
#######################################################
#                                                     #
#                        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 T0369TS599_3
# Molecule2: number of CA atoms  147 ( 1193),  selected  147 , name T0369.pdb
# PARAMETERS: T0369TS599_3.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      D       9           -
LGA    R      10      R      10           -
LGA    H      11      H      11           -
LGA    V      12      V      12           -
LGA    G      13      -       -           -
LGA    V      14      -       -           -
LGA    G      15      G      13           #
LGA    V      16      V      14           #
LGA    R      17      G      15           -
LGA    T      18      V      16           #
LGA    T      19      R      17          3.609
LGA    R      20      T      18           #
LGA    D      21      T      19           -
LGA    L      22      -       -           -
LGA    I      23      R      20           #
LGA    R      24      D      21           #
LGA    L      25      L      22           -
LGA    I      26      I      23           -
LGA    Q      27      R      24           -
LGA    P      28      -       -           -
LGA    E      29      -       -           -
LGA    D      30      -       -           -
LGA    W      31      -       -           -
LGA    D      32      -       -           -
LGA    K      33      -       -           -
LGA    R      34      L      25          4.515
LGA    P      35      I      26          3.045
LGA    I      36      Q      27          2.833
LGA    S      37      P      28          4.856
LGA    -       -      E      29           -
LGA    -       -      D      30           -
LGA    G      38      W      31          5.120
LGA    K      39      D      32           -
LGA    R      40      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           -
LGA    -       -      V      45           -
LGA    S      41      A      46          3.664
LGA    V      42      V      47           #
LGA    Y      43      H      48           -
LGA    E      44      L      49           #
LGA    V      45      A      50          1.277
LGA    A      46      -       -           -
LGA    V      47      -       -           -
LGA    H      48      V      51          3.848
LGA    L      49      L      52          3.260
LGA    A      50      L      53          3.567
LGA    V      51      E      54          4.977
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    -       -      Q      87           -
LGA    -       -      S      88           -
LGA    -       -      W      89           -
LGA    -       -      Q      90           -
LGA    L      52      Y      91          4.332
LGA    L      53      Y      92          3.681
LGA    E      54      Q      93          3.798
LGA    A      55      D      94          3.674
LGA    D      56      R      95          3.358
LGA    L      57      L      96           -
LGA    R      58      M      97           -
LGA    I      59      A      98           -
LGA    A      60      D      99           -
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      F     100           #
LGA    A      73      -       -           -
LGA    V      74      S     101          3.626
LGA    P      75      -       -           -
LGA    V      76      T     102          3.986
LGA    L      77      E     103           -
LGA    P      78      T     104           -
LGA    E      79      T     105           -
LGA    -       -      Y     106           -
LGA    -       -      W     107           -
LGA    -       -      G     108           -
LGA    -       -      V     109           -
LGA    -       -      T     110           -
LGA    Q      80      D     111          3.672
LGA    -       -      S     112           -
LGA    L      81      T     113          1.035
LGA    V      82      T     114          1.327
LGA    D      83      G     115          1.021
LGA    R      84      W     116          0.705
LGA    L      85      L     117          1.017
LGA    D      86      L     118          1.134
LGA    Q      87      E     119          1.148
LGA    S      88      A     120          0.775
LGA    W      89      A     121          1.218
LGA    Q      90      V     122          1.291
LGA    Y      91      H     123          1.367
LGA    Y      92      L     124          1.566
LGA    Q      93      Y     125          1.406
LGA    D      94      H     126          1.294
LGA    R      95      H     127          1.086
LGA    L      96      R     128          1.780
LGA    M      97      S     129          1.130
