
#######################################################
#                                                     #
#                        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  127 (  127),  selected  127 , name T0383TS393_4
# Molecule2: number of CA atoms  125 ( 1020),  selected  125 , name T0383.pdb
# PARAMETERS: T0383TS393_4.T0383.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      A       3           -
LGA    N       2      M       4           -
LGA    A       3      N       5           -
LGA    M       4      L       6           -
LGA    N       5      K       7           -
LGA    L       6      R       8           -
LGA    K       7      E       9           -
LGA    R       8      Q      10           -
LGA    E       9      E      11           -
LGA    Q      10      F      12           -
LGA    E      11      V      13           -
LGA    F      12      S      14          4.042
LGA    V      13      -       -           -
LGA    S      14      -       -           -
LGA    Q      15      -       -           -
LGA    Y      16      -       -           -
LGA    H      17      -       -           -
LGA    F      18      -       -           -
LGA    D      19      -       -           -
LGA    A      20      -       -           -
LGA    R      21      -       -           -
LGA    N      22      -       -           -
LGA    F      23      -       -           -
LGA    E      24      -       -           -
LGA    W      25      -       -           -
LGA    E      26      -       -           -
LGA    N      27      -       -           -
LGA    E      28      -       -           -
LGA    N      29      -       -           -
LGA    G      30      -       -           -
LGA    A      31      -       -           -
LGA    P      32      -       -           -
LGA    E      33      -       -           -
LGA    T      34      -       -           -
LGA    K      35      -       -           -
LGA    V      36      -       -           -
LGA    D      37      Q      15          3.022
LGA    V      38      Y      16          2.084
LGA    N      39      H      17          1.673
LGA    F      40      F      18          4.271
LGA    Q      41      D      19          3.435
LGA    L      42      A      20           #
LGA    L      43      R      21          3.724
LGA    -       -      N      22           -
LGA    -       -      F      23           -
LGA    -       -      E      24           -
LGA    Q      44      W      25           #
LGA    H      45      E      26          2.034
LGA    -       -      N      27           -
LGA    D      46      E      28          4.598
LGA    Q      47      -       -           -
LGA    E      48      N      29          4.020
LGA    N      49      G      30          0.894
LGA    Q      50      A      31          1.825
LGA    V      51      P      32          3.661
LGA    T      52      E      33          1.754
LGA    -       -      T      34           -
LGA    -       -      K      35           -
LGA    -       -      V      36           -
LGA    -       -      D      37           -
LGA    -       -      V      38           -
LGA    -       -      N      39           -
LGA    -       -      F      40           -
LGA    -       -      Q      41           -
LGA    -       -      L      42           -
LGA    -       -      L      43           -
LGA    -       -      Q      44           -
LGA    -       -      H      45           -
LGA    -       -      D      46           -
LGA    -       -      Q      47           -
LGA    -       -      E      48           -
LGA    -       -      N      49           -
LGA    -       -      Q      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    -       -      S      53           -
LGA    -       -      L      54           -
LGA    -       -      I      55           -
LGA    -       -      V      56           -
