
#######################################################
#                                                     #
#                        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  148 (  148),  selected  148 , name T0369TS393_1
# Molecule2: number of CA atoms  147 ( 1193),  selected  147 , name T0369.pdb
# PARAMETERS: T0369TS393_1.T0369.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    D       3      D       3           -
LGA    W       4      W       4           -
LGA    Q       5      Q       5           -
LGA    Q       6      Q       6           -
LGA    A       7      A       7           -
LGA    L       8      L       8           -
LGA    D       9      -       -           -
LGA    R      10      -       -           -
LGA    H      11      -       -           -
LGA    V      12      -       -           -
LGA    G      13      -       -           -
LGA    V      14      -       -           -
LGA    G      15      -       -           -
LGA    V      16      -       -           -
LGA    R      17      -       -           -
LGA    T      18      -       -           -
LGA    T      19      -       -           -
LGA    R      20      -       -           -
LGA    D      21      -       -           -
LGA    L      22      -       -           -
LGA    I      23      -       -           -
LGA    R      24      -       -           -
LGA    L      25      D       9          4.557
LGA    I      26      R      10          2.580
LGA    Q      27      H      11          3.596
LGA    P      28      V      12           -
LGA    E      29      G      13           -
LGA    D      30      -       -           -
LGA    W      31      -       -           -
LGA    D      32      -       -           -
LGA    K      33      -       -           -
LGA    R      34      -       -           -
LGA    P      35      -       -           -
LGA    I      36      -       -           -
LGA    S      37      -       -           -
LGA    G      38      -       -           -
LGA    K      39      -       -           -
LGA    R      40      -       -           -
LGA    S      41      -       -           -
LGA    V      42      -       -           -
LGA    Y      43      -       -           -
LGA    E      44      V      14          4.504
LGA    V      45      G      15          4.071
LGA    A      46      V      16          4.040
LGA    V      47      R      17          2.867
LGA    H      48      T      18          1.438
LGA    L      49      T      19          2.177
LGA    A      50      -       -           -
LGA    V      51      -       -           -
LGA    L      52      R      20          2.293
LGA    L      53      D      21           -
LGA    E      54      L      22           -
LGA    -       -      I      23           -
LGA    A      55      R      24           #
LGA    D      56      L      25           -
LGA    L      57      I      26           -
LGA    R      58      Q      27           -
LGA    I      59      -       -           -
LGA    A      60      -       -           -
LGA    T      61      -       -           -
LGA    G      62      -       -           -
LGA    A      63      -       -           -
LGA    T      64      -       -           -
LGA    A      65      -       -           -
LGA    D      66      -       -           -
LGA    E      67      -       -           -
LGA    M      68      -       -           -
LGA    A      69      -       -           -
LGA    Q      70      P      28          3.817
LGA    F      71      E      29           -
LGA    Y      72      D      30           #
LGA    A      73      W      31          3.329
LGA    V      74      D      32          3.158
LGA    P      75      K      33          3.193
