################### 
#                                                     # 
#                        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/T0024.inter 
# 
NUMBER-OF-PARENTS      2 
ALIGNMENT-DALI(1)      ../PARENTS/casp2.T0024.2aak.rot 
ALIGNMENT-DALI(2)      ../PARENTS/casp2.T0024.2uce.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 1282 atoms, MODEL 1608 atoms, 1282 common with TARGET 
           Number of atoms possible to evaluate: 1282 
 
 
 CA-RMS TARGET<->PARENT(2aak)	 1.357235 
 
 CA-RMS TARGET<->PARENT(2uce)	 1.386553 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    60.55           53.1   318   100.0   318     ARMSMC  
     WELL ORDERED  . . . . .    58.58           53.9   304   100.0   304     ARMSMC  
     NO INTER CONTACTS . . .    57.26           52.0   125   100.0   125     ARMSMC  
     SHIFTED CHAIN . . . . .    68.36           50.7   140   100.0   140     ARMSMC  
     ALTERNATIVE PARENT  . .    86.79           50.0    12   100.0    12     ARMSMC  
     SECONDARY STRUCTURE . .    52.60           58.5   164   100.0   164     ARMSMC  
     LARGE SHIFTS/INSERTIONS    99.54           33.3    36   100.0    36     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    64.87           54.7   181   100.0   181     ARMSMC  
     BURIED  . . . . . . . .    54.32           51.1   137   100.0   137     ARMSMC  
     CORE  . . . . . . . . .    53.57           55.7   282   100.0   282     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    73.50           36.7   139   100.0   139     ARMSSC1 
     WELL ORDERED  . . . . .    70.68           35.6   101   100.0   101     ARMSSC1 
     NO INTER CONTACTS . . .    68.35           39.2    51   100.0    51     ARMSSC1 
     RELIABLE SIDE CHAINS  .    74.24           35.3   133   100.0   133     ARMSSC1 
     CHANGED ANGLES  . . . .    79.61           33.8    74   100.0    74     ARMSSC1 
     SHIFTED CHAIN . . . . .    70.47           40.3    62   100.0    62     ARMSSC1 
     ALTERNATIVE PARENT  . .    47.61           66.7     6   100.0     6     ARMSSC1 
     SECONDARY STRUCTURE . .    73.03           39.4    71   100.0    71     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    78.37           37.5    16   100.0    16     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    79.11           36.2    80   100.0    80     ARMSSC1 
     BURIED  . . . . . . . .    65.12           37.3    59   100.0    59     ARMSSC1 
     CORE  . . . . . . . . .    72.84           36.6   123   100.0   123     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    75.45           38.8   116   100.0   116     ARMSSC2 
     WELL ORDERED  . . . . .    68.78           36.6    71   100.0    71     ARMSSC2 
     NO INTER CONTACTS . . .    76.29           43.9    41   100.0    41     ARMSSC2 
     RELIABLE SIDE CHAINS  .    71.76           40.2    92   100.0    92     ARMSSC2 
     CHANGED ANGLES  . . . .    74.27           37.5    80   100.0    80     ARMSSC2 
     SHIFTED CHAIN . . . . .    75.95           42.3    52   100.0    52     ARMSSC2 
     ALTERNATIVE PARENT  . .    49.86           40.0     5   100.0     5     ARMSSC2 
     SECONDARY STRUCTURE . .    87.83           33.3    60   100.0    60     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    34.95           61.5    13   100.0    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    78.92           38.2    68   100.0    68     ARMSSC2 
     BURIED  . . . . . . . .    70.26           39.6    48   100.0    48     ARMSSC2 
     CORE  . . . . . . . . .    79.11           35.9   103   100.0   103     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    93.54           20.5    44   100.0    44     ARMSSC3 
     WELL ORDERED  . . . . .    83.39           30.0    10   100.0    10     ARMSSC3 
     NO INTER CONTACTS . . .   102.03           41.7    12   100.0    12     ARMSSC3 
