 
####################################################### 
#                                                     # 
#                        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/T0017.inter 
CONANA-LIGAND          ../CONANA/T0017.ligand 
# 
NUMBER-OF-PARENTS      6 
ALIGNMENT-DALI(1)      ../PARENTS/casp2.T0017.2gst_A.rot 
ALIGNMENT-DALI(2)      ../PARENTS/casp2.T0017.1hna.rot 
ALIGNMENT-DALI(3)      ../PARENTS/casp2.T0017.1gta.rot 
ALIGNMENT-DALI(4)      ../PARENTS/casp2.T0017.2gsr_A.rot 
ALIGNMENT-DALI(5)      ../PARENTS/casp2.T0017.1glq_A.rot 
ALIGNMENT-DALI(6)      ../PARENTS/casp2.T0017.1gss_A.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 1812 atoms, MODEL 1813 atoms, 1812 common with TARGET 
           Number of atoms possible to evaluate: 1812 
 
 
 CA-RMS TARGET<->PARENT(2gst_A)	 0.470591 
 
 CA-RMS TARGET<->PARENT(1hna)	 1.015151 
 
 CA-RMS TARGET<->PARENT(1gta)	 1.552161 
 
 CA-RMS TARGET<->PARENT(2gsr_A)	 1.882936 
 
 CA-RMS TARGET<->PARENT(1glq_A)	 1.983916 
 
 CA-RMS TARGET<->PARENT(1gss_A)	 2.076905 
 
 
MEASURES: 
 
 
ANGLES RMS : model <-> target 
 
 (MC: PHI+PSI) DIHED RMS:      ARMSMC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    16.04           93.1   432   100.0   432     ARMSMC  
     WELL ORDERED  . . . . .    14.60           95.4   371   100.0   371     ARMSMC  
     NO INTER CONTACTS . . .    16.69           91.8   366   100.0   366     ARMSMC  
     SHIFTED CHAIN . . . . .    29.14           46.2    13   100.0    13     ARMSMC  
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSMC  
     SECONDARY STRUCTURE . .    13.28           96.5   260   100.0   260     ARMSMC  
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     0     ARMSMC  
     LIGAND CONTACTS . . . .    17.18           92.3    13   100.0    13     ARMSMC  
     SURFACE . . . . . . . .    17.17           92.1   228   100.0   228     ARMSMC  
     BURIED  . . . . . . . .    14.66           94.1   204   100.0   204     ARMSMC  
     CORE  . . . . . . . . .    16.04           93.1   432   100.0   432     ARMSMC  
 (SC: CHI1) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    39.21           83.1   195   100.0   195     ARMSSC1 
     WELL ORDERED  . . . . .    36.77           85.6   160   100.0   160     ARMSSC1 
     NO INTER CONTACTS . . .    40.83           82.3   164   100.0   164     ARMSSC1 
     RELIABLE SIDE CHAINS  .    36.79           84.5   187   100.0   187     ARMSSC1 
     CHANGED ANGLES  . . . .    77.84           39.5    38   100.0    38     ARMSSC1 
     SHIFTED CHAIN . . . . .    94.27           40.0     5   100.0     5     ARMSSC1 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC1 
     SECONDARY STRUCTURE . .    37.43           85.4   123   100.0   123     ARMSSC1 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     0     ARMSSC1 
     LIGAND CONTACTS . . . .     9.63          100.0     2   100.0     2     ARMSSC1 
     SURFACE . . . . . . . .    44.89           78.8   104   100.0   104     ARMSSC1 
     BURIED  . . . . . . . .    31.49           87.9    91   100.0    91     ARMSSC1 
     CORE  . . . . . . . . .    39.21           83.1   195   100.0   195     ARMSSC1 
