
#######################################################
#                                                     #
#                        LGA                          #
#                  ---------------                    #
#                                                     #
#               Local-Global Alignment                #
#        A Method for Finding 3-D Similarities        #
#               in Protein Structures                 #
#                                                     #
#                  --------------- 06/2006            #
#                                                     #
#      Adam Zemla (adamz@llnl.gov)                    #
#      Lawrence Livermore National Laboratory, CA     #
#                                                     #
#######################################################

# Molecule1: number of CA atoms  155 (  155),  selected  155 , name T0321TS599_3-D2
# Molecule2: number of CA atoms  148 ( 1130),  selected  148 , name T0321_D2.pdb
# PARAMETERS: T0321TS599_3-D2.T0321_D2.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V      97      V      97           -
LGA    I      98      I      98           -
LGA    F      99      F      99           -
LGA    S     100      S     100           -
LGA    D     101      D     101           -
LGA    A     102      A     102           -
LGA    K     103      N     110           -
LGA    R     104      D     111           -
LGA    V     105      P     112           -
LGA    E     106      F     113           -
LGA    D     107      I     114           -
LGA    R     108      M     115           -
LGA    M     109      -       -           -
LGA    N     110      -       -           -
LGA    D     111      -       -           -
LGA    P     112      -       -           -
LGA    F     113      -       -           -
LGA    I     114      -       -           -
LGA    M     115      -       -           -
LGA    S     116      -       -           -
LGA    Q     117      -       -           -
LGA    N     118      -       -           -
LGA    E     119      -       -           -
LGA    V     120      -       -           -
LGA    K     121      -       -           -
LGA    G     122      -       -           -
LGA    K     123      -       -           -
LGA    K     124      -       -           -
LGA    V     125      -       -           -
LGA    G     126      S     116          4.775
LGA    V     127      -       -           -
LGA    V     128      -       -           -
LGA    G     129      -       -           -
LGA    H     130      -       -           -
LGA    F     131      -       -           -
LGA    P     132      -       -           -
LGA    H     133      -       -           -
LGA    L     134      Q     117           #
LGA    E     135      N     118           -
LGA    S     136      E     119           -
LGA    L     137      -       -           -
LGA    L     138      V     120          5.567
LGA    E     139      K     121           #
LGA    P     140      -       -           -
LGA    I     141      G     122          1.200
LGA    C     142      K     123          1.536
LGA    D     143      K     124          1.213
LGA    L     144      V     125          1.260
LGA    S     145      G     126          1.070
LGA    I     146      V     127          0.763
LGA    L     147      V     128          0.876
LGA    E     148      G     129          0.770
LGA    W     149      -       -           -
LGA    S     150      -       -           -
LGA    P     151      -       -           -
LGA    E     152      -       -           -
LGA    E     153      -       -           -
LGA    G     154      -       -           -
LGA    D     155      H     130           #
LGA    -       -      F     131           -
LGA    -       -      P     132           -
LGA    -       -      H     133           -
LGA    -       -      L     134           -
LGA    -       -      E     135           -
LGA    -       -      S     136           -
LGA    -       -      L     137           -
LGA    -       -      L     138           -
LGA    -       -      E     139           -
