 
####################################################### 
#                                                     # 
#                        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/T0047.inter 
# 
NUMBER-OF-PARENTS      4 
ALIGNMENT-DALI(1)      ../PARENTS/casp3.T0047.1mup.rot 
ALIGNMENT-DALI(2)      ../PARENTS/casp3.T0047.1obp_A.rot 
ALIGNMENT-DALI(3)      ../PARENTS/casp3.T0047.1beb_A.rot 
ALIGNMENT-DALI(4)      ../PARENTS/casp3.T0047.1epa_B.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 1287 atoms, MODEL 1316 atoms, 1287 common with TARGET 
           Number of atoms possible to evaluate: 1287 
 
 
 CA-RMS TARGET<->PARENT(1mup)	 1.202822 
 
 CA-RMS TARGET<->PARENT(1obp-A)	 2.128074 
 
 CA-RMS TARGET<->PARENT(1beb-A)	 2.195152 
 
 CA-RMS TARGET<->PARENT(1epa-B)	 1.899896 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    35.00           88.2   314   100.0   314     ARMSMC  
     WELL ORDERED  . . . . .    20.48           94.2   190   100.0   190     ARMSMC  
     NO INTER CONTACTS . . .    34.44           88.4   294   100.0   294     ARMSMC  
     SHIFTED CHAIN . . . . .    57.26           68.3    63   100.0    63     ARMSMC  
     ALTERNATIVE PARENT  . .    53.35           50.0    14   100.0    14     ARMSMC  
     SECONDARY STRUCTURE . .    15.81           95.1   162   100.0   162     ARMSMC  
     LARGE SHIFTS/INSERTIONS    83.91           50.0    22   100.0    22     ARMSMC  
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSMC  
     SURFACE . . . . . . . .    43.04           83.5   164   100.0   164     ARMSMC  
     BURIED  . . . . . . . .    23.23           93.3   150   100.0   150     ARMSMC  
     CORE  . . . . . . . . .    28.05           91.1   292   100.0   292     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    71.82           61.0   141   100.0   141     ARMSSC1 
     WELL ORDERED  . . . . .    62.63           67.8    59   100.0    59     ARMSSC1 
     NO INTER CONTACTS . . .    71.75           61.1   131   100.0   131     ARMSSC1 
     RELIABLE SIDE CHAINS  .    71.73           60.6   132   100.0   132     ARMSSC1 
     CHANGED ANGLES  . . . .   100.63           21.5    65   100.0    65     ARMSSC1 
     SHIFTED CHAIN . . . . .    88.51           39.3    28   100.0    28     ARMSSC1 
     ALTERNATIVE PARENT  . .    70.85           60.0     5   100.0     5     ARMSSC1 
     SECONDARY STRUCTURE . .    74.79           58.7    75   100.0    75     ARMSSC1 
     LARGE SHIFTS/INSERTIONS    66.96           55.6     9   100.0     9     ARMSSC1 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SURFACE . . . . . . . .    87.29           45.5    77   100.0    77     ARMSSC1 
     BURIED  . . . . . . . .    46.88           79.7    64   100.0    64     ARMSSC1 
     CORE  . . . . . . . . .    72.14           61.4   132   100.0   132     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    70.51           52.3   111   100.0   111     ARMSSC2 
     WELL ORDERED  . . . . .    53.89           63.6    44   100.0    44     ARMSSC2 
     NO INTER CONTACTS . . .    70.91           54.4   103   100.0   103     ARMSSC2 
     RELIABLE SIDE CHAINS  .    63.57           54.8    84   100.0    84     ARMSSC2 