LGA    -       -      I      57           -
LGA    -       -      L      58           -
LGA    -       -      S      59           -
LGA    -       -      F      60           -
LGA    S      53      M      61          4.646
LGA    L      54      I      62          3.390
LGA    -       -      V      63           -
LGA    -       -      F      64           -
LGA    -       -      D      65           -
LGA    -       -      K      66           -
LGA    -       -      F      67           -
LGA    -       -      V      68           -
LGA    I      55      I      69          4.731
LGA    V      56      S      70          4.512
LGA    I      57      G      71          2.503
LGA    L      58      T      72          1.901
LGA    S      59      I      73          2.859
LGA    F      60      -       -           -
LGA    M      61      -       -           -
LGA    I      62      -       -           -
LGA    V      63      -       -           -
LGA    F      64      -       -           -
LGA    D      65      -       -           -
LGA    K      66      -       -           -
LGA    F      67      -       -           -
LGA    V      68      -       -           -
LGA    I      69      -       -           -
LGA    S      70      -       -           -
LGA    G      71      -       -           -
LGA    T      72      -       -           -
LGA    I      73      -       -           -
LGA    S      74      -       -           -
LGA    Q      75      -       -           -
LGA    V      76      -       -           -
LGA    N      77      -       -           -
LGA    H      78      S      74           #
LGA    I      79      Q      75           -
LGA    D      80      V      76           -
LGA    G      81      N      77           -
LGA    R      82      H      78           -
LGA    I      83      I      79           -
LGA    -       -      D      80           -
LGA    -       -      G      81           -
LGA    -       -      R      82           -
LGA    -       -      I      83           -
LGA    -       -      V      84           -
LGA    -       -      N      85           -
LGA    -       -      E      86           -
LGA    V      84      P      87           #
LGA    N      85      -       -           -
LGA    E      86      -       -           -
LGA    P      87      S      88          4.422
LGA    S      88      E      89          2.771
LGA    E      89      L      90          1.977
LGA    L      90      N      91           #
LGA    N      91      Q      92           -
LGA    -       -      E      93           -
LGA    Q      92      E      94          4.701
LGA    E      93      V      95          3.430
LGA    -       -      E      96           -
LGA    E      94      T      97          2.207
LGA    V      95      L      98          2.295
LGA    E      96      A      99          1.338
LGA    T      97      R     100          1.573
LGA    L      98      P     101          1.578
LGA    A      99      C     102          1.771
LGA    R     100      L     103          1.546
LGA    P     101      N     104          1.096
LGA    C     102      M     105          1.242
LGA    L     103      L     106          1.231
LGA    N     104      N     107          0.824
LGA    M     105      R     108          0.695
LGA    L     106      L     109          1.621
LGA    N     107      T     110          1.396
LGA    R     108      Y     111          0.202
LGA    L     109      E     112          1.355
LGA    T     110      V     113          1.936
LGA    Y     111      T     114          1.811
LGA    E     112      E     115          1.491
LGA    V     113      I     116          1.466
LGA    T     114      A     117          2.423
LGA    E     115      L     118          3.849
LGA    I     116      D     119          3.756
LGA    A     117      -       -           -