     RELIABLE SIDE CHAINS  .    85.94           24.3    37   100.0    37     ARMSSC3 
     CHANGED ANGLES  . . . .    87.21           22.2    36   100.0    36     ARMSSC3 
     SHIFTED CHAIN . . . . .   102.21           13.0    23   100.0    23     ARMSSC3 
     ALTERNATIVE PARENT  . .    98.94            0.0     2   100.0     2     ARMSSC3 
     SECONDARY STRUCTURE . .    97.37           18.8    32   100.0    32     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    87.66            0.0     4   100.0     4     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    92.70           19.4    36   100.0    36     ARMSSC3 
     BURIED  . . . . . . . .    97.24           25.0     8   100.0     8     ARMSSC3 
     CORE  . . . . . . . . .    94.11           22.5    40   100.0    40     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .   100.88           18.2    22   100.0    22     ARMSSC4 
     WELL ORDERED  . . . . .   101.06            0.0     1   100.0     1     ARMSSC4 
     NO INTER CONTACTS . . .    91.57           28.6     7   100.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .   100.88           18.2    22   100.0    22     ARMSSC4 
     CHANGED ANGLES  . . . .    99.83           19.0    21   100.0    21     ARMSSC4 
     SHIFTED CHAIN . . . . .   103.02           30.8    13   100.0    13     ARMSSC4 
     ALTERNATIVE PARENT  . .   121.97            0.0     1   100.0     1     ARMSSC4 
     SECONDARY STRUCTURE . .   103.88           17.6    17   100.0    17     ARMSSC4 
     LARGE SHIFTS/INSERTIONS   121.97            0.0     1   100.0     1     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    99.33           20.0    20   100.0    20     ARMSSC4 
     BURIED  . . . . . . . .   115.18            0.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    99.76           19.0    21   100.0    21     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =   0.14229     r(1,2) =   0.95731     r(1,3) =  -0.25161 
 r(2,1) =  -0.22553     r(2,2) =   0.27887     r(2,3) =   0.93347 
 r(3,1) =   0.96379     r(3,2) =  -0.07608     r(3,3) =   0.25558 
THE OFFSET VECTOR: 
 v(1) =  11.88756     v(2) =  12.12620     v(3) =  15.59249 
 
 Number of iteration 43                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.58           (Number of atoms:   92) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    3.77        160   100.0   160     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0236                            CRMSCA  
     WELL ORDERED  . . . . .    3.65        156   100.0   156     CRMSCA  
     NO INTER CONTACTS . . .    2.86         63   100.0    63     CRMSCA  
     SHIFTED CHAIN . . . . .    4.81         71   100.0    71     CRMSCA  
     ALTERNATIVE PARENT  . .    4.69          6   100.0     6     CRMSCA  
     SECONDARY STRUCTURE . .    3.18         82   100.0    82     CRMSCA  
     SHIFTED SS UNITS  . . .    1.89          9   100.0     9     CRMSCA  
     LARGE SHIFTS/INSERTIONS    8.09         19   100.0    19     CRMSCA  
     SURFACE . . . . . . . .    4.43         91   100.0    91     CRMSCA  
     BURIED  . . . . . . . .    2.67         69   100.0    69     CRMSCA  
     CORE  . . . . . . . . .    2.71        141   100.0   141     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    3.83        790   100.0   790     CRMSMC  
     WELL ORDERED  . . . . .    3.50        748   100.0   748     CRMSMC  
     NO INTER CONTACTS . . .    2.92        309   100.0   309     CRMSMC  
     SHIFTED CHAIN . . . . .    4.86        351   100.0   351     CRMSMC  
     ALTERNATIVE PARENT  . .    5.15         30   100.0    30     CRMSMC  
     SECONDARY STRUCTURE . .    3.24        408   100.0   408     CRMSMC  
     SHIFTED SS UNITS  . . .    1.97         45   100.0    45     CRMSMC  
     LARGE SHIFTS/INSERTIONS    8.18         92   100.0    92     CRMSMC  
     SURFACE . . . . . . . .    4.48        450   100.0   450     CRMSMC  