 (SC: CHI2) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    49.10           70.2   168   100.0   168     ARMSSC2 
     WELL ORDERED  . . . . .    45.10           77.5   129   100.0   129     ARMSSC2 
     NO INTER CONTACTS . . .    49.14           68.6   140   100.0   140     ARMSSC2 
     RELIABLE SIDE CHAINS  .    41.51           75.6   131   100.0   131     ARMSSC2 
     CHANGED ANGLES  . . . .    78.18           32.6    46   100.0    46     ARMSSC2 
     SHIFTED CHAIN . . . . .    45.31           60.0     5   100.0     5     ARMSSC2 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC2 
     SECONDARY STRUCTURE . .    47.09           76.1   109   100.0   109     ARMSSC2 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     0     ARMSSC2 
     LIGAND CONTACTS . . . .     3.31          100.0     2   100.0     2     ARMSSC2 
     SURFACE . . . . . . . .    55.04           59.6    94   100.0    94     ARMSSC2 
     BURIED  . . . . . . . .    40.32           83.8    74   100.0    74     ARMSSC2 
     CORE  . . . . . . . . .    49.10           70.2   168   100.0   168     ARMSSC2 
 (SC: CHI3) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    66.40           57.1    63   100.0    63     ARMSSC3 
     WELL ORDERED  . . . . .    56.05           66.7    39   100.0    39     ARMSSC3 
     NO INTER CONTACTS . . .    70.87           55.8    52   100.0    52     ARMSSC3 
     RELIABLE SIDE CHAINS  .    61.64           57.9    57   100.0    57     ARMSSC3 
     CHANGED ANGLES  . . . .    83.68           39.4    33   100.0    33     ARMSSC3 
     SHIFTED CHAIN . . . . .   128.58            0.0     4   100.0     4     ARMSSC3 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC3 
     SECONDARY STRUCTURE . .    61.25           63.0    46   100.0    46     ARMSSC3 
     LARGE SHIFTS/INSERTIONS     0.00            0.0     0     0.0     0     ARMSSC3 
     LIGAND CONTACTS . . . .    17.96          100.0     1   100.0     1     ARMSSC3 
     SURFACE . . . . . . . .    72.01           55.3    47   100.0    47     ARMSSC3 
     BURIED  . . . . . . . .    46.14           62.5    16   100.0    16     ARMSSC3 
     CORE  . . . . . . . . .    66.40           57.1    63   100.0    63     ARMSSC3 
 (SC: CHI4) DIHED RMS:         ARMSSC            PC     NP     PP     TN 
     ALL . . . . . . . . . .    88.41           39.4    33   100.0    33     ARMSSC4 
     WELL ORDERED  . . . . .    91.05           52.9    17   100.0    17     ARMSSC4 
     NO INTER CONTACTS . . .    86.42           42.3    26   100.0    26     ARMSSC4 
     RELIABLE SIDE CHAINS  .    88.41           39.4    33   100.0    33     ARMSSC4 
     CHANGED ANGLES  . . . .    92.80           28.6    21   100.0    21     ARMSSC4 
     SHIFTED CHAIN . . . . .    66.60           50.0     4   100.0     4     ARMSSC4 
     ALTERNATIVE PARENT  . .     0.00            0.0     0     0.0     0     ARMSSC4 
     SECONDARY STRUCTURE . .    85.12           40.9    22   100.0    22     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 . . . . . . . .    89.93           33.3    27   100.0    27     ARMSSC4 
     BURIED  . . . . . . . .    81.24           66.7     6   100.0     6     ARMSSC4 
     CORE  . . . . . . . . .    88.41           39.4    33   100.0    33     ARMSSC4 
 