LGA    L     118      -       -           -
LGA    D     119      L     120           #
LGA    L     120      P     121           -
LGA    P     121      G     122           -
LGA    G     122      I     123           -
LGA    I     123      N     124           -
LGA    N     124      L     125           -
LGA    L     125      E     126           -
LGA    E     126      F     127           -
LGA    F     127      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  127  125    5.0     49    2.78    12.24     25.486     1.703

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.351118 * X  +   0.432031 * Y  +   0.830701 * Z  +  10.634125
  Y_new =   0.895639 * X  +   0.103733 * Y  +  -0.432515 * Z  +  25.000931
  Z_new =  -0.273031 * X  +   0.895873 * Y  +  -0.350522 * Z  +   3.278841 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.943748   -1.197845  [ DEG:   111.3686    -68.6314 ]
  Theta =   0.276542    2.865050  [ DEG:    15.8447    164.1553 ]
  Phi   =   1.197179   -1.944414  [ DEG:    68.5933   -111.4067 ]
 
# 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: T0383TS393_4                                  
REMARK     2: T0383.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0383TS393_4.T0383.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  127  125   5.0   49   2.78   12.24  25.486
REMARK  ---------------------------------------------------------- 
MOLECULE T0383TS393_4
PFRMAT TS
TARGET T0383
MODEL 4
PARENT N/A
ATOM      1  CA  SER     1       2.844   8.187 -12.032  1.00 25.00           C
ATOM      2  CA  ASN     2       0.162  10.617 -10.959  1.00 25.00           C
ATOM      3  CA  ALA     3       2.243  11.135  -7.750  1.00 25.00           C
ATOM      4  CA  MET     4       4.646  13.394  -5.793  1.00 25.00           C
ATOM      5  CA  ASN     5       6.194  14.431  -2.540  1.00 25.00           C
ATOM      6  CA  LEU     6       9.734  14.912  -1.117  1.00 25.00           C
ATOM      7  CA  LYS     7       8.850  17.364   1.652  1.00 25.00           C
ATOM      8  CA  ARG     8       7.470  19.638   4.371  1.00 25.00           C
ATOM      9  CA  GLU     9       4.185  20.014   2.608  1.00 25.00           C
ATOM     10  CA  GLN    10       2.853  21.029   6.003  1.00 25.00           C
ATOM     11  CA  GLU    11       3.269  17.981   8.284  1.00 25.00           C
ATOM     12  CA  PHE    12       6.744  19.205   9.327  1.00 25.00           C
ATOM     13  CA  VAL    13       5.318  22.676  10.096  1.00 25.00           C
ATOM     14  CA  SER    14       2.535  21.094  12.198  1.00 25.00           C
ATOM     15  CA  GLN    15       5.124  19.020  14.112  1.00 25.00           C
ATOM     16  CA  TYR    16       2.533  16.203  13.948  1.00 25.00           C
ATOM     17  CA  HIS    17       0.713  18.473  16.426  1.00 25.00           C
ATOM     18  CA  PHE    18       3.251  19.771  19.030  1.00 25.00           C
ATOM     19  CA  ASP    19       1.710  18.580  22.308  1.00 25.00           C
ATOM     20  CA  ALA    20       4.572  20.514  23.906  1.00 25.00           C
ATOM     21  CA  ARG    21       6.985  18.022  22.398  1.00 25.00           C
ATOM     22  CA  ASN    22       8.363  19.186  19.032  1.00 25.00           C
ATOM     23  CA  PHE    23      10.031  18.181  15.783  1.00 25.00           C
ATOM     24  CA  GLU    24      13.073  15.906  16.273  1.00 25.00           C
ATOM     25  CA  TRP    25      15.415  18.911  15.875  1.00 25.00           C
ATOM     26  CA  GLU    26      13.372  20.877  18.451  1.00 25.00           C
ATOM     27  CA  ASN    27      13.552  17.923  20.882  1.00 25.00           C
ATOM     28  CA  GLU    28      17.346  17.718  20.391  1.00 25.00           C
ATOM     29  CA  ASN    29      18.538  20.709  22.446  1.00 25.00           C
ATOM     30  CA  GLY    30      21.304  20.795  19.767  1.00 25.00           C