     BURIED  . . . . . . . .    2.75        340   100.0   340     CRMSMC  
     CORE  . . . . . . . . .    2.79        698   100.0   698     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    5.35        643   100.0   643     CRMSSC  
     WELL ORDERED  . . . . .    4.56        461   100.0   461     CRMSSC  
     NO INTER CONTACTS . . .    4.24        240   100.0   240     CRMSSC  
     RELIABLE SIDE CHAINS  .    5.38        565   100.0   565     CRMSSC  
     CHANGED ANGLES  . . . .    6.36        322   100.0   322     CRMSSC  
     SECONDARY STRUCTURE . .    5.33        347   100.0   347     CRMSSC  
     LARGE SHIFTS/INSERTIONS   10.45         62   100.0    62     CRMSSC  
     SURFACE . . . . . . . .    6.12        363   100.0   363     CRMSSC  
     BURIED  . . . . . . . .    4.14        280   100.0   280     CRMSSC  
     CORE  . . . . . . . . .    4.47        581   100.0   581     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    4.60       1282   100.0  1282     CRMSALL 
     WELL ORDERED  . . . . .    3.94       1067   100.0  1067     CRMSALL 
     NO INTER CONTACTS . . .    3.61        491   100.0   491     CRMSALL 
     SHIFTED CHAIN . . . . .    5.63        566   100.0   566     CRMSALL 
     ALTERNATIVE PARENT  . .    5.67         51   100.0    51     CRMSALL 
     SECONDARY STRUCTURE . .    4.37        675   100.0   675     CRMSALL 
     LARGE SHIFTS/INSERTIONS    9.11        137   100.0   137     CRMSALL 
     SURFACE . . . . . . . .    5.29        727   100.0   727     CRMSALL 
     BURIED  . . . . . . . .    3.49        555   100.0   555     CRMSALL 
     CORE  . . . . . . . . .    3.70       1145   100.0  1145     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    10.13      4   100.0     4       7-LNMS-10   
 CA  LOOP  2     9.64      7   100.0     7      38-KNPDGTM-44   
 CA  LOOP  3     6.61      3   100.0     3     164-APS-166  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     9.97     20   100.0    20       7-LNMS-10   
 MC  LOOP  2     9.78     34   100.0    34      38-KNPDGTM-44   
 MC  LOOP  3     6.67     14   100.0    14     164-APS-166  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    10.89     30   100.0    30       7-LNMS-10   
 ALL LOOP  2    10.70     51   100.0    51      38-KNPDGTM-44   
 ALL LOOP  3     6.89     17   100.0    17     164-APS-166  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     1.14      4   100.0     4       7-LNMS-10   
 CA  LOOP  2     2.57      7   100.0     7      38-KNPDGTM-44   
 CA  LOOP  3     0.69      3   100.0     3     164-APS-166  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     1.65     20   100.0    20       7-LNMS-10   
 MC  LOOP  2     3.20     34   100.0    34      38-KNPDGTM-44   
 MC  LOOP  3     1.85     14   100.0    14     164-APS-166  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     2.80     30   100.0    30       7-LNMS-10   
 ALL LOOP  2     4.51     51   100.0    51      38-KNPDGTM-44   
 ALL LOOP  3     2.02     17   100.0    17     164-APS-166  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.907      1.000       0.500    160   100.0   160     ERRCA  
     WELL ORDERED  . . . . .    2.817      1.000       0.500    156   100.0   156     ERRCA  
     NO INTER CONTACTS . . .    2.322      1.000       0.500     63   100.0    63     ERRCA  
     SHIFTED CHAIN . . . . .    3.653      1.000       0.500     71   100.0    71     ERRCA  
     ALTERNATIVE PARENT  . .    4.199      1.000       0.500      6   100.0     6     ERRCA  
     SECONDARY STRUCTURE . .    2.588      1.000       0.500     82   100.0    82     ERRCA  
     LARGE SHIFTS/INSERTIONS    7.113      1.000       0.500     19   100.0    19     ERRCA  
     SURFACE . . . . . . . .    3.425      1.000       0.500     91   100.0    91     ERRCA  
     BURIED  . . . . . . . .    2.224      1.000       0.500     69   100.0    69     ERRCA  