LGA    -       -      P     140           -
LGA    -       -      I     141           -
LGA    -       -      C     142           -
LGA    -       -      D     143           -
LGA    -       -      L     144           -
LGA    -       -      S     145           -
LGA    -       -      I     146           -
LGA    Y     156      L     147          3.284
LGA    P     157      E     148          4.944
LGA    -       -      W     149           -
LGA    -       -      S     150           -
LGA    -       -      P     151           -
LGA    -       -      E     152           -
LGA    -       -      E     153           -
LGA    -       -      G     154           -
LGA    -       -      D     155           -
LGA    -       -      Y     156           -
LGA    L     158      P     157          1.973
LGA    P     159      L     158          5.033
LGA    A     160      P     159           #
LGA    S     161      A     160          4.207
LGA    E     162      S     161          1.195
LGA    -       -      E     162           -
LGA    F     163      F     163          3.381
LGA    I     164      I     164          3.166
LGA    L     165      L     165          1.363
LGA    P     166      P     166          2.500
LGA    E     167      E     167          1.773
LGA    C     168      C     168          0.708
LGA    D     169      D     169          0.599
LGA    Y     170      Y     170          0.719
LGA    V     171      V     171          0.235
LGA    Y     172      Y     172          0.502
LGA    I     173      I     173          1.117
LGA    T     174      T     174          1.358
LGA    C     175      C     175          1.799
LGA    A     176      A     176          2.752
LGA    S     177      S     177          3.105
LGA    V     178      V     178           #
LGA    V     179      V     179           #
LGA    D     180      D     180          4.545
LGA    K     181      K     181          2.633
LGA    T     182      T     182          1.644
LGA    L     183      L     183          3.085
LGA    P     184      P     184          3.451
LGA    R     185      R     185          1.522
LGA    L     186      L     186          2.988
LGA    L     187      L     187          3.815
LGA    E     188      E     188          1.796
LGA    L     189      L     189          3.804
LGA    S     190      S     190           #
LGA    R     191      R     191          4.630
LGA    N     192      N     192          3.904
LGA    A     193      A     193          4.760
LGA    R     194      R     194          4.627
LGA    R     195      R     195          1.937
LGA    I     196      I     196          0.956
LGA    T     197      T     197          0.503
LGA    L     198      L     198          0.877
LGA    V     199      V     199          1.198
LGA    G     200      G     200          1.662
LGA    P     201      P     201          2.825
LGA    G     202      G     202           #
LGA    T     203      T     203           -
LGA    P     204      P     204           -
LGA    L     205      L     205           -
LGA    A     206      A     206           -
LGA    P     207      P     207           -
LGA    V     208      V     208           -
LGA    L     209      L     209           -
LGA    F     210      F     210           -
LGA    E     211      E     211           -
LGA    H     212      H     212           -
LGA    G     213      G     213           -
LGA    L     214      L     214           -
LGA    Q     215      Q     215           -
LGA    E     216      -       -           -
LGA    L     217      -       -           -
LGA    S     218      -       -           -
LGA    G     219      -       -           -
LGA    F     220      E     216          3.947
LGA    M     221      L     217          1.009
LGA    V     222      -       -           -
LGA    K     223      -       -           -
LGA    D     224      -       -           -
LGA    N     225      -       -           -
LGA    A     226      -       -           -
LGA    R     227      -       -           -
LGA    A     228      -       -           -
LGA    F     229      -       -           -