ATOM     31  CA  ALA    31      20.915  18.252  16.917  1.00 25.00           C
ATOM     32  CA  PRO    32      20.831  17.188  13.256  1.00 25.00           C
ATOM     33  CA  GLU    33      18.831  20.118  11.780  1.00 25.00           C
ATOM     34  CA  THR    34      15.551  19.599   9.925  1.00 25.00           C
ATOM     35  CA  LYS    35      12.788  17.694   8.119  1.00 25.00           C
ATOM     36  CA  VAL    36      11.179  21.068   7.588  1.00 25.00           C
ATOM     37  CA  ASP    37       9.468  23.362   5.145  1.00 25.00           C
ATOM     38  CA  VAL    38       7.316  24.003   2.092  1.00 25.00           C
ATOM     39  CA  ASN    39       7.711  22.128  -1.155  1.00 25.00           C
ATOM     40  CA  PHE    40       4.901  24.463  -2.347  1.00 25.00           C
ATOM     41  CA  GLN    41       6.347  26.942  -4.895  1.00 25.00           C
ATOM     42  CA  LEU    42       6.516  29.977  -7.183  1.00 25.00           C
ATOM     43  CA  LEU    43       3.149  29.815  -9.004  1.00 25.00           C
ATOM     44  CA  GLN    44       0.369  30.614 -11.485  1.00 25.00           C
ATOM     45  CA  HIS    45      -1.952  29.866 -14.368  1.00 25.00           C
ATOM     46  CA  ASP    46      -4.631  28.650 -11.878  1.00 25.00           C
ATOM     47  CA  GLN    47      -6.858  29.126  -8.800  1.00 25.00           C
ATOM     48  CA  GLU    48      -4.496  31.839  -7.480  1.00 25.00           C
ATOM     49  CA  ASN    49      -4.586  33.604 -10.878  1.00 25.00           C
ATOM     50  CA  GLN    50      -1.554  35.888 -10.779  1.00 25.00           C
ATOM     51  CA  VAL    51       2.086  35.418  -9.764  1.00 25.00           C
ATOM     52  CA  THR    52       1.486  35.654  -5.964  1.00 25.00           C
ATOM     53  CA  SER    53       4.575  33.892  -4.597  1.00 25.00           C
ATOM     54  CA  LEU    54       5.648  31.464  -1.895  1.00 25.00           C
ATOM     55  CA  ILE    55       5.393  28.785   0.774  1.00 25.00           C
ATOM     56  CA  VAL    56       3.199  26.916   3.237  1.00 25.00           C
ATOM     57  CA  ILE    57       5.376  26.301   6.268  1.00 25.00           C
ATOM     58  CA  LEU    58       8.451  27.561   8.140  1.00 25.00           C
ATOM     59  CA  SER    59      10.910  25.476  10.105  1.00 25.00           C
ATOM     60  CA  PHE    60      13.348  26.350   7.252  1.00 25.00           C
ATOM     61  CA  MET    61      15.412  23.350   6.201  1.00 25.00           C
ATOM     62  CA  ILE    62      18.606  21.215   6.192  1.00 25.00           C
ATOM     63  CA  VAL    63      17.412  17.734   5.079  1.00 25.00           C
ATOM     64  CA  PHE    64      18.267  14.208   4.047  1.00 25.00           C
ATOM     65  CA  ASP    65      19.776  10.689   3.908  1.00 25.00           C
ATOM     66  CA  LYS    66      18.041   7.375   3.434  1.00 25.00           C
ATOM     67  CA  PHE    67      15.110   9.495   2.316  1.00 25.00           C
ATOM     68  CA  VAL    68      13.242  12.565   3.612  1.00 25.00           C
ATOM     69  CA  ILE    69      13.774  15.958   1.903  1.00 25.00           C
ATOM     70  CA  SER    70      16.278  17.938  -0.211  1.00 25.00           C
ATOM     71  CA  GLY    71      16.214  21.354   1.470  1.00 25.00           C
ATOM     72  CA  THR    72      12.688  20.460   2.634  1.00 25.00           C
ATOM     73  CA  ILE    73      12.174  23.859   0.876  1.00 25.00           C
ATOM     74  CA  SER    74      10.574  26.459  -1.420  1.00 25.00           C
ATOM     75  CA  GLN    75      11.288  30.127  -0.610  1.00 25.00           C
ATOM     76  CA  VAL    76       9.899  29.871   2.922  1.00 25.00           C
ATOM     77  CA  ASN    77       7.163  31.427   5.057  1.00 25.00           C
ATOM     78  CA  HIS    78       5.206  31.573   8.280  1.00 25.00           C
ATOM     79  CA  ILE    79       2.173  32.296   6.180  1.00 25.00           C