     CORE  . . . . . . . . .    2.341      1.000       0.500    141   100.0   141     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    2.955      1.000       0.500    790   100.0   790     ERRMC  
     WELL ORDERED  . . . . .    2.750      1.000       0.500    748   100.0   748     ERRMC  
     NO INTER CONTACTS . . .    2.384      1.000       0.500    309   100.0   309     ERRMC  
     SHIFTED CHAIN . . . . .    3.687      1.000       0.500    351   100.0   351     ERRMC  
     ALTERNATIVE PARENT  . .    4.468      1.000       0.500     30   100.0    30     ERRMC  
     SECONDARY STRUCTURE . .    2.628      1.000       0.500    408   100.0   408     ERRMC  
     LARGE SHIFTS/INSERTIONS    7.129      1.000       0.500     92   100.0    92     ERRMC  
     SURFACE . . . . . . . .    3.451      1.000       0.500    450   100.0   450     ERRMC  
     BURIED  . . . . . . . .    2.300      1.000       0.500    340   100.0   340     ERRMC  
     CORE  . . . . . . . . .    2.405      1.000       0.500    698   100.0   698     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    4.287      1.000       0.500    643   100.0   643     ERRSC  
     WELL ORDERED  . . . . .    3.715      1.000       0.500    461   100.0   461     ERRSC  
     NO INTER CONTACTS . . .    3.439      1.000       0.500    240   100.0   240     ERRSC  
     RELIABLE SIDE CHAINS  .    4.308      1.000       0.500    565   100.0   565     ERRSC  
     CHANGED ANGLES  . . . .    5.218      1.000       0.500    322   100.0   322     ERRSC  
     SHIFTED CHAIN . . . . .    5.146      1.000       0.500    283   100.0   283     ERRSC  
     ALTERNATIVE PARENT  . .    5.574      1.000       0.500     27   100.0    27     ERRSC  
     SECONDARY STRUCTURE . .    4.284      1.000       0.500    347   100.0   347     ERRSC  
     LARGE SHIFTS/INSERTIONS    9.445      1.000       0.500     62   100.0    62     ERRSC  
     SURFACE . . . . . . . .    4.995      1.000       0.500    363   100.0   363     ERRSC  
     BURIED  . . . . . . . .    3.369      1.000       0.500    280   100.0   280     ERRSC  
     CORE  . . . . . . . . .    3.737      1.000       0.500    581   100.0   581     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    3.568      1.000       0.500   1282   100.0  1282     ERRALL 
     WELL ORDERED  . . . . .    3.113      1.000       0.500   1067   100.0  1067     ERRALL 
     NO INTER CONTACTS . . .    2.878      1.000       0.500    491   100.0   491     ERRALL 
     SHIFTED CHAIN . . . . .    4.342      1.000       0.500    566   100.0   566     ERRALL 
     ALTERNATIVE PARENT  . .    4.944      1.000       0.500     51   100.0    51     ERRALL 
     SECONDARY STRUCTURE . .    3.417      1.000       0.500    675   100.0   675     ERRALL 
     LARGE SHIFTS/INSERTIONS    7.982      1.000       0.500    137   100.0   137     ERRALL 
     SURFACE . . . . . . . .    4.149      1.000       0.500    727   100.0   727     ERRALL 
     BURIED  . . . . . . . .    2.808      1.000       0.500    555   100.0   555     ERRALL 
     CORE  . . . . . . . . .    3.040      1.000       0.500   1145   100.0  1145     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)        21        74       101       141       155     160     160   DISTCA 
CA  (P)     13.12     46.25     63.12     88.12     96.88             160   DISTCA 
CA  (RMS)    0.64      1.35      1.70      2.53      3.13                   DISTCA 
 
ALL (N)       125       456       705      1018      1223    1282    1282   DISTALL 
ALL (P)      9.75     35.57     54.99     79.41     95.40            1282   DISTALL 
ALL (RMS)    0.71      1.37      1.84      2.66      3.76                   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)         141           141            19          RMSLSI 
CA  (P)       88.12         88.12         11.88          RMSLSI 
CA  (RMS)      1.05          2.71          8.09          RMSLSI 
 
 
 
END of the results output 
