
#######################################################
#                                                     #
#                        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  101 (  101),  selected  101 , name T0323TS168_1-D1
# Molecule2: number of CA atoms  101 (  777),  selected  101 , name T0323_D1.pdb
# PARAMETERS: T0323TS168_1-D1.T0323_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    R       2      -       -           -
LGA    Y       3      -       -           -
LGA    F       4      -       -           -
LGA    S       5      -       -           -
LGA    T       6      -       -           -
LGA    D       7      -       -           -
LGA    S       8      -       -           -
LGA    P       9      -       -           -
LGA    E      10      -       -           -
LGA    V      11      -       -           -
LGA    K      12      -       -           -
LGA    T      13      -       -           -
LGA    I      14      -       -           -
LGA    V      15      -       -           -
LGA    A      16      -       -           -
LGA    Q      17      -       -           -
LGA    D      18      -       -           -
LGA    S      19      M       1          0.803
LGA    R      20      R       2          3.498
LGA    L      21      Y       3          1.560
LGA    F      22      -       -           -
LGA    Q      23      -       -           -
LGA    F      24      -       -           -
LGA    I      25      F       4           #
LGA    E      26      S       5           -
LGA    I      27      -       -           -
LGA    A      28      -       -           -
LGA    G      29      -       -           -
LGA    E      30      -       -           -
LGA    V      31      -       -           -
LGA    Q      32      -       -           -
LGA    L      33      -       -           -
LGA    L     150      -       -           -
LGA    D     151      -       -           -
LGA    V     152      -       -           -
LGA    L     153      T       6          3.962
LGA    S     154      D       7          0.968
LGA    V     155      S       8          1.611
LGA    G     156      P       9          0.944
LGA    D     157      E      10          0.940
LGA    V     158      V      11          1.038
LGA    G     159      K      12          1.731
LGA    L     160      T      13          1.688
LGA    Q     161      I      14          1.318
LGA    R     162      V      15          1.958
LGA    G     163      A      16          2.363
LGA    A     164      Q      17          1.971
LGA    K     165      D      18          1.355
LGA    W     166      S      19          1.341
LGA    L     167      R      20           -
LGA    -       -      L      21           -
LGA    -       -      F      22           -
LGA    -       -      Q      23           -
LGA    -       -      F      24           -
LGA    -       -      I      25           -
LGA    -       -      E      26           -
LGA    -       -      I      27           -
LGA    -       -      A      28           -
LGA    -       -      G      29           -
LGA    -       -      E      30           -
LGA    -       -      V      31           -
LGA    -       -      Q      32           -
LGA    -       -      L      33           -
LGA    -       -      L     150           -
LGA    -       -      D     151           -
LGA    -       -      V     152           -
LGA    -       -      L     153           -
LGA    -       -      S     154           -
LGA    -       -      V     155           -
LGA    -       -      G     156           -
LGA    -       -      D     157           -
LGA    -       -      V     158           -
LGA    -       -      G     159           -
LGA    -       -      L     160           -
LGA    -       -      Q     161           -
LGA    -       -      R     162           -
LGA    -       -      G     163           -
LGA    -       -      A     164           -
LGA    -       -      K     165           -
LGA    -       -      W     166           -
LGA    -       -      L     167           -
LGA    -       -      Y     168           -
LGA    -       -      G     169           -