LGA    V      76      R      34          2.396
LGA    -       -      P      35           -
LGA    -       -      I      36           -
LGA    -       -      S      37           -
LGA    -       -      G      38           -
LGA    -       -      K      39           -
LGA    L      77      R      40          0.866
LGA    P      78      S      41          2.689
LGA    -       -      V      42           -
LGA    E      79      Y      43          5.576
LGA    Q      80      E      44          4.758
LGA    L      81      V      45          1.416
LGA    V      82      A      46          3.245
LGA    -       -      V      47           -
LGA    D      83      H      48          1.528
LGA    R      84      L      49          3.132
LGA    L      85      A      50          2.634
LGA    D      86      V      51          0.815
LGA    Q      87      L      52          0.632
LGA    S      88      L      53          2.454
LGA    -       -      E      54           -
LGA    -       -      A      55           -
LGA    -       -      D      56           -
LGA    -       -      L      57           -
LGA    -       -      R      58           -
LGA    -       -      I      59           -
LGA    -       -      A      60           -
LGA    -       -      T      61           -
LGA    -       -      G      62           -
LGA    -       -      A      63           -
LGA    -       -      T      64           -
LGA    -       -      A      65           -
LGA    -       -      D      66           -
LGA    -       -      E      67           -
LGA    -       -      M      68           -
LGA    -       -      A      69           -
LGA    -       -      Q      70           -
LGA    -       -      F      71           -
LGA    -       -      Y      72           -
LGA    -       -      A      73           -
LGA    -       -      V      74           -
LGA    -       -      P      75           -
LGA    -       -      V      76           -
LGA    -       -      L      77           -
LGA    -       -      P      78           -
LGA    -       -      E      79           -
LGA    -       -      Q      80           -
LGA    -       -      L      81           -
LGA    -       -      V      82           -
LGA    -       -      D      83           -
LGA    -       -      R      84           -
LGA    -       -      L      85           -
LGA    -       -      D      86           -
LGA    W      89      Q      87           #
LGA    Q      90      S      88          3.669
LGA    Y      91      W      89           #
LGA    Y      92      Q      90          4.590
LGA    Q      93      Y      91          0.621
LGA    D      94      Y      92          3.330
LGA    R      95      Q      93          2.677
LGA    L      96      D      94          1.803
LGA    M      97      R      95          4.397
LGA    A      98      L      96          4.761
LGA    -       -      M      97           -
LGA    D      99      A      98          4.739
LGA    F     100      -       -           -
LGA    S     101      -       -           -
LGA    T     102      -       -           -
LGA    E     103      -       -           -
LGA    T     104      -       -           -
LGA    T     105      -       -           -
LGA    Y     106      -       -           -
LGA    W     107      -       -           -
LGA    G     108      -       -           -
LGA    V     109      D      99          5.242
LGA    T     110      F     100          4.829
LGA    -       -      S     101           -
LGA    -       -      T     102           -
LGA    -       -      E     103           -
LGA    -       -      T     104           -
LGA    -       -      T     105           -
LGA    -       -      Y     106           -
LGA    -       -      W     107           -
