 
####################################################### 
#                                                     # 
#                        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 1319 atoms, 1282 common with TARGET 
           Number of atoms possible to evaluate: 1210 
 
 
 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 . . . . . . . . . .    33.02           86.4   294    92.5   318     ARMSMC  
     WELL ORDERED  . . . . .    31.59           87.0   285    93.8   304     ARMSMC  
     NO INTER CONTACTS . . .    23.29           92.5   120    96.0   125     ARMSMC  
     SHIFTED CHAIN . . . . .    43.03           78.4   116    82.9   140     ARMSMC  
     ALTERNATIVE PARENT  . .    58.96           60.0    10    83.3    12     ARMSMC  
     SECONDARY STRUCTURE . .    35.97           86.9   160    97.6   164     ARMSMC  
     LARGE SHIFTS/INSERTIONS    84.05           60.0    15    41.7    36     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    41.71           80.4   158    87.3   181     ARMSMC  
     BURIED  . . . . . . . .    18.34           93.4   136    99.3   137     ARMSMC  
     CORE  . . . . . . . . .    27.74           87.8   279    98.9   282     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    63.69           60.8   130    93.5   139     ARMSSC1 
     WELL ORDERED  . . . . .    58.44           66.3   101   100.0   101     ARMSSC1 
     NO INTER CONTACTS . . .    51.36           71.4    49    96.1    51     ARMSSC1 
     RELIABLE SIDE CHAINS  .    64.33           59.7   124    93.2   133     ARMSSC1 
     CHANGED ANGLES  . . . .    76.54           47.7    65    87.8    74     ARMSSC1 
     SHIFTED CHAIN . . . . .    64.86           60.4    53    85.5    62     ARMSSC1 
     ALTERNATIVE PARENT  . .    84.86           40.0     5    83.3     6     ARMSSC1 
     SECONDARY STRUCTURE . .    69.51           54.3    70    98.6    71     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    73.99           28.6     7    43.8    16     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    75.44           45.8    72    90.0    80     ARMSSC1 
     BURIED  . . . . . . . .    45.01           79.3    58    98.3    59     ARMSSC1 
     CORE  . . . . . . . . .    63.05           62.6   123   100.0   123     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    64.17           56.5   108    93.1   116     ARMSSC2 
     WELL ORDERED  . . . . .    59.45           62.0    71   100.0    71     ARMSSC2 
     NO INTER CONTACTS . . .    64.35           53.8    39    95.1    41     ARMSSC2 
     RELIABLE SIDE CHAINS  .    55.56           59.3    86    93.5    92     ARMSSC2 
     CHANGED ANGLES  . . . .    69.39           50.0    72    90.0    80     ARMSSC2 
     SHIFTED CHAIN . . . . .    75.24           50.0    44    84.6    52     ARMSSC2 
     ALTERNATIVE PARENT  . .    66.05           50.0     4    80.0     5     ARMSSC2 
