
#######################################################
#                                                     #
#                        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  142 (  142),  selected  142 , name T0324TS393_2-D1
# Molecule2: number of CA atoms  142 ( 1080),  selected  142 , name T0324_D1.pdb
# PARAMETERS: T0324TS393_2-D1.T0324_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    T       2      T       2           -
LGA    Y       3      Y       3           #
LGA    Q       4      Q       4           #
LGA    A       5      A       5           #
LGA    L       6      L       6          4.737
LGA    M       7      M       7          3.355
LGA    F       8      F       8          2.130
LGA    D       9      D       9          1.080
LGA    I      10      I      10          1.158
LGA    D      11      D      11          1.183
LGA    G      12      G      12          3.041
LGA    T      13      T      13          3.744
LGA    L      14      L      14          3.744
LGA    T      15      -       -           -
LGA    N      16      T      15          2.742
LGA    E      82      N      16           -
LGA    L      83      E      82           #
LGA    Y      84      L      83          1.916
LGA    -       -      Y      84           -
LGA    P      85      P      85          3.401
LGA    G      86      G      86          2.775
LGA    I      87      I      87          2.619
LGA    T      88      T      88          3.101
LGA    S      89      S      89          2.388
LGA    L      90      L      90          2.126
LGA    F      91      F      91          2.471
LGA    E      92      E      92          3.113
LGA    Q      93      Q      93          2.951
LGA    L      94      L      94          2.628
LGA    P      95      P      95          2.404
LGA    S      96      S      96          3.907
LGA    E      97      E      97          3.908
LGA    L      98      L      98          2.550
LGA    R      99      R      99          5.156
LGA    L     100      L     100          3.605
LGA    G     101      G     101          2.055
LGA    I     102      I     102          0.987
LGA    V     103      V     103          1.868
LGA    T     104      T     104          1.449
LGA    S     105      S     105          2.380
LGA    Q     106      Q     106          3.037
LGA    R     107      R     107          3.578
LGA    R     108      R     108          3.652
LGA    N     109      N     109          2.748
LGA    E     110      E     110          1.437
LGA    L     111      L     111          1.872
LGA    E     112      E     112          4.578
LGA    S     113      S     113          4.781
LGA    G     114      G     114          3.737
LGA    M     115      M     115          4.538
LGA    R     116      -       -           -
LGA    S     117      R     116          1.256
LGA    Y     118      S     117          4.161
LGA    P     119      Y     118          1.932
LGA    -       -      P     119           -
LGA    F     120      F     120          1.844
LGA    M     121      M     121          4.625
LGA    M     122      M     122          0.768
LGA    R     123      R     123          3.227
LGA    M     124      M     124          2.682
LGA    A     125      A     125          2.550
LGA    V     126      V     126          3.891
LGA    T     127      T     127          2.066
LGA    I     128      I     128          1.741
LGA    S     129      S     129          2.470
LGA    -       -      A     130           -
LGA    -       -      D     131           -
LGA    A     130      D     132          3.191
LGA    D     131      T     133          1.308
LGA    D     132      P     134          3.558
LGA    T     133      K     135          1.869
LGA    P     134      R     136          3.184
LGA    K     135      -       -           -
LGA    R     136      -       -           -
LGA    K     137      K     137          2.274
LGA    P     138      P     138          2.267