LGA    R     230      -       -           -
LGA    I     231      -       -           -
LGA    V     232      -       -           -
LGA    A     233      -       -           -
LGA    G     234      -       -           -
LGA    A     235      -       -           -
LGA    E     236      -       -           -
LGA    K     237      -       -           -
LGA    V     238      -       -           -
LGA    K     239      -       -           -
LGA    I     240      -       -           -
LGA    Y     241      -       -           -
LGA    S     242      -       -           -
LGA    A     243      -       -           -
LGA    G     244      -       -           -
LGA    Q     245      -       -           -
LGA    K     246      -       -           -
LGA    V     247      -       -           -
LGA    T     248      S     218          3.024
LGA    I     249      G     219          5.672
LGA    -       -      F     220           -
LGA    -       -      M     221           -
LGA    -       -      V     222           -
LGA    -       -      K     223           -
LGA    -       -      D     224           -
LGA    -       -      N     225           -
LGA    -       -      A     226           -
LGA    -       -      R     227           -
LGA    -       -      A     228           -
LGA    -       -      F     229           -
LGA    -       -      R     230           -
LGA    -       -      I     231           -
LGA    -       -      V     232           -
LGA    -       -      A     233           -
LGA    -       -      G     234           -
LGA    -       -      A     235           -
LGA    -       -      E     236           -
LGA    -       -      K     237           -
LGA    -       -      V     238           -
LGA    -       -      K     239           -
LGA    -       -      I     240           -
LGA    -       -      Y     241           -
LGA    -       -      S     242           -
LGA    -       -      A     243           -
LGA    -       -      G     244           -
LGA    -       -      Q     245           -
LGA    K     250      K     246           #
LGA    K     251      V     247           -
LGA    -       -      T     248           -
LGA    -       -      I     249           -
LGA    -       -      K     250           -
LGA    -       -      K     251           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  155  148    5.0     56    2.86    64.29     24.371     1.894

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.750485 * X  +  -0.640844 * Y  +  -0.161529 * Z  +  -0.307464
  Y_new =  -0.570988 * X  +   0.505660 * Y  +   0.646746 * Z  +  48.230698
  Z_new =  -0.332785 * X  +   0.577604 * Y  +  -0.745404 * Z  +  63.502960 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.482353   -0.659240  [ DEG:   142.2283    -37.7717 ]
  Theta =   0.339255    2.802337  [ DEG:    19.4379    160.5621 ]
  Phi   =  -2.491199    0.650393  [ DEG:  -142.7352     37.2648 ]
 
# END of job
REMARK  ---------------------------------------------------------- 
REMARK   Citing LGA: 
REMARK   Zemla A., LGA - a Method for Finding 3D Similarities in  
REMARK   Protein Structures, Nucleic Acids Research, 2003, V. 31, 
REMARK   No. 13, pp. 3370-3374. 
REMARK  ---------------------------------------------------------- 
REMARK   Superimposed MOLECULES (1=>2)   Output: 1 molecule      
REMARK     1: T0321TS599_3-D2                               
REMARK     2: T0321_D2.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0321TS599_3-D2.T0321_D2.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  155  148   5.0   56   2.86   64.29  24.371
REMARK  ---------------------------------------------------------- 
MOLECULE T0321TS599_3-D2
PFRMAT TS                                                                       
TARGET T0321                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM     97  CA  VAL    97     -11.535  47.465  46.612  1.00  0.00              
ATOM     98  CA  ILE    98     -15.099  46.988  48.623  1.00  0.00              
ATOM     99  CA  PHE    99     -15.441  44.907  51.109  1.00  0.00              
ATOM    100  CA  SER   100     -19.111  44.078  52.059  1.00  0.00              