     SECONDARY STRUCTURE . .    67.89           59.3    59    98.3    60     ARMSSC2 
     LARGE SHIFTS/INSERTIONS   108.45           16.7     6    46.2    13     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    69.33           50.0    60    88.2    68     ARMSSC2 
     BURIED  . . . . . . . .    57.07           64.6    48   100.0    48     ARMSSC2 
     CORE  . . . . . . . . .    60.57           58.8   102    99.0   103     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    80.19           36.6    41    93.2    44     ARMSSC3 
     WELL ORDERED  . . . . .    80.69           44.4     9    90.0    10     ARMSSC3 
     NO INTER CONTACTS . . .    77.36           27.3    11    91.7    12     ARMSSC3 
     RELIABLE SIDE CHAINS  .    78.41           41.2    34    91.9    37     ARMSSC3 
     CHANGED ANGLES  . . . .    78.48           36.4    33    91.7    36     ARMSSC3 
     SHIFTED CHAIN . . . . .    86.07           33.3    21    91.3    23     ARMSSC3 
     ALTERNATIVE PARENT  . .    14.20          100.0     1    50.0     2     ARMSSC3 
     SECONDARY STRUCTURE . .    88.63           25.8    31    96.9    32     ARMSSC3 
     LARGE SHIFTS/INSERTIONS   115.56           50.0     2    50.0     4     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    79.75           36.4    33    91.7    36     ARMSSC3 
     BURIED  . . . . . . . .    82.00           37.5     8   100.0     8     ARMSSC3 
     CORE  . . . . . . . . .    77.95           35.9    39    97.5    40     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    80.92           50.0    22   100.0    22     ARMSSC4 
     WELL ORDERED  . . . . .    95.31            0.0     1   100.0     1     ARMSSC4 
     NO INTER CONTACTS . . .    95.21           42.9     7   100.0     7     ARMSSC4 
     RELIABLE SIDE CHAINS  .    80.92           50.0    22   100.0    22     ARMSSC4 
     CHANGED ANGLES  . . . .    82.81           47.6    21   100.0    21     ARMSSC4 
     SHIFTED CHAIN . . . . .    73.09           61.5    13   100.0    13     ARMSSC4 
     ALTERNATIVE PARENT  . .     4.15          100.0     1   100.0     1     ARMSSC4 
     SECONDARY STRUCTURE . .    86.80           41.2    17   100.0    17     ARMSSC4 
     LARGE SHIFTS/INSERTIONS     4.15          100.0     1   100.0     1     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    77.52           55.0    20   100.0    20     ARMSSC4 
     BURIED  . . . . . . . .   109.18            0.0     2   100.0     2     ARMSSC4 
     CORE  . . . . . . . . .    82.81           47.6    21   100.0    21     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.17143     r(1,2) =   0.23470     r(1,3) =  -0.95683 
 r(2,1) =   0.98490     r(2,2) =   0.06484     r(2,3) =  -0.16055 
 r(3,1) =   0.02436     r(3,2) =  -0.96990     r(3,3) =  -0.24227 
THE OFFSET VECTOR: 
 v(1) =  28.24135     v(2) =  -0.38311     v(3) =  46.53064 
 