LGA    D     139      D     139          1.624
LGA    P     140      P     140          3.319
LGA    L     141      L     141          1.590
LGA    P     142      P     142          1.496
LGA    L     143      L     143          2.317
LGA    L     144      L     144          1.902
LGA    T     145      T     145          1.229
LGA    A     146      A     146          1.899
LGA    L     147      L     147          2.125
LGA    E     148      E     148          1.710
LGA    K     149      K     149          1.613
LGA    V     150      V     150          2.402
LGA    N     151      N     151          2.728
LGA    V     152      V     152          2.227
LGA    A     153      A     153          2.879
LGA    P     154      P     154          2.569
LGA    Q     155      Q     155          3.905
LGA    N     156      N     156          2.019
LGA    A     157      A     157          1.890
LGA    L     158      L     158          1.589
LGA    F     159      F     159          1.149
LGA    I     160      I     160          1.929
LGA    G     161      G     161          1.429
LGA    D     162      D     162          2.722
LGA    S     163      S     163          2.941
LGA    V     164      V     164          1.220
LGA    S     165      S     165          0.900
LGA    D     166      D     166          1.740
LGA    E     167      E     167          2.083
LGA    Q     168      Q     168          1.538
LGA    T     169      T     169          0.484
LGA    A     170      A     170          1.880
LGA    Q     171      Q     171          3.114
LGA    A     172      A     172          2.793
LGA    A     173      A     173          1.546
LGA    N     174      N     174          2.859
LGA    V     175      V     175          1.933
LGA    D     176      D     176          1.413
LGA    F     177      F     177          1.580
LGA    G     178      G     178          0.837
LGA    L     179      L     179          0.674
LGA    A     180      A     180          2.338
LGA    V     181      V     181          4.967
LGA    W     182      W     182          3.212
LGA    G     183      G     183          1.903
LGA    M     184      M     184          4.412
LGA    D     185      D     185          2.573
LGA    P     186      P     186          2.545
LGA    -       -      N     187           -
LGA    N     187      A     188          5.288
LGA    A     188      D     189          4.654
LGA    D     189      H     190          3.867
LGA    H     190      Q     191          4.490
LGA    Q     191      -       -           -
LGA    K     192      K     192          0.666
LGA    V     193      V     193          0.294
LGA    A     194      A     194          4.013
LGA    H     195      H     195          2.240
LGA    R     196      R     196          3.641
LGA    F     197      F     197          3.464
LGA    Q     198      -       -           -
LGA    K     199      Q     198          2.248
LGA    P     200      K     199          4.103
LGA    L     201      -       -           -
LGA    D     202      -       -           -
LGA    I     203      P     200           #
LGA    L     204      L     201           -
LGA    E     205      D     202           -
LGA    L     206      I     203           -
LGA    F     207      L     204           -
LGA    -       -      E     205           -
LGA    -       -      L     206           -
LGA    -       -      F     207           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  142  142    5.0    122    2.79    86.89     52.972     4.220

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.469689 * X  +   0.139495 * Y  +  -0.871742 * Z  +  27.558548
  Y_new =  -0.814906 * X  +   0.311323 * Y  +   0.488884 * Z  +  18.932444
  Z_new =   0.339590 * X  +   0.940010 * Y  +  -0.032549 * Z  +  21.817900 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.605409   -1.536184  [ DEG:    91.9832    -88.0168 ]