LGA    -       -      G     108           -
LGA    -       -      V     109           -
LGA    -       -      T     110           -
LGA    -       -      D     111           -
LGA    D     111      S     112          4.963
LGA    S     112      T     113          3.010
LGA    T     113      -       -           -
LGA    T     114      T     114          2.770
LGA    G     115      G     115          2.169
LGA    W     116      W     116          2.248
LGA    L     117      L     117          2.391
LGA    L     118      L     118          1.899
LGA    E     119      E     119          1.764
LGA    A     120      A     120          1.803
LGA    A     121      A     121          1.806
LGA    V     122      V     122          1.640
LGA    H     123      H     123          1.830
LGA    L     124      L     124          1.607
LGA    Y     125      Y     125          1.284
LGA    H     126      H     126          1.638
LGA    H     127      H     127          1.765
LGA    R     128      R     128          1.270
LGA    S     129      S     129          0.991
LGA    Q     130      Q     130          1.361
LGA    L     131      L     131          1.526
LGA    L     132      L     132          1.273
LGA    D     133      D     133          1.170
LGA    Y     134      Y     134          1.641
LGA    L     135      L     135          1.838
LGA    N     136      N     136          1.401
LGA    L     137      L     137          1.623
LGA    L     138      L     138          1.792
LGA    G     139      G     139          2.998
LGA    Y     140      Y     140          4.305
LGA    D     141      D     141           #
LGA    I     142      -       -           -
LGA    K     143      -       -           -
LGA    L     144      I     142           #
LGA    D     145      -       -           -
LGA    L     146      -       -           -
LGA    F     147      -       -           -
LGA    E     148      K     143           #
LGA    -       -      L     144           -
LGA    -       -      D     145           -
LGA    -       -      L     146           -
LGA    -       -      F     147           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  148  147    5.0     67    2.93    40.30     29.210     2.212

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.238890 * X  +  -0.345340 * Y  +  -0.907564 * Z  +  11.270337
  Y_new =  -0.809480 * X  +  -0.587057 * Y  +   0.010310 * Z  +  -3.354359
  Z_new =  -0.536352 * X  +   0.732192 * Y  +  -0.419788 * Z  +  -3.396507 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.091376   -1.050217  [ DEG:   119.8270    -60.1730 ]
  Theta =   0.566109    2.575484  [ DEG:    32.4356    147.5644 ]
  Phi   =  -1.283826    1.857766  [ DEG:   -73.5578    106.4422 ]
 
# 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: T0369TS393_1                                  
REMARK     2: T0369.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0369TS393_1.T0369.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  148  147   5.0   67   2.93   40.30  29.210
REMARK  ---------------------------------------------------------- 
MOLECULE T0369TS393_1
PFRMAT TS
TARGET T0369
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      19.699 -30.507  -2.154  1.00 25.00           C
ATOM      2  CA  THR     2      19.103 -29.000  -5.655  1.00 25.00           C
ATOM      3  CA  ASP     3      21.757 -26.261  -5.703  1.00 25.00           C
ATOM      4  CA  TRP     4      18.829 -23.866  -5.105  1.00 25.00           C
ATOM      5  CA  GLN     5      19.072 -24.471  -1.332  1.00 25.00           C
ATOM      6  CA  GLN     6      22.837 -23.775  -1.437  1.00 25.00           C
ATOM      7  CA  ALA     7      22.207 -20.530  -3.372  1.00 25.00           C