COORDINATES RMS : model <-> target 
 
UNITARY 3.3 RIGHT HANDED ROTATION MATRIX: 
 r(1,1) =  -0.29671     r(1,2) =  -0.06224     r(1,3) =   0.95294 
 r(2,1) =  -0.95433     r(2,2) =   0.05588     r(2,3) =  -0.29349 
 r(3,1) =  -0.03499     r(3,2) =  -0.99650     r(3,3) =  -0.07598 
THE OFFSET VECTOR: 
 v(1) =  24.29655     v(2) =  41.65952     v(3) =  36.70764 
 
 Number of iteration 22                   (CUTOFF:  2.50) 
 TEST (CA iter) RMS =   0.48           (Number of atoms:  216) 
 
 (CA)  RMS:                   CRMSCA         NP     PP     TN 
     ALL . . . . . . . . . .    0.52        217   100.0   217     CRMSCA  
     CRN = ALL/NP  . . . . .    0.0024                            CRMSCA  
     WELL ORDERED  . . . . .    0.43        187   100.0   187     CRMSCA  
     NO INTER CONTACTS . . .    0.54        184   100.0   184     CRMSCA  
     SHIFTED CHAIN . . . . .    1.46          7   100.0     7     CRMSCA  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSCA  
     SECONDARY STRUCTURE . .    0.43        130   100.0   130     CRMSCA  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSCA  
     LARGE SHIFTS/INSERTIONS    0.00          0     0.0     0     CRMSCA  
     LIGAND CONTACTS . . . .    0.47         10   100.0    10     CRMSCA  
     SURFACE . . . . . . . .    0.58        115   100.0   115     CRMSCA  
     BURIED  . . . . . . . .    0.45        102   100.0   102     CRMSCA  
     CORE  . . . . . . . . .    0.52        217   100.0   217     CRMSCA  
 (MC)  RMS:                   CRMSMC         NP     PP     TN 
     ALL . . . . . . . . . .    0.59       1074   100.0  1074     CRMSMC  
     WELL ORDERED  . . . . .    0.49        921   100.0   921     CRMSMC  
     NO INTER CONTACTS . . .    0.61        910   100.0   910     CRMSMC  
     SHIFTED CHAIN . . . . .    1.62         34   100.0    34     CRMSMC  
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSMC  
     SECONDARY STRUCTURE . .    0.49        648   100.0   648     CRMSMC  
     SHIFTED SS UNITS  . . .    0.00          0     0.0     0     CRMSMC  
     LARGE SHIFTS/INSERTIONS    0.00          0     0.0     0     CRMSMC  
     LIGAND CONTACTS . . . .    0.53         42   100.0    42     CRMSMC  
     SURFACE . . . . . . . .    0.66        569   100.0   569     CRMSMC  
     BURIED  . . . . . . . .    0.50        505   100.0   505     CRMSMC  
     CORE  . . . . . . . . .    0.59       1074   100.0  1074     CRMSMC  
 (SC)  RMS:                   CRMSSC         NP     PP     TN 
     ALL . . . . . . . . . .    1.18        944   100.0   944     CRMSSC  
     WELL ORDERED  . . . . .    0.93        751   100.0   751     CRMSSC  
     NO INTER CONTACTS . . .    1.19        790   100.0   790     CRMSSC  
     RELIABLE SIDE CHAINS  .    1.14        834   100.0   834     CRMSSC  
     CHANGED ANGLES  . . . .    2.10        213   100.0   213     CRMSSC  
     SECONDARY STRUCTURE . .    1.07        618   100.0   618     CRMSSC  
     LARGE SHIFTS/INSERTIONS    0.00          0     0.0     0     CRMSSC  
     LIGAND CONTACTS . . . .    0.92         54   100.0    54     CRMSSC  
     SURFACE . . . . . . . .    1.45        489   100.0   489     CRMSSC  
     BURIED  . . . . . . . .    0.81        455   100.0   455     CRMSSC  
     CORE  . . . . . . . . .    1.18        944   100.0   944     CRMSSC  
 (ALL) RMS:                   CRMSALL        NP     PP     TN 
     ALL . . . . . . . . . .    0.94       1812   100.0  1812     CRMSALL 
     WELL ORDERED  . . . . .    0.75       1499   100.0  1499     CRMSALL 
     NO INTER CONTACTS . . .    0.95       1526   100.0  1526     CRMSALL 
     SHIFTED CHAIN . . . . .    2.33         54   100.0    54     CRMSALL 
     ALTERNATIVE PARENT  . .    0.00          0     0.0     0     CRMSALL 
     SECONDARY STRUCTURE . .    0.85       1138   100.0  1138     CRMSALL 
     LARGE SHIFTS/INSERTIONS    0.00          0     0.0     0     CRMSALL 
     LIGAND CONTACTS . . . .    0.78         89   100.0    89     CRMSALL 
     SURFACE . . . . . . . .    1.13        949   100.0   949     CRMSALL 
     BURIED  . . . . . . . .    0.68        863   100.0   863     CRMSALL 
     CORE  . . . . . . . . .    0.94       1812   100.0  1812     CRMSALL 
 
 
RMS Details of loops: 
 
 GLOBAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOPS cannot be considered (not enough atoms). 
 
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOPS cannot be considered (not enough atoms). 
 
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOPS cannot be considered (not enough atoms). 
 
 
 LOCAL SUPERPOSITION 
 RMS:          CRMSCA     NP     PP     TN        LOOPS 
 WARNING! LOOPS cannot be considered (not enough atoms). 
 
 RMS:          CRMSMC     NP     PP     TN        LOOPS 
 WARNING! LOOPS cannot be considered (not enough atoms). 
 