LGA    -       -      N     170           -
LGA    -       -      G     171           -
LGA    -       -      E     172           -
LGA    -       -      G     173           -
LGA    -       -      D     174           -
LGA    -       -      G     175           -
LGA    -       -      K     176           -
LGA    -       -      K     177           -
LGA    -       -      L     178           -
LGA    -       -      L     179           -
LGA    -       -      I     180           -
LGA    -       -      Y     181           -
LGA    Y     168      H     182           #
LGA    G     169      G     183           -
LGA    N     170      K     184           -
LGA    G     171      -       -           -
LGA    E     172      -       -           -
LGA    G     173      -       -           -
LGA    D     174      -       -           -
LGA    G     175      -       -           -
LGA    K     176      -       -           -
LGA    K     177      -       -           -
LGA    L     178      -       -           -
LGA    L     179      -       -           -
LGA    I     180      -       -           -
LGA    Y     181      -       -           -
LGA    H     182      -       -           -
LGA    G     183      -       -           -
LGA    K     184      -       -           -
LGA    A     185      -       -           -
LGA    W     186      -       -           -
LGA    A     187      -       -           -
LGA    P     188      -       -           -
LGA    Y     189      -       -           -
LGA    E     190      -       -           -
LGA    T     191      A     185           #
LGA    V     192      -       -           -
LGA    A     193      W     186           #
LGA    C     194      A     187          2.096
LGA    L     195      -       -           -
LGA    Y     196      P     188          2.881
LGA    L     197      Y     189          1.642
LGA    W     198      -       -           -
LGA    K     199      -       -           -
LGA    A     200      -       -           -
LGA    A     201      -       -           -
LGA    G     202      E     190          3.722
LGA    T     203      T     191          3.810
LGA    F     204      V     192           -
LGA    A     205      A     193           -
LGA    E     206      -       -           -
LGA    E     207      C     194          2.225
LGA    Y     208      L     195           -
LGA    -       -      Y     196           -
LGA    R     209      L     197          4.954
LGA    S     210      W     198          0.645
LGA    -       -      K     199           -
LGA    L     211      A     200          2.542
LGA    E     212      A     201          2.518
LGA    E     213      G     202          2.122
LGA    L     214      T     203          4.313
LGA    L     215      F     204          2.447
LGA    H     216      A     205          1.968
LGA    H     217      E     206          3.772
LGA    -       -      E     207           -
LGA    -       -      Y     208           -
LGA    -       -      R     209           -
LGA    -       -      S     210           -
LGA    -       -      L     211           -
LGA    -       -      E     212           -
LGA    -       -      E     213           -
LGA    -       -      L     214           -
LGA    -       -      L     215           -
LGA    -       -      H     216           -
LGA    -       -      H     217           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  101  101    5.0     32    2.47     9.38     21.487     1.244

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.359746 * X  +  -0.932994 * Y  +  -0.010247 * Z  +  37.638824
  Y_new =   0.906741 * X  +   0.346992 * Y  +   0.239620 * Z  +  26.743135
  Z_new =  -0.220009 * X  +  -0.095494 * Y  +   0.970813 * Z  +  13.771537 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.098050    3.043543  [ DEG:    -5.6178    174.3822 ]
  Theta =   0.221823    2.919770  [ DEG:    12.7095    167.2905 ]
  Phi   =   1.193098   -1.948495  [ DEG:    68.3595   -111.6405 ]
 
# 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: T0323TS168_1-D1                               
REMARK     2: T0323_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0323TS168_1-D1.T0323_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  101  101   5.0   32   2.47    9.38  21.487