  Theta =  -0.346481   -2.795112  [ DEG:   -19.8519   -160.1481 ]
  Phi   =  -2.093661    1.047931  [ DEG:  -119.9580     60.0420 ]
 
# 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: T0324TS393_2-D1                               
REMARK     2: T0324_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0324TS393_2-D1.T0324_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  142  142   5.0  122   2.79   86.89  52.972
REMARK  ---------------------------------------------------------- 
MOLECULE T0324TS393_2-D1
PFRMAT TS
TARGET T0324
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      35.824  30.413  47.245  1.00 25.00           C
ATOM      2  CA  THR     2      34.162  29.258  44.081  1.00 25.00           C
ATOM      3  CA  TYR     3      33.095  28.027  40.582  1.00 25.00           C
ATOM      4  CA  GLN     4      33.369  25.489  37.710  1.00 25.00           C
ATOM      5  CA  ALA     5      34.282  23.690  34.450  1.00 25.00           C
ATOM      6  CA  LEU     6      33.936  25.118  30.963  1.00 25.00           C
ATOM      7  CA  MET     7      30.839  25.798  28.850  1.00 25.00           C
ATOM      8  CA  PHE     8      29.200  25.662  25.393  1.00 25.00           C
ATOM      9  CA  ASP     9      26.368  23.740  23.746  1.00 25.00           C
ATOM     10  CA  ILE    10      26.804  20.274  22.150  1.00 25.00           C
ATOM     11  CA  ASP    11      25.450  22.175  19.130  1.00 25.00           C
ATOM     12  CA  GLY    12      28.413  24.486  18.552  1.00 25.00           C
ATOM     13  CA  THR    13      31.365  24.513  20.876  1.00 25.00           C
ATOM     14  CA  LEU    14      31.815  21.258  22.716  1.00 25.00           C
ATOM     15  CA  THR    15      32.050  18.408  20.205  1.00 25.00           C
ATOM     16  CA  ASN    16      30.751  18.964  16.672  1.00 25.00           C
ATOM     82  CA  GLU    82      40.080  19.945  15.226  1.00 25.00           C
ATOM     83  CA  LEU    83      37.611  20.640  18.016  1.00 25.00           C
ATOM     84  CA  TYR    84      35.863  23.621  16.389  1.00 25.00           C
ATOM     85  CA  PRO    85      39.473  24.954  16.245  1.00 25.00           C
ATOM     86  CA  GLY    86      38.600  26.789  19.503  1.00 25.00           C
ATOM     87  CA  ILE    87      36.753  24.742  22.138  1.00 25.00           C
ATOM     88  CA  THR    88      40.007  23.810  23.931  1.00 25.00           C
ATOM     89  CA  SER    89      41.134  27.470  23.839  1.00 25.00           C
ATOM     90  CA  LEU    90      37.760  28.570  25.280  1.00 25.00           C
ATOM     91  CA  PHE    91      38.077  25.968  28.072  1.00 25.00           C
ATOM     92  CA  GLU    92      41.612  27.212  28.864  1.00 25.00           C
ATOM     93  CA  GLN    93      40.339  30.821  28.998  1.00 25.00           C
ATOM     94  CA  LEU    94      37.518  29.765  31.362  1.00 25.00           C
ATOM     95  CA  PRO    95      40.042  27.962  33.608  1.00 25.00           C
ATOM     96  CA  SER    96      41.498  30.841  35.695  1.00 25.00           C
ATOM     97  CA  GLU    97      37.907  31.472  36.782  1.00 25.00           C
ATOM     98  CA  LEU    98      34.710  29.844  35.500  1.00 25.00           C
ATOM     99  CA  ARG    99      31.842  28.536  33.423  1.00 25.00           C
ATOM    100  CA  LEU   100      30.045  25.264  33.900  1.00 25.00           C
ATOM    101  CA  GLY   101      28.666  22.263  32.041  1.00 25.00           C
ATOM    102  CA  ILE   102      28.090  21.251  28.454  1.00 25.00           C
ATOM    103  CA  VAL   103      24.360  21.652  27.618  1.00 25.00           C
ATOM    104  CA  THR   104      24.454  18.058  26.274  1.00 25.00           C
ATOM    105  CA  SER   105      21.494  18.835  24.015  1.00 25.00           C
ATOM    106  CA  GLN   106      23.269  16.842  21.266  1.00 25.00           C
ATOM    107  CA  ARG   107      21.322  13.901  22.710  1.00 25.00           C
ATOM    108  CA  ARG   108      21.960  10.841  24.827  1.00 25.00           C