     CHANGED ANGLES  . . . .    86.35           23.4    64   100.0    64     ARMSSC2 
     SHIFTED CHAIN . . . . .    86.61           25.0    20   100.0    20     ARMSSC2 
     ALTERNATIVE PARENT  . .    76.72           20.0     5   100.0     5     ARMSSC2 
     SECONDARY STRUCTURE . .    63.84           61.0    59   100.0    59     ARMSSC2 
     LARGE SHIFTS/INSERTIONS    61.64           28.6     7   100.0     7     ARMSSC2 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SURFACE . . . . . . . .    76.11           42.2    64   100.0    64     ARMSSC2 
     BURIED  . . . . . . . .    62.08           66.0    47   100.0    47     ARMSSC2 
     CORE  . . . . . . . . .    71.07           53.8   104   100.0   104     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    69.81           44.2    43   100.0    43     ARMSSC3 
     WELL ORDERED  . . . . .    93.48           14.3     7   100.0     7     ARMSSC3 
     NO INTER CONTACTS . . .    64.39           47.4    38   100.0    38     ARMSSC3 
     RELIABLE SIDE CHAINS  .    68.39           46.3    41   100.0    41     ARMSSC3 
     CHANGED ANGLES  . . . .    76.86           31.4    35   100.0    35     ARMSSC3 
     SHIFTED CHAIN . . . . .    68.85           53.8    13   100.0    13     ARMSSC3 
     ALTERNATIVE PARENT  . .    38.23           66.7     3   100.0     3     ARMSSC3 
     SECONDARY STRUCTURE . .    76.78           30.0    20   100.0    20     ARMSSC3 
     LARGE SHIFTS/INSERTIONS    63.72           60.0     5   100.0     5     ARMSSC3 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SURFACE . . . . . . . .    66.72           42.4    33   100.0    33     ARMSSC3 
     BURIED  . . . . . . . .    79.16           50.0    10   100.0    10     ARMSSC3 
     CORE  . . . . . . . . .    70.57           42.1    38   100.0    38     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    72.79           31.8    22   100.0    22     ARMSSC4 
     WELL ORDERED  . . . . .    47.34           25.0     4   100.0     4     ARMSSC4 
     NO INTER CONTACTS . . .    78.61           27.8    18   100.0    18     ARMSSC4 
     RELIABLE SIDE CHAINS  .    72.79           31.8    22   100.0    22     ARMSSC4 
     CHANGED ANGLES  . . . .    77.76           21.1    19   100.0    19     ARMSSC4 
     SHIFTED CHAIN . . . . .    73.12           28.6     7   100.0     7     ARMSSC4 
     ALTERNATIVE PARENT  . .    30.31            0.0     1   100.0     1     ARMSSC4 
     SECONDARY STRUCTURE . .    61.97           40.0    10   100.0    10     ARMSSC4 
     LARGE SHIFTS/INSERTIONS    72.21            0.0     3   100.0     3     ARMSSC4 
     LIGAND CONTACTS . . . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SURFACE . . . . . . . .    69.57           29.4    17   100.0    17     ARMSSC4 
     BURIED  . . . . . . . .    82.80           40.0     5   100.0     5     ARMSSC4 
     CORE  . . . . . . . . .    72.88           36.8    19   100.0    19     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =   0.71111     r(1,2) =   0.68448     r(1,3) =   0.16066 
 r(2,1) =  -0.70157     r(2,2) =   0.70578     r(2,3) =   0.09839 
 r(3,1) =  -0.04605     r(3,2) =  -0.18268     r(3,3) =   0.98209 
THE OFFSET VECTOR: 
 v(1) =  41.48869     v(2) =  20.58807     v(3) =  -6.24992 
 