ATOM    101  CA  ASP   101     -19.101  40.641  53.424  1.00  0.00              
ATOM    102  CA  ALA   102     -16.759  38.725  51.218  1.00  0.00              
ATOM    103  CA  LYS   103     -14.241  37.337  53.707  1.00  0.00              
ATOM    104  CA  ARG   104     -10.817  37.784  52.098  1.00  0.00              
ATOM    105  CA  VAL   105      -9.267  34.373  51.319  1.00  0.00              
ATOM    106  CA  GLU   106      -6.160  34.302  53.521  1.00  0.00              
ATOM    107  CA  ASP   107      -3.325  32.195  52.242  1.00  0.00              
ATOM    108  CA  ARG   108      -2.634  30.535  55.426  1.00  0.00              
ATOM    109  CA  MET   109      -5.970  28.805  56.155  1.00  0.00              
ATOM    110  CA  ASN   110      -7.745  30.300  59.081  1.00  0.00              
ATOM    111  CA  ASP   111      -7.785  27.117  61.181  1.00  0.00              
ATOM    112  CA  PRO   112      -4.008  26.651  60.894  1.00  0.00              
ATOM    113  CA  PHE   113      -3.304  30.242  61.878  1.00  0.00              
ATOM    114  CA  ILE   114      -5.533  30.024  64.870  1.00  0.00              
ATOM    115  CA  MET   115      -4.009  27.060  66.090  1.00  0.00              
ATOM    116  CA  SER   116      -0.633  28.546  65.832  1.00  0.00              
ATOM    117  CA  GLN   117      -1.650  31.663  67.615  1.00  0.00              
ATOM    118  CA  ASN   118      -3.103  29.700  70.523  1.00  0.00              
ATOM    119  CA  GLU   119       0.245  27.995  71.090  1.00  0.00              
ATOM    120  CA  VAL   120       2.123  31.269  71.460  1.00  0.00              
ATOM    121  CA  LYS   121       0.356  33.149  74.051  1.00  0.00              
ATOM    122  CA  GLY   122       3.157  34.490  76.271  1.00  0.00              
ATOM    123  CA  LYS   123       5.971  34.067  74.043  1.00  0.00              
ATOM    124  CA  LYS   124       8.437  36.630  74.879  1.00  0.00              
ATOM    125  CA  VAL   125      10.665  38.353  72.091  1.00  0.00              
ATOM    126  CA  GLY   126      13.467  40.099  72.698  1.00  0.00              
ATOM    127  CA  VAL   127      14.890  42.839  70.608  1.00  0.00              
ATOM    128  CA  VAL   128      18.560  44.011  70.348  1.00  0.00              
ATOM    129  CA  GLY   129      19.201  46.892  69.619  1.00  0.00              
ATOM    130  CA  HIS   130      22.611  49.257  69.930  1.00  0.00              
ATOM    131  CA  PHE   131      23.551  50.368  72.788  1.00  0.00              
ATOM    132  CA  PRO   132      27.266  49.280  72.892  1.00  0.00              
ATOM    133  CA  HIS   133      27.481  47.186  76.047  1.00  0.00              
ATOM    134  CA  LEU   134      23.964  45.765  75.468  1.00  0.00              
ATOM    135  CA  GLU   135      24.434  44.819  71.899  1.00  0.00              
ATOM    136  CA  SER   136      27.466  43.206  72.474  1.00  0.00              
ATOM    137  CA  LEU   137      25.934  41.074  75.220  1.00  0.00              
ATOM    138  CA  LEU   138      23.028  40.264  72.937  1.00  0.00              
ATOM    139  CA  GLU   139      25.308  39.057  70.117  1.00  0.00              
ATOM    140  CA  PRO   140      27.378  36.919  72.410  1.00  0.00              
ATOM    141  CA  ILE   141      24.580  35.187  74.081  1.00  0.00              
ATOM    142  CA  CYS   142      21.850  35.183  71.776  1.00  0.00              
ATOM    143  CA  ASP   143      20.458  35.678  68.184  1.00  0.00              
ATOM    144  CA  LEU   144      18.688  38.227  68.375  1.00  0.00              
ATOM    145  CA  SER   145      16.961  40.019  65.101  1.00  0.00              
ATOM    146  CA  ILE   146      14.864  43.541  65.012  1.00  0.00              
ATOM    147  CA  LEU   147      12.849  43.887  62.448  1.00  0.00              
ATOM    148  CA  GLU   148      11.350  47.960  61.641  1.00  0.00              
ATOM    149  CA  TRP   149       9.676  48.726  59.167  1.00  0.00              
ATOM    150  CA  SER   150      10.465  52.396  59.083  1.00  0.00              
ATOM    151  CA  PRO   151      13.792  53.371  57.695  1.00  0.00              