ATOM      8  CA  LEU     8      19.582 -19.473  -0.792  1.00 25.00           C
ATOM      9  CA  ASP     9      22.044 -20.203   2.049  1.00 25.00           C
ATOM     10  CA  ARG    10      24.736 -18.126   0.284  1.00 25.00           C
ATOM     11  CA  HIS    11      22.259 -15.236  -0.141  1.00 25.00           C
ATOM     12  CA  VAL    12      24.540 -12.906   1.787  1.00 25.00           C
ATOM     13  CA  GLY    13      25.653 -12.828   5.422  1.00 25.00           C
ATOM     14  CA  VAL    14      23.227 -11.209   7.808  1.00 25.00           C
ATOM     15  CA  GLY    15      25.245  -8.057   7.231  1.00 25.00           C
ATOM     16  CA  VAL    16      26.831  -7.512   3.849  1.00 25.00           C
ATOM     17  CA  ARG    17      25.944  -3.838   4.520  1.00 25.00           C
ATOM     18  CA  THR    18      24.586  -2.924   1.057  1.00 25.00           C
ATOM     19  CA  THR    19      21.096  -4.125   2.081  1.00 25.00           C
ATOM     20  CA  ARG    20      21.287  -2.028   5.281  1.00 25.00           C
ATOM     21  CA  ASP    21      22.332   1.039   3.238  1.00 25.00           C
ATOM     22  CA  LEU    22      19.399   0.470   0.841  1.00 25.00           C
ATOM     23  CA  ILE    23      16.994   0.196   3.809  1.00 25.00           C
ATOM     24  CA  ARG    24      18.384   3.453   5.268  1.00 25.00           C
ATOM     25  CA  LEU    25      17.927   5.191   1.886  1.00 25.00           C
ATOM     26  CA  ILE    26      14.318   3.925   1.695  1.00 25.00           C
ATOM     27  CA  GLN    27      13.850   6.253   4.736  1.00 25.00           C
ATOM     28  CA  PRO    28      16.420   8.640   6.306  1.00 25.00           C
ATOM     29  CA  GLU    29      15.962  12.432   6.019  1.00 25.00           C
ATOM     30  CA  ASP    30      12.224  11.954   5.342  1.00 25.00           C
ATOM     31  CA  TRP    31      12.011  10.411   8.844  1.00 25.00           C
ATOM     32  CA  ASP    32      13.220  13.573  10.534  1.00 25.00           C
ATOM     33  CA  LYS    33      12.818  11.589  13.762  1.00 25.00           C
ATOM     34  CA  ARG    34      10.740   9.873  16.481  1.00 25.00           C
ATOM     35  CA  PRO    35       7.885   7.511  17.317  1.00 25.00           C
ATOM     36  CA  ILE    36       7.009   4.194  15.591  1.00 25.00           C
ATOM     37  CA  SER    37       3.421   4.695  14.389  1.00 25.00           C
ATOM     38  CA  GLY    38       4.074   4.858  10.649  1.00 25.00           C
ATOM     39  CA  LYS    39       5.553   5.186   7.210  1.00 25.00           C
ATOM     40  CA  ARG    40       8.083   2.559   8.379  1.00 25.00           C
ATOM     41  CA  SER    41       5.869  -0.234   6.977  1.00 25.00           C
ATOM     42  CA  VAL    42       5.610   1.616   3.633  1.00 25.00           C
ATOM     43  CA  TYR    43       9.418   2.018   3.535  1.00 25.00           C
ATOM     44  CA  GLU    44       9.856  -1.718   4.251  1.00 25.00           C
ATOM     45  CA  VAL    45       7.400  -2.570   1.439  1.00 25.00           C
ATOM     46  CA  ALA    46       9.317  -0.285  -0.962  1.00 25.00           C
ATOM     47  CA  VAL    47      12.611  -1.973   0.021  1.00 25.00           C
ATOM     48  CA  HIS    48      11.052  -5.419  -0.581  1.00 25.00           C
ATOM     49  CA  LEU    49       9.803  -4.281  -4.018  1.00 25.00           C
ATOM     50  CA  ALA    50      13.298  -2.978  -4.883  1.00 25.00           C
ATOM     51  CA  VAL    51      14.836  -6.316  -3.809  1.00 25.00           C
ATOM     52  CA  LEU    52      12.310  -8.207  -5.978  1.00 25.00           C
ATOM     53  CA  LEU    53      13.152  -5.959  -8.962  1.00 25.00           C
ATOM     54  CA  GLU    54      16.889  -6.596  -8.418  1.00 25.00           C