REMARK  ---------------------------------------------------------- 
MOLECULE T0323TS168_1-D1
PFRMAT TS
TARGET T0323
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      28.228   3.754   1.720  1.00 25.00           C
ATOM      2  CA  ARG     2      30.978   5.961   0.408  1.00 25.00           C
ATOM      3  CA  TYR     3      29.825   8.938  -1.543  1.00 25.00           C
ATOM      4  CA  PHE     4      28.631  11.029  -4.423  1.00 25.00           C
ATOM      5  CA  SER     5      29.530  11.735  -8.034  1.00 25.00           C
ATOM      6  CA  THR     6      30.563  15.310  -7.254  1.00 25.00           C
ATOM      7  CA  ASP     7      29.889  16.720 -10.733  1.00 25.00           C
ATOM      8  CA  SER     8      29.497  19.985  -8.855  1.00 25.00           C
ATOM      9  CA  PRO     9      26.353  19.067  -6.871  1.00 25.00           C
ATOM     10  CA  GLU    10      27.960  20.396  -3.660  1.00 25.00           C
ATOM     11  CA  VAL    11      28.878  23.659  -5.441  1.00 25.00           C
ATOM     12  CA  LYS    12      25.284  24.003  -6.716  1.00 25.00           C
ATOM     13  CA  THR    13      23.946  23.427  -3.175  1.00 25.00           C
ATOM     14  CA  ILE    14      26.337  26.090  -1.812  1.00 25.00           C
ATOM     15  CA  VAL    15      25.176  28.548  -4.508  1.00 25.00           C
ATOM     16  CA  ALA    16      21.520  27.837  -3.616  1.00 25.00           C
ATOM     17  CA  GLN    17      18.427  28.481  -1.498  1.00 25.00           C
ATOM     18  CA  ASP    18      19.989  28.999   1.891  1.00 25.00           C
ATOM     19  CA  SER    19      22.021  25.876   1.212  1.00 25.00           C
ATOM     20  CA  ARG    20      24.898  23.580   2.268  1.00 25.00           C
ATOM     21  CA  LEU    21      24.968  25.220   5.729  1.00 25.00           C
ATOM     22  CA  PHE    22      21.184  24.734   6.063  1.00 25.00           C
ATOM     23  CA  GLN    23      21.546  21.050   5.079  1.00 25.00           C
ATOM     24  CA  PHE    24      24.322  20.603   7.680  1.00 25.00           C
ATOM     25  CA  ILE    25      22.114  22.229  10.353  1.00 25.00           C
ATOM     26  CA  GLU    26      19.222  19.899   9.417  1.00 25.00           C
ATOM     27  CA  ILE    27      21.551  16.870   9.662  1.00 25.00           C
ATOM     28  CA  ALA    28      22.354  13.253   8.935  1.00 25.00           C
ATOM     29  CA  GLY    29      20.744  11.683  12.047  1.00 25.00           C
ATOM     30  CA  GLU    30      23.275   8.827  11.471  1.00 25.00           C
ATOM     31  CA  VAL    31      26.236  11.229  11.964  1.00 25.00           C
ATOM     32  CA  GLN    32      26.136  10.106  15.627  1.00 25.00           C
ATOM     33  CA  LEU    33      29.771  11.022  16.129  1.00 25.00           C
ATOM    150  CA  LEU   150      29.546  21.186  22.776  1.00 25.00           C
ATOM    151  CA  ASP   151      26.573  22.227  20.641  1.00 25.00           C
ATOM    152  CA  VAL   152      28.888  24.760  18.935  1.00 25.00           C
ATOM    153  CA  LEU   153      32.634  24.858  18.241  1.00 25.00           C
ATOM    154  CA  SER   154      32.457  25.683  14.561  1.00 25.00           C
ATOM    155  CA  VAL   155      31.189  27.840  11.631  1.00 25.00           C
ATOM    156  CA  GLY   156      34.167  30.135  12.361  1.00 25.00           C
ATOM    157  CA  ASP   157      31.853  33.187  12.333  1.00 25.00           C
ATOM    158  CA  VAL   158      29.458  31.424  14.745  1.00 25.00           C
ATOM    159  CA  GLY   159      32.383  30.576  17.069  1.00 25.00           C
ATOM    160  CA  LEU   160      33.542  34.224  16.983  1.00 25.00           C
ATOM    161  CA  GLN   161      29.993  35.397  17.823  1.00 25.00           C
ATOM    162  CA  ARG   162      29.846  32.932  20.750  1.00 25.00           C
ATOM    163  CA  GLY   163      33.224  34.208  22.027  1.00 25.00           C
ATOM    164  CA  ALA   164      31.978  37.820  21.788  1.00 25.00           C
ATOM    165  CA  LYS   165      28.811  36.883  23.728  1.00 25.00           C