 Number of iteration 23                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   1.00           (Number of atoms:  128) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    2.39        150    93.8   160     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0160                            CRMSCA  
     WELL ORDERED  . . . . .    2.40        148    94.9   156     CRMSCA  
     NO INTER CONTACTS . . .    1.53         61    96.8    63     CRMSCA  
     SHIFTED CHAIN . . . . .    3.37         61    85.9    71     CRMSCA  
     ALTERNATIVE PARENT  . .    2.62          5    83.3     6     CRMSCA  
     SECONDARY STRUCTURE . .    2.90         81    98.8    82     CRMSCA  
     SHIFTED SS UNITS  . . .    1.46          9   100.0     9     CRMSCA  
     LARGE SHIFTS/INSERTIONS    7.66          9    47.4    19     CRMSCA  
     SURFACE . . . . . . . .    3.01         82    90.1    91     CRMSCA  
     BURIED  . . . . . . . .    1.30         68    98.6    69     CRMSCA  
     CORE  . . . . . . . . .    1.53        141   100.0   141     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    2.41        742    93.9   790     CRMSMC  
     WELL ORDERED  . . . . .    2.37        715    95.6   748     CRMSMC  
     NO INTER CONTACTS . . .    1.63        300    97.1   309     CRMSMC  
     SHIFTED CHAIN . . . . .    3.35        303    86.3   351     CRMSMC  
     ALTERNATIVE PARENT  . .    2.89         25    83.3    30     CRMSMC  
     SECONDARY STRUCTURE . .    2.85        403    98.8   408     CRMSMC  
     SHIFTED SS UNITS  . . .    1.46         45   100.0    45     CRMSMC  
     LARGE SHIFTS/INSERTIONS    7.65         44    47.8    92     CRMSMC  
     SURFACE . . . . . . . .    3.02        406    90.2   450     CRMSMC  
     BURIED  . . . . . . . .    1.34        336    98.8   340     CRMSMC  
     CORE  . . . . . . . . .    1.58        698   100.0   698     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    3.81        610    94.9   643     CRMSSC  
     WELL ORDERED  . . . . .    2.98        456    98.9   461     CRMSSC  
     NO INTER CONTACTS . . .    2.61        234    97.5   240     CRMSSC  
     RELIABLE SIDE CHAINS  .    3.83        536    94.9   565     CRMSSC  
     CHANGED ANGLES  . . . .    4.88        298    92.5   322     CRMSSC  
     SECONDARY STRUCTURE . .    4.56        343    98.8   347     CRMSSC  
     LARGE SHIFTS/INSERTIONS   10.11         29    46.8    62     CRMSSC  
     SURFACE . . . . . . . .    4.59        332    91.5   363     CRMSSC  
     BURIED  . . . . . . . .    2.59        278    99.3   280     CRMSSC  
     CORE  . . . . . . . . .    3.19        581   100.0   581     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    3.15       1210    94.4  1282     CRMSALL 
     WELL ORDERED  . . . . .    2.59       1032    96.7  1067     CRMSALL 
     NO INTER CONTACTS . . .    2.14        478    97.4   491     CRMSALL 
     SHIFTED CHAIN . . . . .    3.92        494    87.3   566     CRMSALL 
     ALTERNATIVE PARENT  . .    4.10         43    84.3    51     CRMSALL 
     SECONDARY STRUCTURE . .    3.78        667    98.8   675     CRMSALL 
     LARGE SHIFTS/INSERTIONS    8.70         65    47.4   137     CRMSALL 
     SURFACE . . . . . . . .    3.84        660    90.8   727     CRMSALL 
     BURIED  . . . . . . . .    2.04        550    99.1   555     CRMSALL 
     CORE  . . . . . . . . .    2.49       1145   100.0  1145     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1    14.03      2    50.0     4       7-LNMS-10   
 CA  LOOP  2     3.93      2    28.6     7      38-KNPDGTM-44   
 CA  LOOP  3     5.96      2    66.7     3     164-APS-166  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1    13.38     10    50.0    20       7-LNMS-10   
 MC  LOOP  2     4.38     10    29.4    34      38-KNPDGTM-44   
 MC  LOOP  3     6.50     10    71.4    14     164-APS-166  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1    15.51     14    46.7    30       7-LNMS-10   
 ALL LOOP  2     4.37     17    33.3    51      38-KNPDGTM-44   
 ALL LOOP  3     7.08     12    70.6    17     164-APS-166  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 WARNING! LOOP  2 cannot be considered (not enough atoms). 
 