ATOM     55  CA  ALA    55      16.251 -10.369  -8.285  1.00 25.00           C
ATOM     56  CA  ASP    56      14.239 -10.170 -11.537  1.00 25.00           C
ATOM     57  CA  LEU    57      17.078  -8.212 -13.203  1.00 25.00           C
ATOM     58  CA  ARG    58      19.608 -10.839 -12.033  1.00 25.00           C
ATOM     59  CA  ILE    59      17.393 -13.631 -13.436  1.00 25.00           C
ATOM     60  CA  ALA    60      17.136 -11.782 -16.779  1.00 25.00           C
ATOM     61  CA  THR    61      16.426 -14.733 -19.010  1.00 25.00           C
ATOM     62  CA  GLY    62      12.816 -14.631 -17.811  1.00 25.00           C
ATOM     63  CA  ALA    63      10.847 -11.763 -16.269  1.00 25.00           C
ATOM     64  CA  THR    64       7.783 -12.888 -18.128  1.00 25.00           C
ATOM     65  CA  ALA    65       8.067 -16.369 -16.517  1.00 25.00           C
ATOM     66  CA  ASP    66      10.264 -18.547 -14.261  1.00 25.00           C
ATOM     67  CA  GLU    67      10.966 -15.539 -11.998  1.00 25.00           C
ATOM     68  CA  MET    68       7.216 -14.787 -11.794  1.00 25.00           C
ATOM     69  CA  ALA    69       6.509 -18.438 -10.881  1.00 25.00           C
ATOM     70  CA  GLN    70       9.195 -18.304  -8.156  1.00 25.00           C
ATOM     71  CA  PHE    71       7.661 -15.080  -6.768  1.00 25.00           C
ATOM     72  CA  TYR    72       4.134 -13.985  -5.757  1.00 25.00           C
ATOM     73  CA  ALA    73       2.876 -17.382  -7.054  1.00 25.00           C
ATOM     74  CA  VAL    74       1.556 -15.906 -10.268  1.00 25.00           C
ATOM     75  CA  PRO    75      -1.940 -16.524 -11.784  1.00 25.00           C
ATOM     76  CA  VAL    76      -4.570 -14.042 -10.503  1.00 25.00           C
ATOM     77  CA  LEU    77      -3.880 -10.393 -11.011  1.00 25.00           C
ATOM     78  CA  PRO    78      -0.098 -11.033 -10.718  1.00 25.00           C
ATOM     79  CA  GLU    79      -0.006  -8.912 -13.906  1.00 25.00           C
ATOM     80  CA  GLN    80      -1.021  -5.811 -11.901  1.00 25.00           C
ATOM     81  CA  LEU    81       1.739  -6.530  -9.345  1.00 25.00           C
ATOM     82  CA  VAL    82       4.295  -6.902 -12.174  1.00 25.00           C
ATOM     83  CA  ASP    83       3.146  -3.575 -13.683  1.00 25.00           C
ATOM     84  CA  ARG    84       3.489  -1.879 -10.266  1.00 25.00           C
ATOM     85  CA  LEU    85       7.018  -3.316  -9.879  1.00 25.00           C
ATOM     86  CA  ASP    86       7.949  -2.034 -13.366  1.00 25.00           C
ATOM     87  CA  GLN    87       6.596   1.438 -12.478  1.00 25.00           C
ATOM     88  CA  SER    88       8.634   1.428  -9.235  1.00 25.00           C
ATOM     89  CA  TRP    89      11.779   0.439 -11.185  1.00 25.00           C
ATOM     90  CA  GLN    90      11.148   3.271 -13.686  1.00 25.00           C
ATOM     91  CA  TYR    91      10.721   5.755 -10.803  1.00 25.00           C
ATOM     92  CA  TYR    92      14.000   4.540  -9.239  1.00 25.00           C
ATOM     93  CA  GLN    93      15.787   4.957 -12.600  1.00 25.00           C
ATOM     94  CA  ASP    94      14.388   8.506 -12.932  1.00 25.00           C
ATOM     95  CA  ARG    95      15.587   9.337  -9.391  1.00 25.00           C
ATOM     96  CA  LEU    96      19.068   7.978 -10.225  1.00 25.00           C
ATOM     97  CA  MET    97      19.160  10.098 -13.412  1.00 25.00           C
ATOM     98  CA  ALA    98      18.145  13.199 -11.407  1.00 25.00           C
ATOM     99  CA  ASP    99      20.905  12.481  -8.851  1.00 25.00           C
ATOM    100  CA  PHE   100      23.917  10.159  -8.902  1.00 25.00           C
ATOM    101  CA  SER   101      26.203  11.878 -11.412  1.00 25.00           C
