
#######################################################
#                                                     #
#                        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 T0323TS393_2-D1
# Molecule2: number of CA atoms  101 (  777),  selected  101 , name T0323_D1.pdb
# PARAMETERS: T0323TS393_2-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    M       1      A      16          2.499
LGA    R       2      Q      17          4.001
LGA    Y       3      D      18          3.450
LGA    -       -      S      19           -
LGA    -       -      R      20           -
LGA    -       -      L      21           -
LGA    F       4      F      22          0.914
LGA    S       5      Q      23          2.874
LGA    -       -      F      24           -
LGA    -       -      I      25           -
LGA    T       6      E      26          1.428
LGA    D       7      I      27          4.320
LGA    S       8      A      28          4.463
LGA    P       9      G      29          3.165
LGA    E      10      E      30          3.173
LGA    V      11      V      31          2.958
LGA    K      12      -       -           -
LGA    T      13      -       -           -
LGA    I      14      Q      32          1.540
LGA    V      15      -       -           -
LGA    A      16      -       -           -
LGA    Q      17      -       -           -
LGA    D      18      -       -           -
LGA    S      19      L      33          2.127
LGA    R      20      -       -           -
LGA    L      21      -       -           -
LGA    F      22      -       -           -
LGA    Q      23      L     150          1.621
LGA    F      24      D     151          2.707
LGA    I      25      -       -           -
LGA    E      26      -       -           -
LGA    I      27      -       -           -
LGA    A      28      V     152           #
LGA    G      29      L     153           -
LGA    E      30      S     154           -
LGA    V      31      -       -           -
LGA    Q      32      -       -           -
LGA    L      33      -       -           -
LGA    L     150      V     155           #
LGA    D     151      G     156          5.060
LGA    V     152      D     157          4.790
LGA    L     153      V     158          3.166
LGA    S     154      G     159          3.224
LGA    V     155      L     160          5.132
LGA    G     156      Q     161          3.628
LGA    D     157      R     162          2.841
LGA    V     158      G     163           #
LGA    -       -      A     164           -
LGA    G     159      K     165          5.318
LGA    L     160      W     166           -
LGA    -       -      L     167           -
LGA    -       -      Y     168           -
LGA    -       -      G     169           -
LGA    -       -      N     170           -
LGA    Q     161      G     171           #
LGA    R     162      E     172          3.834
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    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      G     173          4.967
LGA    V     192      D     174          2.265
LGA    A     193      G     175          2.802
LGA    -       -      K     176           -
LGA    C     194      K     177          1.044
LGA    L     195      L     178          0.448
LGA    Y     196      L     179          1.582
LGA    L     197      I     180          2.183
LGA    W     198      Y     181          1.874
LGA    K     199      H     182          2.228
LGA    A     200      G     183          2.170
LGA    A     201      K     184          2.398
LGA    G     202      A     185          4.600
LGA    T     203      W     186           -
LGA    F     204      A     187           -
LGA    A     205      P     188           -
LGA    E     206      Y     189           -
LGA    E     207      E     190           -
LGA    Y     208      T     191           -
LGA    R     209      V     192           -
LGA    S     210      A     193           -
LGA    L     211      C     194           -
LGA    E     212      L     195           -
LGA    E     213      Y     196           -
LGA    -       -      L     197           -
LGA    -       -      W     198           -
LGA    -       -      K     199           -
LGA    -       -      A     200           -
LGA    -       -      A     201           -
LGA    -       -      G     202           -
LGA    -       -      T     203           -
LGA    -       -      F     204           -
LGA    -       -      A     205           -
LGA    -       -      E     206           -
LGA    -       -      E     207           -
LGA    -       -      Y     208           -
LGA    -       -      R     209           -