ATOM    109  CA  ASN   109      24.613   8.167  25.516  1.00 25.00           C
ATOM    110  CA  GLU   110      26.406   9.070  22.254  1.00 25.00           C
ATOM    111  CA  LEU   111      26.342  12.776  23.216  1.00 25.00           C
ATOM    112  CA  GLU   112      27.785  11.931  26.663  1.00 25.00           C
ATOM    113  CA  SER   113      30.560   9.864  25.021  1.00 25.00           C
ATOM    114  CA  GLY   114      31.366  12.772  22.663  1.00 25.00           C
ATOM    115  CA  MET   115      31.524  15.175  25.641  1.00 25.00           C
ATOM    116  CA  ARG   116      33.875  12.777  27.483  1.00 25.00           C
ATOM    117  CA  SER   117      36.113  12.552  24.384  1.00 25.00           C
ATOM    118  CA  TYR   118      36.652  15.681  22.199  1.00 25.00           C
ATOM    119  CA  PRO   119      40.382  15.392  22.847  1.00 25.00           C
ATOM    120  CA  PHE   120      39.947  18.829  24.427  1.00 25.00           C
ATOM    121  CA  MET   121      41.311  17.086  27.583  1.00 25.00           C
ATOM    122  CA  MET   122      39.264  16.575  30.757  1.00 25.00           C
ATOM    123  CA  ARG   123      36.329  18.517  29.360  1.00 25.00           C
ATOM    124  CA  MET   124      33.242  20.606  30.048  1.00 25.00           C
ATOM    125  CA  ALA   125      32.159  18.878  33.246  1.00 25.00           C
ATOM    126  CA  VAL   126      30.341  16.960  30.541  1.00 25.00           C
ATOM    127  CA  THR   127      26.527  16.972  30.588  1.00 25.00           C
ATOM    128  CA  ILE   128      23.576  14.669  31.083  1.00 25.00           C
ATOM    129  CA  SER   129      20.854  15.028  28.380  1.00 25.00           C
ATOM    130  CA  ALA   130      18.719  13.331  31.012  1.00 25.00           C
ATOM    131  CA  ASP   131      18.268  13.742  34.805  1.00 25.00           C
ATOM    132  CA  ASP   132      15.188  15.814  33.803  1.00 25.00           C
ATOM    133  CA  THR   133      14.714  16.408  30.109  1.00 25.00           C
ATOM    134  CA  PRO   134      11.709  16.558  27.736  1.00 25.00           C
ATOM    135  CA  LYS   135      13.116  16.513  24.238  1.00 25.00           C
ATOM    136  CA  ARG   136      16.676  16.129  25.473  1.00 25.00           C
ATOM    137  CA  LYS   137      16.740  19.944  25.644  1.00 25.00           C
ATOM    138  CA  PRO   138      13.360  21.699  26.101  1.00 25.00           C
ATOM    139  CA  ASP   139      14.230  22.055  29.814  1.00 25.00           C
ATOM    140  CA  PRO   140      17.753  22.964  30.934  1.00 25.00           C
ATOM    141  CA  LEU   141      17.156  20.413  33.729  1.00 25.00           C
ATOM    142  CA  PRO   142      20.000  18.232  32.379  1.00 25.00           C
ATOM    143  CA  LEU   143      22.322  21.276  32.284  1.00 25.00           C
ATOM    144  CA  LEU   144      21.385  22.136  35.895  1.00 25.00           C
ATOM    145  CA  THR   145      22.100  18.529  36.966  1.00 25.00           C
ATOM    146  CA  ALA   146      25.501  18.657  35.211  1.00 25.00           C
ATOM    147  CA  LEU   147      26.316  21.955  36.980  1.00 25.00           C
ATOM    148  CA  GLU   148      25.344  20.417  40.350  1.00 25.00           C
ATOM    149  CA  LYS   149      27.579  17.388  39.641  1.00 25.00           C
ATOM    150  CA  VAL   150      30.488  19.714  38.747  1.00 25.00           C
ATOM    151  CA  ASN   151      30.097  22.027  41.761  1.00 25.00           C
ATOM    152  CA  VAL   152      28.901  25.335  40.169  1.00 25.00           C
ATOM    153  CA  ALA   153      25.679  25.949  42.127  1.00 25.00           C
ATOM    154  CA  PRO   154      24.234  27.895  39.171  1.00 25.00           C
ATOM    155  CA  GLN   155      26.097  30.891  40.663  1.00 25.00           C
ATOM    156  CA  ASN   156      27.379  31.855  37.186  1.00 25.00           C
ATOM    157  CA  ALA   157      26.958  29.343  34.361  1.00 25.00           C