 Number of iteration 25                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   0.72           (Number of atoms:  147) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    1.34        158   100.0   158     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0085                            CRMSCA  
     WELL ORDERED  . . . . .    0.70         95   100.0    95     CRMSCA  
     NO INTER CONTACTS . . .    1.34        148   100.0   148     CRMSCA  
     SHIFTED CHAIN . . . . .    2.81         32   100.0    32     CRMSCA  
     ALTERNATIVE PARENT  . .    4.38          7   100.0     7     CRMSCA  
     SECONDARY STRUCTURE . .    0.57         81   100.0    81     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS    4.20         11   100.0    11     CRMSCA  
     SURFACE . . . . . . . .    1.69         83   100.0    83     CRMSCA  
     BURIED  . . . . . . . .    0.79         75   100.0    75     CRMSCA  
     CORE  . . . . . . . . .    0.78        147   100.0   147     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    1.39        779   100.0   779     CRMSMC  
     WELL ORDERED  . . . . .    0.69        453   100.0   453     CRMSMC  
     NO INTER CONTACTS . . .    1.39        729   100.0   729     CRMSMC  
     SHIFTED CHAIN . . . . .    2.87        156   100.0   156     CRMSMC  
     ALTERNATIVE PARENT  . .    4.28         33   100.0    33     CRMSMC  
     SECONDARY STRUCTURE . .    0.65        402   100.0   402     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS    4.25         53   100.0    53     CRMSMC  
     SURFACE . . . . . . . .    1.73        411   100.0   411     CRMSMC  
     BURIED  . . . . . . . .    0.86        368   100.0   368     CRMSMC  
     CORE  . . . . . . . . .    0.87        726   100.0   726     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    2.64        655   100.0   655     CRMSSC  
     WELL ORDERED  . . . . .    1.85        321   100.0   321     CRMSSC  
     NO INTER CONTACTS . . .    2.61        606   100.0   606     CRMSSC  
     RELIABLE SIDE CHAINS  .    2.57        573   100.0   573     CRMSSC  
     CHANGED ANGLES  . . . .    3.55        307   100.0   307     CRMSSC  
     SECONDARY STRUCTURE . .    2.19        357   100.0   357     CRMSSC  
     LARGE SHIFTS/INSERTIONS    5.61         42   100.0    42     CRMSSC  
     SURFACE . . . . . . . .    3.31        360   100.0   360     CRMSSC  
     BURIED  . . . . . . . .    1.44        295   100.0   295     CRMSSC  
     CORE  . . . . . . . . .    2.30        613   100.0   613     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    2.10       1287   100.0  1287     CRMSALL 
     WELL ORDERED  . . . . .    1.35        701   100.0   701     CRMSALL 
     NO INTER CONTACTS . . .    2.08       1198   100.0  1198     CRMSALL 
     SHIFTED CHAIN . . . . .    3.64        246   100.0   246     CRMSALL 
     ALTERNATIVE PARENT  . .    4.90         51   100.0    51     CRMSALL 
     SECONDARY STRUCTURE . .    1.64        681   100.0   681     CRMSALL 
     LARGE SHIFTS/INSERTIONS    4.91         86   100.0    86     CRMSALL 
     SURFACE . . . . . . . .    2.65        692   100.0   692     CRMSALL 
     BURIED  . . . . . . . .    1.18        595   100.0   595     CRMSALL 
     CORE  . . . . . . . . .    1.74       1201   100.0  1201     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     5.24      4   100.0     4      60-ENGE-63   
 CA  LOOP  2     3.68      5   100.0     5     153-KTDRC-157  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     5.11     19   100.0    19      60-ENGE-63   
 MC  LOOP  2     3.90     25   100.0    25     153-KTDRC-157  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     5.39     30   100.0    30      60-ENGE-63   
 ALL LOOP  2     4.84     41   100.0    41     153-KTDRC-157  
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 CA  LOOP  1     0.14      4   100.0     4      60-ENGE-63   
 CA  LOOP  2     1.74      5   100.0     5     153-KTDRC-157  
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 MC  LOOP  1     0.38     19   100.0    19      60-ENGE-63   
 MC  LOOP  2     2.22     25   100.0    25     153-KTDRC-157  
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 ALL LOOP  1     1.25     30   100.0    30      60-ENGE-63   
 ALL LOOP  2     3.47     41   100.0    41     153-KTDRC-157  
 