ATOM    152  CA  GLU   152      14.734  56.242  59.955  1.00  0.00              
ATOM    153  CA  GLU   153      14.733  54.596  63.388  1.00  0.00              
ATOM    154  CA  GLY   154      16.395  51.316  62.630  1.00  0.00              
ATOM    155  CA  ASP   155      18.684  51.036  59.686  1.00  0.00              
ATOM    156  CA  TYR   156      17.829  47.696  58.198  1.00  0.00              
ATOM    157  CA  PRO   157      18.172  47.315  54.442  1.00  0.00              
ATOM    158  CA  LEU   158      15.578  44.985  53.088  1.00  0.00              
ATOM    159  CA  PRO   159      18.016  42.221  52.017  1.00  0.00              
ATOM    160  CA  ALA   160      19.635  42.316  55.468  1.00  0.00              
ATOM    161  CA  SER   161      16.236  42.123  57.278  1.00  0.00              
ATOM    162  CA  GLU   162      15.389  38.861  55.444  1.00  0.00              
ATOM    163  CA  PHE   163      18.764  37.446  56.429  1.00  0.00              
ATOM    164  CA  ILE   164      18.279  38.403  60.106  1.00  0.00              
ATOM    165  CA  LEU   165      14.915  36.821  60.300  1.00  0.00              
ATOM    166  CA  PRO   166      16.122  33.574  58.779  1.00  0.00              
ATOM    167  CA  GLU   167      18.988  33.058  61.177  1.00  0.00              
ATOM    168  CA  CYS   168      17.469  34.127  64.380  1.00  0.00              
ATOM    169  CA  ASP   169      15.978  32.723  67.561  1.00  0.00              
ATOM    170  CA  TYR   170      14.065  35.356  68.239  1.00  0.00              
ATOM    171  CA  VAL   171      12.410  37.872  66.669  1.00  0.00              
ATOM    172  CA  TYR   172      11.052  40.933  67.102  1.00  0.00              
ATOM    173  CA  ILE   173       8.583  43.626  65.457  1.00  0.00              
ATOM    174  CA  THR   174       7.803  46.901  65.677  1.00  0.00              
ATOM    175  CA  CYS   175       4.944  48.332  64.753  1.00  0.00              
ATOM    176  CA  ALA   176       1.962  48.048  62.327  1.00  0.00              
ATOM    177  CA  SER   177       3.880  48.571  59.137  1.00  0.00              
ATOM    178  CA  VAL   178       6.432  45.847  59.800  1.00  0.00              
ATOM    179  CA  VAL   179       3.925  43.178  60.811  1.00  0.00              
ATOM    180  CA  ASP   180       1.397  44.087  58.163  1.00  0.00              
ATOM    181  CA  LYS   181       3.723  44.193  55.174  1.00  0.00              
ATOM    182  CA  THR   182       5.396  40.962  55.933  1.00  0.00              
ATOM    183  CA  LEU   183       2.305  38.959  56.749  1.00  0.00              
ATOM    184  CA  PRO   184       3.092  35.965  54.700  1.00  0.00              
ATOM    185  CA  ARG   185       6.575  35.766  56.158  1.00  0.00              
ATOM    186  CA  LEU   186       5.362  36.174  59.751  1.00  0.00              
ATOM    187  CA  LEU   187       2.740  33.539  59.426  1.00  0.00              
ATOM    188  CA  GLU   188       5.229  31.076  57.939  1.00  0.00              
ATOM    189  CA  LEU   189       7.573  31.785  60.896  1.00  0.00              
ATOM    190  CA  SER   190       4.897  31.402  63.480  1.00  0.00              
ATOM    191  CA  ARG   191       4.299  27.873  62.256  1.00  0.00              
ATOM    192  CA  ASN   192       7.863  27.072  62.430  1.00  0.00              
ATOM    193  CA  ALA   193       8.805  28.015  66.088  1.00  0.00              
ATOM    194  CA  ARG   194      10.722  30.489  65.994  1.00  0.00              
ATOM    195  CA  ARG   195       9.241  33.370  68.802  1.00  0.00              
ATOM    196  CA  ILE   196       7.822  36.180  67.493  1.00  0.00              
ATOM    197  CA  THR   197       7.283  39.429  69.938  1.00  0.00              
ATOM    198  CA  LEU   198       5.110  42.223  68.733  1.00  0.00              
ATOM    199  CA  VAL   199       5.952  45.420  70.173  1.00  0.00              
ATOM    200  CA  GLY   200       3.964  48.996  68.826  1.00  0.00              
ATOM    201  CA  PRO   201       4.886  51.993  68.242  1.00  0.00              