ATOM    158  CA  LEU   158      26.845  30.516  30.745  1.00 25.00           C
ATOM    159  CA  PHE   159      24.774  27.766  29.201  1.00 25.00           C
ATOM    160  CA  ILE   160      24.834  28.495  25.514  1.00 25.00           C
ATOM    161  CA  GLY   161      24.517  28.000  21.707  1.00 25.00           C
ATOM    162  CA  ASP   162      21.819  26.523  19.541  1.00 25.00           C
ATOM    163  CA  SER   163      18.300  25.113  19.788  1.00 25.00           C
ATOM    164  CA  VAL   164      16.408  28.243  20.884  1.00 25.00           C
ATOM    165  CA  SER   165      14.628  26.114  23.522  1.00 25.00           C
ATOM    166  CA  ASP   166      18.002  25.130  25.041  1.00 25.00           C
ATOM    167  CA  GLU   167      19.054  28.811  25.151  1.00 25.00           C
ATOM    168  CA  GLN   168      15.756  29.727  26.871  1.00 25.00           C
ATOM    169  CA  THR   169      16.293  26.938  29.440  1.00 25.00           C
ATOM    170  CA  ALA   170      19.847  28.201  30.105  1.00 25.00           C
ATOM    171  CA  GLN   171      18.520  31.761  30.582  1.00 25.00           C
ATOM    172  CA  ALA   172      15.870  30.472  33.028  1.00 25.00           C
ATOM    173  CA  ALA   173      18.108  28.097  34.847  1.00 25.00           C
ATOM    174  CA  ASN   174      20.038  30.866  36.546  1.00 25.00           C
ATOM    175  CA  VAL   175      22.452  30.984  33.639  1.00 25.00           C
ATOM    176  CA  ASP   176      21.878  34.766  33.359  1.00 25.00           C
ATOM    177  CA  PHE   177      22.850  34.139  29.747  1.00 25.00           C
ATOM    178  CA  GLY   178      24.868  33.427  26.603  1.00 25.00           C
ATOM    179  CA  LEU   179      24.681  32.975  22.886  1.00 25.00           C
ATOM    180  CA  ALA   180      28.228  31.806  22.478  1.00 25.00           C
ATOM    181  CA  VAL   181      30.535  31.918  19.460  1.00 25.00           C
ATOM    182  CA  TRP   182      27.500  30.520  17.649  1.00 25.00           C
ATOM    183  CA  GLY   183      24.761  28.519  15.904  1.00 25.00           C
ATOM    184  CA  MET   184      22.270  31.153  16.857  1.00 25.00           C
ATOM    185  CA  ASP   185      18.707  30.664  15.644  1.00 25.00           C
ATOM    186  CA  PRO   186      16.851  33.932  14.857  1.00 25.00           C
ATOM    187  CA  ASN   187      18.478  37.173  16.142  1.00 25.00           C
ATOM    188  CA  ALA   188      15.626  37.860  18.605  1.00 25.00           C
ATOM    189  CA  ASP   189      17.036  35.232  21.008  1.00 25.00           C
ATOM    190  CA  HIS   190      20.508  36.830  20.758  1.00 25.00           C
ATOM    191  CA  GLN   191      19.003  40.274  21.488  1.00 25.00           C
ATOM    192  CA  LYS   192      17.163  38.852  24.532  1.00 25.00           C
ATOM    193  CA  VAL   193      20.277  37.846  26.469  1.00 25.00           C
ATOM    194  CA  ALA   194      21.908  41.275  26.325  1.00 25.00           C
ATOM    195  CA  HIS   195      24.870  39.356  24.989  1.00 25.00           C
ATOM    196  CA  ARG   196      24.251  40.343  21.377  1.00 25.00           C
ATOM    197  CA  PHE   197      26.602  37.450  20.623  1.00 25.00           C
ATOM    198  CA  GLN   198      28.852  40.121  19.152  1.00 25.00           C
ATOM    199  CA  LYS   199      32.217  38.673  18.164  1.00 25.00           C
ATOM    200  CA  PRO   200      30.017  36.094  16.341  1.00 25.00           C
ATOM    201  CA  LEU   201      28.403  38.322  13.676  1.00 25.00           C
ATOM    202  CA  ASP   202      29.228  35.733  10.977  1.00 25.00           C
ATOM    203  CA  ILE   203      27.690  32.963  13.129  1.00 25.00           C
ATOM    204  CA  LEU   204      24.533  35.073  13.630  1.00 25.00           C
ATOM    205  CA  GLU   205      24.301  35.668   9.855  1.00 25.00           C
ATOM    206  CA  LEU   206      24.672  31.910   9.214  1.00 25.00           C
ATOM    207  CA  PHE   207      21.908  31.178  11.762  1.00 25.00           C
TER
END