ATOM    166  CA  TRP   166      30.936  35.187  26.425  1.00 25.00           C
ATOM    167  CA  LEU   167      33.144  38.306  26.682  1.00 25.00           C
ATOM    168  CA  TYR   168      32.991  42.049  27.301  1.00 25.00           C
ATOM    169  CA  GLY   169      31.772  41.866  30.905  1.00 25.00           C
ATOM    170  CA  ASN   170      33.755  39.378  33.081  1.00 25.00           C
ATOM    171  CA  GLY   171      32.397  41.166  36.159  1.00 25.00           C
ATOM    172  CA  GLU   172      35.598  40.661  38.118  1.00 25.00           C
ATOM    173  CA  GLY   173      39.217  40.226  39.159  1.00 25.00           C
ATOM    174  CA  ASP   174      42.769  40.805  37.967  1.00 25.00           C
ATOM    175  CA  GLY   175      43.887  38.136  35.534  1.00 25.00           C
ATOM    176  CA  LYS   176      47.507  36.942  35.403  1.00 25.00           C
ATOM    177  CA  LYS   177      48.974  39.320  32.784  1.00 25.00           C
ATOM    178  CA  LEU   178      49.224  36.439  30.273  1.00 25.00           C
ATOM    179  CA  LEU   179      45.579  35.487  30.965  1.00 25.00           C
ATOM    180  CA  ILE   180      44.503  39.125  30.434  1.00 25.00           C
ATOM    181  CA  TYR   181      46.430  39.238  27.126  1.00 25.00           C
ATOM    182  CA  HIS   182      44.745  35.987  26.005  1.00 25.00           C
ATOM    183  CA  GLY   183      41.312  37.428  26.902  1.00 25.00           C
ATOM    184  CA  LYS   184      42.098  40.605  24.912  1.00 25.00           C
ATOM    185  CA  ALA   185      43.166  38.486  21.906  1.00 25.00           C
ATOM    186  CA  TRP   186      39.918  36.471  22.139  1.00 25.00           C
ATOM    187  CA  ALA   187      37.885  39.715  22.265  1.00 25.00           C
ATOM    188  CA  PRO   188      39.748  41.029  19.187  1.00 25.00           C
ATOM    189  CA  TYR   189      39.042  37.754  17.330  1.00 25.00           C
ATOM    190  CA  GLU   190      35.334  38.003  18.253  1.00 25.00           C
ATOM    191  CA  THR   191      35.236  41.618  16.989  1.00 25.00           C
ATOM    192  CA  VAL   192      36.888  40.539  13.705  1.00 25.00           C
ATOM    193  CA  ALA   193      34.319  37.726  13.309  1.00 25.00           C
ATOM    194  CA  CYS   194      31.469  40.206  13.930  1.00 25.00           C
ATOM    195  CA  LEU   195      32.935  42.584  11.310  1.00 25.00           C
ATOM    196  CA  TYR   196      33.185  39.703   8.799  1.00 25.00           C
ATOM    197  CA  LEU   197      29.541  38.751   9.490  1.00 25.00           C
ATOM    198  CA  TRP   198      28.465  42.389   8.961  1.00 25.00           C
ATOM    199  CA  LYS   199      30.392  42.503   5.653  1.00 25.00           C
ATOM    200  CA  ALA   200      28.707  39.251   4.531  1.00 25.00           C
ATOM    201  CA  ALA   201      25.273  40.693   5.429  1.00 25.00           C
ATOM    202  CA  GLY   202      24.171  39.773   8.922  1.00 25.00           C
ATOM    203  CA  THR   203      23.180  40.177  12.623  1.00 25.00           C
ATOM    204  CA  PHE   204      20.169  41.828  14.227  1.00 25.00           C
ATOM    205  CA  ALA   205      16.557  42.009  15.485  1.00 25.00           C
ATOM    206  CA  GLU   206      15.655  38.915  13.414  1.00 25.00           C
ATOM    207  CA  GLU   207      18.670  37.043  14.856  1.00 25.00           C
ATOM    208  CA  TYR   208      17.612  38.021  18.404  1.00 25.00           C
ATOM    209  CA  ARG   209      14.054  36.788  17.709  1.00 25.00           C
ATOM    210  CA  SER   210      15.436  33.472  16.381  1.00 25.00           C
ATOM    211  CA  LEU   211      17.602  33.091  19.516  1.00 25.00           C
ATOM    212  CA  GLU   212      14.556  33.774  21.735  1.00 25.00           C
ATOM    213  CA  GLU   213      12.535  31.151  19.808  1.00 25.00           C
ATOM    214  CA  LEU   214      15.371  28.614  20.238  1.00 25.00           C
ATOM    215  CA  LEU   215      15.496  29.351  23.994  1.00 25.00           C
ATOM    216  CA  HIS   216      11.704  28.867  24.238  1.00 25.00           C
ATOM    217  CA  HIS   217      10.157  25.939  22.291  1.00 25.00           C
TER
END