 RMS:          CRMSALL    NP     PP     TN        LOOPS 
 WARNING! LOOPS 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 . . . . . . . . . .    9.558      0.917       0.921    217   100.0   217     ERRCA  
     WELL ORDERED  . . . . .    9.604      0.924       0.928    187   100.0   187     ERRCA  
     NO INTER CONTACTS . . .    9.551      0.915       0.920    184   100.0   184     ERRCA  
     SHIFTED CHAIN . . . . .    8.820      0.799       0.823      7   100.0     7     ERRCA  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRCA  
     SECONDARY STRUCTURE . .    9.603      0.924       0.927    130   100.0   130     ERRCA  
     LARGE SHIFTS/INSERTIONS    0.000      0.000       0.000      0     0.0     0     ERRCA  
     LIGAND CONTACTS . . . .    9.584      0.921       0.925     10   100.0    10     ERRCA  
     SURFACE . . . . . . . .    9.519      0.910       0.915    115   100.0   115     ERRCA  
     BURIED  . . . . . . . .    9.603      0.924       0.928    102   100.0   102     ERRCA  
     CORE  . . . . . . . . .    9.558      0.917       0.921    217   100.0   217     ERRCA  
 (MC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    9.513      0.909       0.914   1074   100.0  1074     ERRMC  
     WELL ORDERED  . . . . .    9.561      0.917       0.921    921   100.0   921     ERRMC  
     NO INTER CONTACTS . . .    9.504      0.907       0.913    910   100.0   910     ERRMC  
     SHIFTED CHAIN . . . . .    8.715      0.785       0.813     34   100.0    34     ERRMC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRMC  
     SECONDARY STRUCTURE . .    9.567      0.918       0.922    648   100.0   648     ERRMC  
     LARGE SHIFTS/INSERTIONS    0.000      0.000       0.000      0     0.0     0     ERRMC  
     LIGAND CONTACTS . . . .    9.514      0.908       0.913     42   100.0    42     ERRMC  
     SURFACE . . . . . . . .    9.462      0.900       0.906    569   100.0   569     ERRMC  
     BURIED  . . . . . . . .    9.570      0.919       0.922    505   100.0   505     ERRMC  
     CORE  . . . . . . . . .    9.513      0.909       0.914   1074   100.0  1074     ERRMC  
 (SC)  ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    9.146      0.852       0.867    944   100.0   944     ERRSC  
     WELL ORDERED  . . . . .    9.307      0.876       0.887    751   100.0   751     ERRSC  
     NO INTER CONTACTS . . .    9.145      0.852       0.867    790   100.0   790     ERRSC  
     RELIABLE SIDE CHAINS  .    9.187      0.858       0.872    834   100.0   834     ERRSC  
     CHANGED ANGLES  . . . .    8.258      0.719       0.759    213   100.0   213     ERRSC  
     SHIFTED CHAIN . . . . .    7.414      0.609       0.667     26   100.0    26     ERRSC  
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRSC  
     SECONDARY STRUCTURE . .    9.226      0.864       0.877    618   100.0   618     ERRSC  
     LARGE SHIFTS/INSERTIONS    0.000      0.000       0.000      0     0.0     0     ERRSC  
     LIGAND CONTACTS . . . .    9.322      0.878       0.889     54   100.0    54     ERRSC  
     SURFACE . . . . . . . .    8.925      0.818       0.838    489   100.0   489     ERRSC  
     BURIED  . . . . . . . .    9.384      0.888       0.897    455   100.0   455     ERRSC  
     CORE  . . . . . . . . .    9.146      0.852       0.867    944   100.0   944     ERRSC  
 (ALL) ERRORS:                  |D-E|   |D-E|/|D+E|   SR(D,E)    NP     PP     TN 
     ALL . . . . . . . . . .    9.328      0.880       0.890   1812   100.0  1812     ERRALL 
     WELL ORDERED  . . . . .    9.437      0.897       0.904   1499   100.0  1499     ERRALL 
     NO INTER CONTACTS . . .    9.325      0.880       0.890   1526   100.0  1526     ERRALL 
     SHIFTED CHAIN . . . . .    8.149      0.709       0.750     54   100.0    54     ERRALL 
     ALTERNATIVE PARENT  . .    0.000      0.000       0.000      0     0.0     0     ERRALL 
     SECONDARY STRUCTURE . .    9.387      0.889       0.898   1138   100.0  1138     ERRALL 
     LARGE SHIFTS/INSERTIONS    0.000      0.000       0.000      0     0.0     0     ERRALL 
     LIGAND CONTACTS . . . .    9.404      0.891       0.899     89   100.0    89     ERRALL 
     SURFACE . . . . . . . .    9.194      0.859       0.873    949   100.0   949     ERRALL 
     BURIED  . . . . . . . .    9.475      0.903       0.909    863   100.0   863     ERRALL 
     CORE  . . . . . . . . .    9.328      0.880       0.890   1812   100.0  1812     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)       213       216       216       217       217     217     217   DISTCA 
CA  (P)     98.16     99.54     99.54    100.00    100.00             217   DISTCA 
CA  (RMS)    0.45      0.48      0.48      0.52      0.52                   DISTCA 
 
ALL (N)      1548      1729      1778      1808      1812    1812    1812   DISTALL 
ALL (P)     85.43     95.42     98.12     99.78    100.00            1812   DISTALL 
ALL (RMS)    0.50      0.66      0.77      0.90      0.94                   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)         217           217             0          RMSLSI 
CA  (P)      100.00        100.00          0.00          RMSLSI 
CA  (RMS)      0.47          0.52          0.00          RMSLSI 
 
 
 
END of the results output 