LGA    -       -      S     210           -
LGA    L     214      L     211           #
LGA    L     215      E     212           #
LGA    -       -      E     213           -
LGA    -       -      L     214           -
LGA    H     216      L     215           #
LGA    H     217      H     216           -
LGA    -       -      H     217           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  101  101    5.0     36    3.23    11.11     22.011     1.081

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.376044 * X  +   0.745008 * Y  +  -0.550958 * Z  +   9.445685
  Y_new =  -0.172714 * X  +   0.527824 * Y  +   0.831608 * Z  +  38.401070
  Z_new =   0.910363 * X  +   0.407879 * Y  +  -0.069811 * Z  +  16.065495 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.740311   -1.401282  [ DEG:    99.7125    -80.2875 ]
  Theta =  -1.144161   -1.997432  [ DEG:   -65.5556   -114.4444 ]
  Phi   =  -2.711037    0.430555  [ DEG:  -155.3310     24.6690 ]
 
# 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: T0323TS393_2-D1                               
REMARK     2: T0323_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0323TS393_2-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   36   3.23   11.11  22.011
REMARK  ---------------------------------------------------------- 
MOLECULE T0323TS393_2-D1
PFRMAT TS
TARGET T0323
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      36.805  36.832  20.994  1.00 25.00           C
ATOM      2  CA  ARG     2      34.918  34.946  23.779  1.00 25.00           C
ATOM      3  CA  TYR     3      31.273  33.950  24.421  1.00 25.00           C
ATOM      4  CA  PHE     4      29.538  30.730  23.516  1.00 25.00           C
ATOM      5  CA  SER     5      28.917  27.430  25.323  1.00 25.00           C
ATOM      6  CA  THR     6      27.827  25.993  21.982  1.00 25.00           C
ATOM      7  CA  ASP     7      26.968  22.278  21.663  1.00 25.00           C
ATOM      8  CA  SER     8      25.290  23.294  18.478  1.00 25.00           C
ATOM      9  CA  PRO     9      24.118  20.791  15.827  1.00 25.00           C
ATOM     10  CA  GLU    10      21.251  23.133  14.847  1.00 25.00           C
ATOM     11  CA  VAL    11      23.708  26.057  14.553  1.00 25.00           C
ATOM     12  CA  LYS    12      26.010  23.932  12.350  1.00 25.00           C
ATOM     13  CA  THR    13      23.042  22.981  10.124  1.00 25.00           C
ATOM     14  CA  ILE    14      22.059  26.669   9.815  1.00 25.00           C
ATOM     15  CA  VAL    15      25.657  27.574   8.863  1.00 25.00           C
ATOM     16  CA  ALA    16      25.679  24.805   6.218  1.00 25.00           C
ATOM     17  CA  GLN    17      23.436  27.145   4.325  1.00 25.00           C
ATOM     18  CA  ASP    18      24.868  30.614   4.838  1.00 25.00           C
ATOM     19  CA  SER    19      21.805  31.205   7.011  1.00 25.00           C
ATOM     20  CA  ARG    20      20.792  34.867   6.529  1.00 25.00           C
ATOM     21  CA  LEU    21      21.892  35.667  10.109  1.00 25.00           C
ATOM     22  CA  PHE    22      25.255  33.943   9.488  1.00 25.00           C
ATOM     23  CA  GLN    23      25.720  35.958   6.264  1.00 25.00           C
ATOM     24  CA  PHE    24      24.928  39.198   8.144  1.00 25.00           C
ATOM     25  CA  ILE    25      27.470  38.275  10.856  1.00 25.00           C
ATOM     26  CA  GLU    26      30.112  37.570   8.173  1.00 25.00           C
ATOM     27  CA  ILE    27      29.384  40.955   6.534  1.00 25.00           C
ATOM     28  CA  ALA    28      26.784  41.501   3.797  1.00 25.00           C
ATOM     29  CA  GLY    29      29.054  44.308   2.654  1.00 25.00           C
ATOM     30  CA  GLU    30      27.099  47.437   1.729  1.00 25.00           C
ATOM     31  CA  VAL    31      23.958  47.380   3.810  1.00 25.00           C
ATOM     32  CA  GLN    32      21.906  50.139   2.225  1.00 25.00           C
ATOM     33  CA  LEU    33      19.603  47.400   1.024  1.00 25.00           C
ATOM    150  CA  LEU   150      16.141  52.130  16.483  1.00 25.00           C
ATOM    151  CA  ASP   151      17.263  49.005  14.712  1.00 25.00           C
ATOM    152  CA  VAL   152      15.346  45.795  15.337  1.00 25.00           C
ATOM    153  CA  LEU   153      13.104  42.962  16.415  1.00 25.00           C
ATOM    154  CA  SER   154      13.999  39.497  17.817  1.00 25.00           C
ATOM    155  CA  VAL   155      14.531  41.030  21.295  1.00 25.00           C
ATOM    156  CA  GLY   156      10.975  42.418  20.977  1.00 25.00           C
ATOM    157  CA  ASP   157       9.530  38.933  21.630  1.00 25.00           C
ATOM    158  CA  VAL   158      11.758  38.562  24.724  1.00 25.00           C