ATOM     80  CA  ASP    80       0.296  34.654   8.579  1.00 25.00           C
ATOM     81  CA  GLY    81      -1.940  36.826  10.685  1.00 25.00           C
ATOM     82  CA  ARG    82       0.120  35.707  13.674  1.00 25.00           C
ATOM     83  CA  ILE    83       3.241  37.176  12.034  1.00 25.00           C
ATOM     84  CA  VAL    84       4.684  40.613  12.294  1.00 25.00           C
ATOM     85  CA  ASN    85       3.831  44.198  13.130  1.00 25.00           C
ATOM     86  CA  GLU    86       3.473  47.925  12.601  1.00 25.00           C
ATOM     87  CA  PRO    87       4.157  48.597  16.315  1.00 25.00           C
ATOM     88  CA  SER    88       6.843  46.524  18.009  1.00 25.00           C
ATOM     89  CA  GLU    89       8.293  43.977  20.433  1.00 25.00           C
ATOM     90  CA  LEU    90       8.190  41.344  17.766  1.00 25.00           C
ATOM     91  CA  ASN    91       9.635  37.964  16.993  1.00 25.00           C
ATOM     92  CA  GLN    92      12.797  39.461  18.479  1.00 25.00           C
ATOM     93  CA  GLU    93      15.254  41.052  16.010  1.00 25.00           C
ATOM     94  CA  GLU    94      17.671  38.119  16.487  1.00 25.00           C
ATOM     95  CA  VAL    95      14.822  35.637  15.866  1.00 25.00           C
ATOM     96  CA  GLU    96      13.841  37.524  12.680  1.00 25.00           C
ATOM     97  CA  THR    97      17.478  37.441  11.483  1.00 25.00           C
ATOM     98  CA  LEU    98      17.642  33.676  12.160  1.00 25.00           C
ATOM     99  CA  ALA    99      14.394  33.157  10.197  1.00 25.00           C
ATOM    100  CA  ARG   100      15.805  35.194   7.277  1.00 25.00           C
ATOM    101  CA  PRO   101      19.009  33.096   7.329  1.00 25.00           C
ATOM    102  CA  CYS   102      16.932  29.878   7.307  1.00 25.00           C
ATOM    103  CA  LEU   103      14.895  31.185   4.338  1.00 25.00           C
ATOM    104  CA  ASN   104      18.126  32.040   2.466  1.00 25.00           C
ATOM    105  CA  MET   105      19.487  28.528   3.161  1.00 25.00           C
ATOM    106  CA  LEU   106      16.231  26.984   1.865  1.00 25.00           C
ATOM    107  CA  ASN   107      16.447  29.123  -1.303  1.00 25.00           C
ATOM    108  CA  ARG   108      20.075  28.016  -1.833  1.00 25.00           C
ATOM    109  CA  LEU   109      19.045  24.352  -1.404  1.00 25.00           C
ATOM    110  CA  THR   110      16.222  24.823  -3.949  1.00 25.00           C
ATOM    111  CA  TYR   111      18.678  26.414  -6.418  1.00 25.00           C
ATOM    112  CA  GLU   112      21.095  23.482  -5.941  1.00 25.00           C
ATOM    113  CA  VAL   113      18.245  21.000  -6.562  1.00 25.00           C
ATOM    114  CA  THR   114      17.265  22.885  -9.748  1.00 25.00           C
ATOM    115  CA  GLU   115      20.902  22.804 -10.945  1.00 25.00           C
ATOM    116  CA  ILE   116      21.065  19.037 -10.268  1.00 25.00           C
ATOM    117  CA  ALA   117      17.818  18.519 -12.232  1.00 25.00           C
ATOM    118  CA  LEU   118      19.922  19.182 -15.326  1.00 25.00           C
ATOM    119  CA  ASP   119      23.136  20.263 -17.073  1.00 25.00           C
ATOM    120  CA  LEU   120      22.143  23.121 -19.285  1.00 25.00           C
ATOM    121  CA  PRO   121      20.966  22.407 -22.820  1.00 25.00           C
ATOM    122  CA  GLY   122      18.275  19.753 -23.505  1.00 25.00           C
ATOM    123  CA  ILE   123      16.470  16.953 -21.579  1.00 25.00           C
ATOM    124  CA  ASN   124      17.106  13.585 -23.226  1.00 25.00           C
ATOM    125  CA  LEU   125      17.372  11.504 -20.057  1.00 25.00           C
ATOM    126  CA  GLU   126      17.817   7.759 -20.211  1.00 25.00           C
ATOM    127  CA  PHE   127      17.681   7.815 -16.386  1.00 25.00           C
TER
END