ATOM    102  CA  THR   102      26.996  15.233 -12.879  1.00 25.00           C
ATOM    103  CA  GLU   103      27.966  17.879 -10.351  1.00 25.00           C
ATOM    104  CA  THR   104      25.262  18.941  -7.854  1.00 25.00           C
ATOM    105  CA  THR   105      22.779  21.693  -6.926  1.00 25.00           C
ATOM    106  CA  TYR   106      21.190  25.204  -7.155  1.00 25.00           C
ATOM    107  CA  TRP   107      17.749  25.919  -8.634  1.00 25.00           C
ATOM    108  CA  GLY   108      16.217  24.076  -5.676  1.00 25.00           C
ATOM    109  CA  VAL   109      14.348  22.093  -8.300  1.00 25.00           C
ATOM    110  CA  THR   110      12.531  20.226 -11.091  1.00 25.00           C
ATOM    111  CA  ASP   111       9.012  20.080 -12.489  1.00 25.00           C
ATOM    112  CA  SER   112       5.920  17.892 -11.991  1.00 25.00           C
ATOM    113  CA  THR   113       8.264  14.854 -12.311  1.00 25.00           C
ATOM    114  CA  THR   114       8.460  14.702  -8.489  1.00 25.00           C
ATOM    115  CA  GLY   115       4.707  13.962  -8.302  1.00 25.00           C
ATOM    116  CA  TRP   116       5.102  11.173 -10.898  1.00 25.00           C
ATOM    117  CA  LEU   117       8.004   9.685  -8.891  1.00 25.00           C
ATOM    118  CA  LEU   118       5.889   9.793  -5.702  1.00 25.00           C
ATOM    119  CA  GLU   119       3.008   8.047  -7.524  1.00 25.00           C
ATOM    120  CA  ALA   120       5.412   5.348  -8.789  1.00 25.00           C
ATOM    121  CA  ALA   121       6.745   4.834  -5.236  1.00 25.00           C
ATOM    122  CA  VAL   122       3.165   4.515  -3.913  1.00 25.00           C
ATOM    123  CA  HIS   123       2.363   1.942  -6.634  1.00 25.00           C
ATOM    124  CA  LEU   124       5.509  -0.041  -5.721  1.00 25.00           C
ATOM    125  CA  TYR   125       4.506   0.023  -2.024  1.00 25.00           C
ATOM    126  CA  HIS   126       0.996  -1.213  -2.931  1.00 25.00           C
ATOM    127  CA  HIS   127       2.505  -4.045  -5.020  1.00 25.00           C
ATOM    128  CA  ARG   128       4.779  -5.023  -2.097  1.00 25.00           C
ATOM    129  CA  SER   129       1.767  -5.047   0.269  1.00 25.00           C
ATOM    130  CA  GLN   130      -0.173  -7.258  -2.184  1.00 25.00           C
ATOM    131  CA  LEU   131       2.800  -9.663  -2.406  1.00 25.00           C
ATOM    132  CA  LEU   132       2.995  -9.814   1.415  1.00 25.00           C
ATOM    133  CA  ASP   133      -0.758 -10.554   1.603  1.00 25.00           C
ATOM    134  CA  TYR   134      -0.363 -13.343  -0.993  1.00 25.00           C
ATOM    135  CA  LEU   135       2.540 -14.831   1.013  1.00 25.00           C
ATOM    136  CA  ASN   136       0.423 -14.723   4.203  1.00 25.00           C
ATOM    137  CA  LEU   137      -2.457 -16.469   2.380  1.00 25.00           C
ATOM    138  CA  LEU   138      -0.052 -19.168   1.115  1.00 25.00           C
ATOM    139  CA  GLY   139       3.099 -19.241   3.306  1.00 25.00           C
ATOM    140  CA  TYR   140       1.437 -19.347   6.737  1.00 25.00           C
ATOM    141  CA  ASP   141      -0.433 -21.821   9.007  1.00 25.00           C
ATOM    142  CA  ILE   142       2.070 -22.906  11.658  1.00 25.00           C
ATOM    143  CA  LYS   143       5.537 -23.380  10.150  1.00 25.00           C
ATOM    144  CA  LEU   144       6.946 -19.941  10.811  1.00 25.00           C
ATOM    145  CA  ASP   145       8.421 -18.522  13.970  1.00 25.00           C
ATOM    146  CA  LEU   146      11.392 -16.285  14.698  1.00 25.00           C
ATOM    147  CA  PHE   147      14.331 -15.228  12.585  1.00 25.00           C
ATOM    148  CA  GLU   148      12.186 -13.084  10.310  1.00 25.00           C
TER
END