ATOM    159  CA  GLY   159      10.600  41.983  25.998  1.00 25.00           C
ATOM    160  CA  LEU   160       6.945  40.972  25.463  1.00 25.00           C
ATOM    161  CA  GLN   161       7.542  37.708  27.377  1.00 25.00           C
ATOM    162  CA  ARG   162       9.160  39.659  30.249  1.00 25.00           C
ATOM    163  CA  GLY   163       6.171  42.051  30.340  1.00 25.00           C
ATOM    164  CA  ALA   164       3.761  39.076  30.439  1.00 25.00           C
ATOM    165  CA  LYS   165       5.758  37.524  33.314  1.00 25.00           C
ATOM    166  CA  TRP   166       5.645  40.844  35.219  1.00 25.00           C
ATOM    167  CA  LEU   167       1.858  41.050  34.683  1.00 25.00           C
ATOM    168  CA  TYR   168       0.298  42.896  31.745  1.00 25.00           C
ATOM    169  CA  GLY   169      -2.593  43.322  34.224  1.00 25.00           C
ATOM    170  CA  ASN   170      -0.044  45.485  36.052  1.00 25.00           C
ATOM    171  CA  GLY   171      -2.257  45.860  39.086  1.00 25.00           C
ATOM    172  CA  GLU   172      -5.861  46.820  40.060  1.00 25.00           C
ATOM    173  CA  GLY   173      -9.349  47.930  39.048  1.00 25.00           C
ATOM    174  CA  ASP   174      -9.288  51.040  36.852  1.00 25.00           C
ATOM    175  CA  GLY   175      -9.227  53.577  33.951  1.00 25.00           C
ATOM    176  CA  LYS   176      -6.077  55.197  32.546  1.00 25.00           C
ATOM    177  CA  LYS   177      -4.399  52.254  34.332  1.00 25.00           C
ATOM    178  CA  LEU   178      -4.805  50.089  31.199  1.00 25.00           C
ATOM    179  CA  LEU   179      -3.267  52.864  29.053  1.00 25.00           C
ATOM    180  CA  ILE   180      -0.321  53.144  31.484  1.00 25.00           C
ATOM    181  CA  TYR   181       0.192  49.352  31.338  1.00 25.00           C
ATOM    182  CA  HIS   182       0.143  49.467  27.511  1.00 25.00           C
ATOM    183  CA  GLY   183       2.721  52.300  27.539  1.00 25.00           C
ATOM    184  CA  LYS   184       4.951  50.280  29.910  1.00 25.00           C
ATOM    185  CA  ALA   185       4.673  47.229  27.610  1.00 25.00           C
ATOM    186  CA  TRP   186       5.615  49.388  24.591  1.00 25.00           C
ATOM    187  CA  ALA   187       8.640  50.769  26.491  1.00 25.00           C
ATOM    188  CA  PRO   188       9.723  47.209  27.403  1.00 25.00           C
ATOM    189  CA  TYR   189       9.397  46.145  23.739  1.00 25.00           C
ATOM    190  CA  GLU   190      11.503  49.153  22.652  1.00 25.00           C
ATOM    191  CA  THR   191      14.172  48.253  25.246  1.00 25.00           C
ATOM    192  CA  VAL   192      14.214  44.637  23.985  1.00 25.00           C
ATOM    193  CA  ALA   193      14.604  45.873  20.382  1.00 25.00           C
ATOM    194  CA  CYS   194      17.502  48.139  21.446  1.00 25.00           C
ATOM    195  CA  LEU   195      19.180  45.196  23.233  1.00 25.00           C
ATOM    196  CA  TYR   196      18.774  43.031  20.100  1.00 25.00           C
ATOM    197  CA  LEU   197      20.313  45.806  17.954  1.00 25.00           C
ATOM    198  CA  TRP   198      23.259  46.086  20.385  1.00 25.00           C
ATOM    199  CA  LYS   199      23.772  42.294  20.239  1.00 25.00           C
ATOM    200  CA  ALA   200      23.723  42.410  16.412  1.00 25.00           C
ATOM    201  CA  ALA   201      26.301  45.242  16.440  1.00 25.00           C
ATOM    202  CA  GLY   202      28.292  46.375  19.455  1.00 25.00           C
ATOM    203  CA  THR   203      27.347  47.746  22.859  1.00 25.00           C
ATOM    204  CA  PHE   204      27.987  46.628  26.425  1.00 25.00           C
ATOM    205  CA  ALA   205      30.996  44.263  26.539  1.00 25.00           C
ATOM    206  CA  GLU   206      29.952  43.061  30.023  1.00 25.00           C
ATOM    207  CA  GLU   207      26.387  42.446  28.768  1.00 25.00           C
ATOM    208  CA  TYR   208      27.751  40.462  25.788  1.00 25.00           C
ATOM    209  CA  ARG   209      29.924  38.369  28.147  1.00 25.00           C
ATOM    210  CA  SER   210      26.886  37.681  30.375  1.00 25.00           C
ATOM    211  CA  LEU   211      24.849  36.615  27.312  1.00 25.00           C
ATOM    212  CA  GLU   212      27.676  34.275  26.216  1.00 25.00           C
ATOM    213  CA  GLU   213      27.812  32.755  29.729  1.00 25.00           C
ATOM    214  CA  LEU   214      24.020  32.225  29.673  1.00 25.00           C
ATOM    215  CA  LEU   215      24.281  30.530  26.249  1.00 25.00           C
ATOM    216  CA  HIS   216      27.065  28.251  27.562  1.00 25.00           C
ATOM    217  CA  HIS   217      29.084  26.532  24.867  1.00 25.00           C
TER
END