ATOM    202  CA  GLY   202       7.390  52.138  65.383  1.00  0.00              
ATOM    203  CA  THR   203       9.393  55.383  65.489  1.00  0.00              
ATOM    204  CA  PRO   204       8.290  56.682  68.925  1.00  0.00              
ATOM    205  CA  LEU   205       9.326  53.591  71.026  1.00  0.00              
ATOM    206  CA  ALA   206      12.696  53.010  69.370  1.00  0.00              
ATOM    207  CA  PRO   207      13.665  56.683  69.580  1.00  0.00              
ATOM    208  CA  VAL   208      12.760  56.743  73.316  1.00  0.00              
ATOM    209  CA  LEU   209      14.715  53.537  73.996  1.00  0.00              
ATOM    210  CA  PHE   210      17.787  54.904  72.164  1.00  0.00              
ATOM    211  CA  GLU   211      17.621  58.121  74.127  1.00  0.00              
ATOM    212  CA  HIS   212      17.362  56.398  77.444  1.00  0.00              
ATOM    213  CA  GLY   213      20.369  54.194  76.792  1.00  0.00              
ATOM    214  CA  LEU   214      18.332  50.994  76.225  1.00  0.00              
ATOM    215  CA  GLN   215      20.183  48.040  75.165  1.00  0.00              
ATOM    216  CA  GLU   216      17.669  45.155  75.115  1.00  0.00              
ATOM    217  CA  LEU   217      14.075  45.723  74.337  1.00  0.00              
ATOM    218  CA  SER   218      11.744  43.190  75.844  1.00  0.00              
ATOM    219  CA  GLY   219       8.204  42.770  73.584  1.00  0.00              
ATOM    220  CA  PHE   220       5.658  41.446  75.109  1.00  0.00              
ATOM    221  CA  MET   221       2.282  41.416  72.943  1.00  0.00              
ATOM    222  CA  VAL   222      -1.397  40.908  74.748  1.00  0.00              
ATOM    223  CA  LYS   223      -3.567  40.012  72.548  1.00  0.00              
ATOM    224  CA  ASP   224      -7.338  39.162  73.838  1.00  0.00              
ATOM    225  CA  ASN   225      -7.844  35.612  72.644  1.00  0.00              
ATOM    226  CA  ALA   226     -11.548  36.028  72.126  1.00  0.00              
ATOM    227  CA  ARG   227     -11.112  38.978  69.819  1.00  0.00              
ATOM    228  CA  ALA   228      -8.466  37.148  67.772  1.00  0.00              
ATOM    229  CA  PHE   229     -10.521  34.067  67.350  1.00  0.00              
ATOM    230  CA  ARG   230     -13.588  36.034  66.219  1.00  0.00              
ATOM    231  CA  ILE   231     -11.614  38.046  63.701  1.00  0.00              
ATOM    232  CA  VAL   232      -9.892  35.096  62.198  1.00  0.00              
ATOM    233  CA  ALA   233     -12.887  32.849  61.961  1.00  0.00              
ATOM    234  CA  GLY   234     -15.341  35.275  60.404  1.00  0.00              
ATOM    235  CA  ALA   235     -13.232  36.893  57.742  1.00  0.00              
ATOM    236  CA  GLU   236     -13.417  40.421  58.567  1.00  0.00              
ATOM    237  CA  LYS   237     -11.624  42.372  61.184  1.00  0.00              
ATOM    238  CA  VAL   238      -8.375  44.195  60.432  1.00  0.00              
ATOM    239  CA  LYS   239      -9.411  47.545  61.925  1.00  0.00              
ATOM    240  CA  ILE   240     -10.924  46.066  65.096  1.00  0.00              
ATOM    241  CA  TYR   241      -7.977  43.821  66.065  1.00  0.00              
ATOM    242  CA  SER   242      -5.376  46.558  65.648  1.00  0.00              
ATOM    243  CA  ALA   243      -7.340  49.084  67.708  1.00  0.00              
ATOM    244  CA  GLY   244      -7.661  46.807  70.840  1.00  0.00              
ATOM    245  CA  GLN   245      -4.515  45.424  70.935  1.00  0.00              
ATOM    246  CA  LYS   246      -1.793  46.064  73.874  1.00  0.00              
ATOM    247  CA  VAL   247       1.405  46.321  73.364  1.00  0.00              
ATOM    248  CA  THR   248       4.124  46.282  76.102  1.00  0.00              
ATOM    249  CA  ILE   249       7.551  47.452  75.574  1.00  0.00              
ATOM    250  CA  LYS   250       9.995  47.035  78.163  1.00  0.00              
ATOM    251  CA  LYS   251      13.580  48.265  77.759  1.00  0.00              
TER                                                                             
END