 
Accuracy of estimates of atomic coordinate errors: model <-> target 
 
 (CA)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.472      0.244       0.212    158   100.0   158     ERRCA  
     WELL ORDERED  . . . . .    0.242      0.215       0.218     95   100.0    95     ERRCA  
     NO INTER CONTACTS . . .    0.467      0.243       0.214    148   100.0   148     ERRCA  
     SHIFTED CHAIN . . . . .    1.557      0.400       0.200     32   100.0    32     ERRCA  
     ALTERNATIVE PARENT  . .    3.324      0.641       0.320      7   100.0     7     ERRCA  
     SECONDARY STRUCTURE . .    0.206      0.213       0.204     81   100.0    81     ERRCA  
     LARGE SHIFTS/INSERTIONS    3.197      0.641       0.320     11   100.0    11     ERRCA  
     SURFACE . . . . . . . .    0.629      0.245       0.187     83   100.0    83     ERRCA  
     BURIED  . . . . . . . .    0.297      0.243       0.239     75   100.0    75     ERRCA  
     CORE  . . . . . . . . .    0.268      0.214       0.204    147   100.0   147     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.503      0.253       0.209    779   100.0   779     ERRMC  
     WELL ORDERED  . . . . .    0.250      0.222       0.213    453   100.0   453     ERRMC  
     NO INTER CONTACTS . . .    0.499      0.252       0.210    729   100.0   729     ERRMC  
     SHIFTED CHAIN . . . . .    1.606      0.406       0.209    156   100.0   156     ERRMC  
     ALTERNATIVE PARENT  . .    3.205      0.622       0.311     33   100.0    33     ERRMC  
     SECONDARY STRUCTURE . .    0.233      0.219       0.198    402   100.0   402     ERRMC  
     LARGE SHIFTS/INSERTIONS    3.226      0.640       0.320     53   100.0    53     ERRMC  
     SURFACE . . . . . . . .    0.667      0.262       0.191    411   100.0   411     ERRMC  
     BURIED  . . . . . . . .    0.320      0.242       0.228    368   100.0   368     ERRMC  
     CORE  . . . . . . . . .    0.304      0.224       0.200    726   100.0   726     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    1.119      0.314       0.218    655   100.0   655     ERRSC  
     WELL ORDERED  . . . . .    0.755      0.287       0.203    321   100.0   321     ERRSC  
     NO INTER CONTACTS . . .    1.114      0.318       0.221    606   100.0   606     ERRSC  
     RELIABLE SIDE CHAINS  .    1.084      0.311       0.219    573   100.0   573     ERRSC  
     CHANGED ANGLES  . . . .    1.823      0.388       0.223    307   100.0   307     ERRSC  
     SHIFTED CHAIN . . . . .    2.462      0.424       0.222    118   100.0   118     ERRSC  
     ALTERNATIVE PARENT  . .    3.909      0.569       0.285     23   100.0    23     ERRSC  
     SECONDARY STRUCTURE . .    0.949      0.321       0.222    357   100.0   357     ERRSC  
     LARGE SHIFTS/INSERTIONS    3.815      0.549       0.274     42   100.0    42     ERRSC  
     SURFACE . . . . . . . .    1.565      0.352       0.229    360   100.0   360     ERRSC  
     BURIED  . . . . . . . .    0.574      0.268       0.203    295   100.0   295     ERRSC  
     CORE  . . . . . . . . .    0.934      0.298       0.214    613   100.0   613     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    0.810      0.284       0.215   1287   100.0  1287     ERRALL 
     WELL ORDERED  . . . . .    0.484      0.252       0.211    701   100.0   701     ERRALL 
     NO INTER CONTACTS . . .    0.803      0.285       0.217   1198   100.0  1198     ERRALL 
     SHIFTED CHAIN . . . . .    1.983      0.411       0.214    246   100.0   246     ERRALL 
     ALTERNATIVE PARENT  . .    3.484      0.593       0.297     51   100.0    51     ERRALL 
     SECONDARY STRUCTURE . .    0.603      0.270       0.210    681   100.0   681     ERRALL 
     LARGE SHIFTS/INSERTIONS    3.464      0.593       0.297     86   100.0    86     ERRALL 
     SURFACE . . . . . . . .    1.123      0.308       0.213    692   100.0   692     ERRALL 
     BURIED  . . . . . . . .    0.446      0.256       0.217    595   100.0   595     ERRALL 
     CORE  . . . . . . . . .    0.620      0.262       0.209   1201   100.0  1201     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)       132       143       148       156       158     158     158   DISTCA 
CA  (P)     83.54     90.51     93.67     98.73    100.00             158   DISTCA 
CA  (RMS)    0.51      0.63      0.75      1.15      1.34                   DISTCA 
 
ALL (N)       858      1022      1120      1226      1285    1287    1287   DISTALL 
ALL (P)     66.67     79.41     87.02     95.26     99.84            1287   DISTALL 
ALL (RMS)    0.54      0.76      1.04      1.50      2.06                   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)         147           147            11          RMSLSI 
CA  (P)       93.04         93.04          6.96          RMSLSI 
CA  (RMS)      0.77          0.78          4.20          RMSLSI 
 
 
 
END of the results output 