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 WARNING! LOOP  2 cannot be considered (not enough atoms). 
 
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOP  1 cannot be considered (not enough atoms). 
 
 WARNING! LOOP  2 cannot be considered (not enough atoms). 
 
 WARNING! LOOP  3 cannot be considered (not enough atoms). 
 
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.932      0.301       0.254    150    93.8   160     ERRCA  
     WELL ORDERED  . . . . .    0.933      0.301       0.256    148    94.9   156     ERRCA  
     NO INTER CONTACTS . . .    0.657      0.304       0.300     61    96.8    63     ERRCA  
     SHIFTED CHAIN . . . . .    1.317      0.267       0.139     61    85.9    71     ERRCA  
     ALTERNATIVE PARENT  . .    1.371      0.337       0.168      5    83.3     6     ERRCA  
     SECONDARY STRUCTURE . .    1.156      0.320       0.261     81    98.8    82     ERRCA  
     LARGE SHIFTS/INSERTIONS    5.263      0.647       0.324      9    47.4    19     ERRCA  
     SURFACE . . . . . . . .    1.224      0.311       0.224     82    90.1    91     ERRCA  
     BURIED  . . . . . . . .    0.578      0.289       0.291     68    98.6    69     ERRCA  
     CORE  . . . . . . . . .    0.655      0.279       0.250    141   100.0   141     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.938      0.298       0.245    742    93.9   790     ERRMC  
     WELL ORDERED  . . . . .    0.906      0.294       0.246    715    95.6   748     ERRMC  
     NO INTER CONTACTS . . .    0.675      0.301       0.285    300    97.1   309     ERRMC  
     SHIFTED CHAIN . . . . .    1.337      0.275       0.147    303    86.3   351     ERRMC  
     ALTERNATIVE PARENT  . .    1.534      0.357       0.184     25    83.3    30     ERRMC  
     SECONDARY STRUCTURE . .    1.136      0.313       0.247    403    98.8   408     ERRMC  
     LARGE SHIFTS/INSERTIONS    5.333      0.650       0.325     44    47.8    92     ERRMC  
     SURFACE . . . . . . . .    1.241      0.314       0.224    406    90.2   450     ERRMC  
     BURIED  . . . . . . . .    0.572      0.278       0.271    336    98.8   340     ERRMC  
     CORE  . . . . . . . . .    0.661      0.275       0.240    698   100.0   698     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.770      0.371       0.248    610    94.9   643     ERRSC  
     WELL ORDERED  . . . . .    1.331      0.335       0.247    456    98.9   461     ERRSC  
     NO INTER CONTACTS . . .    1.164      0.317       0.231    234    97.5   240     ERRSC  
     RELIABLE SIDE CHAINS  .    1.741      0.366       0.249    536    94.9   565     ERRSC  
     CHANGED ANGLES  . . . .    2.639      0.447       0.242    298    92.5   322     ERRSC  
     SHIFTED CHAIN . . . . .    2.300      0.411       0.211    250    88.3   283     ERRSC  
     ALTERNATIVE PARENT  . .    3.293      0.549       0.278     23    85.2    27     ERRSC  
     SECONDARY STRUCTURE . .    2.221      0.395       0.248    343    98.8   347     ERRSC  
     LARGE SHIFTS/INSERTIONS    7.412      0.724       0.362     29    46.8    62     ERRSC  
     SURFACE . . . . . . . .    2.395      0.429       0.242    332    91.5   363     ERRSC  
     BURIED  . . . . . . . .    1.023      0.302       0.255    278    99.3   280     ERRSC  
     CORE  . . . . . . . . .    1.488      0.354       0.242    581   100.0   581     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.335      0.334       0.248   1210    94.4  1282     ERRALL 
     WELL ORDERED  . . . . .    1.063      0.311       0.248   1032    96.7  1067     ERRALL 
     NO INTER CONTACTS . . .    0.909      0.312       0.263    478    97.4   491     ERRALL 
     SHIFTED CHAIN . . . . .    1.803      0.341       0.178    494    87.3   566     ERRALL 
     ALTERNATIVE PARENT  . .    2.447      0.451       0.228     43    84.3    51     ERRALL 
     SECONDARY STRUCTURE . .    1.663      0.354       0.248    667    98.8   675     ERRALL 
     LARGE SHIFTS/INSERTIONS    6.135      0.678       0.339     65    47.4   137     ERRALL 
     SURFACE . . . . . . . .    1.790      0.370       0.233    660    90.8   727     ERRALL 
     BURIED  . . . . . . . .    0.789      0.291       0.265    550    99.1   555     ERRALL 
     CORE  . . . . . . . . .    1.063      0.315       0.243   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)        85       126       131       146       148     150     160   DISTCA 
CA  (P)     53.12     78.75     81.88     91.25     92.50             160   DISTCA 
CA  (RMS)    0.62      0.97      1.08      1.61      1.77                   DISTCA 
 
ALL (N)       572       868       986      1116      1185    1210    1282   DISTALL 
ALL (P)     44.62     67.71     76.91     87.05     92.43            1282   DISTALL 
ALL (RMS)    0.64      1.01      1.28      1.76      2.40                   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             9          RMSLSI 
CA  (P)       88.12         88.12          5.62          RMSLSI 
CA  (RMS)      1.05          1.53          7.66          RMSLSI 
 
 
 
END of the results output 