LGA    A      98      Q     130          1.089
LGA    D      99      L     131          2.140
LGA    F     100      L     132          2.054
LGA    S     101      D     133          1.187
LGA    T     102      Y     134          3.098
LGA    E     103      L     135          3.789
LGA    T     104      N     136          2.026
LGA    -       -      L     137           -
LGA    -       -      L     138           -
LGA    -       -      G     139           -
LGA    T     105      Y     140          2.508
LGA    Y     106      D     141          3.286
LGA    W     107      I     142          2.392
LGA    G     108      K     143          2.817
LGA    V     109      L     144          2.324
LGA    T     110      D     145          3.290
LGA    -       -      L     146           -
LGA    D     111      F     147           #
LGA    S     112      -       -           -
LGA    T     113      -       -           -
LGA    T     114      -       -           -
LGA    G     115      -       -           -
LGA    W     116      -       -           -
LGA    L     117      -       -           -
LGA    L     118      -       -           -
LGA    E     119      -       -           -
LGA    A     120      -       -           -
LGA    A     121      -       -           -
LGA    V     122      -       -           -
LGA    H     123      -       -           -
LGA    L     124      -       -           -
LGA    Y     125      -       -           -
LGA    H     126      -       -           -
LGA    H     127      -       -           -
LGA    R     128      -       -           -
LGA    S     129      -       -           -
LGA    Q     130      -       -           -
LGA    L     131      -       -           -
LGA    L     132      -       -           -
LGA    D     133      -       -           -
LGA    Y     134      -       -           -
LGA    L     135      -       -           -
LGA    N     136      -       -           -
LGA    L     137      -       -           -
LGA    L     138      -       -           -
LGA    G     139      -       -           -
LGA    Y     140      -       -           -
LGA    D     141      -       -           -
LGA    I     142      -       -           -
LGA    K     143      -       -           -
LGA    L     144      -       -           -
LGA    D     145      -       -           -
LGA    L     146      -       -           -
LGA    F     147      -       -           -
LGA    E     148      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  148  147    5.0     50    2.84     4.00     23.821     1.699

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.318897 * X  +   0.122312 * Y  +   0.939864 * Z  +  12.289366
  Y_new =   0.390027 * X  +  -0.920718 * Y  +  -0.012516 * Z  +   3.924014
  Z_new =   0.863819 * X  +   0.370564 * Y  +  -0.341319 * Z  +  -8.944437 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.315136   -0.826456  [ DEG:   132.6475    -47.3525 ]
  Theta =  -1.042802   -2.098791  [ DEG:   -59.7481   -120.2519 ]
  Phi   =   0.885400   -2.256193  [ DEG:    50.7297   -129.2703 ]
 
# 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: T0369TS599_3                                  
REMARK     2: T0369.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0369TS599_3.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   50   2.84    4.00  23.821
REMARK  ---------------------------------------------------------- 
MOLECULE T0369TS599_3
PFRMAT TS                                                                       
TARGET T0369                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      20.296  11.141 -21.328  1.00  0.00              
ATOM      2  CA  THR     2      21.681   8.140 -22.669  1.00  0.00              
ATOM      3  CA  ASP     3      23.876   9.273 -19.398  1.00  0.00              
ATOM      4  CA  TRP     4      20.124   8.915 -18.102  1.00  0.00              
ATOM      5  CA  GLN     5      20.346   5.242 -18.892  1.00  0.00              
ATOM      6  CA  GLN     6      23.709   4.246 -17.572  1.00  0.00              
ATOM      7  CA  ALA     7      23.454   5.749 -14.135  1.00  0.00              
ATOM      8  CA  LEU     8      19.837   4.535 -13.749  1.00  0.00              
ATOM      9  CA  ASP     9      20.583   0.908 -14.690  1.00  0.00              
ATOM     10  CA  ARG    10      23.438   0.767 -12.167  1.00  0.00              
ATOM     11  CA  HIS    11      21.334   2.215  -9.415  1.00  0.00              
ATOM     12  CA  VAL    12      18.548  -0.289 -10.152  1.00  0.00              
ATOM     13  CA  GLY    13      20.923  -3.235  -9.897  1.00  0.00              
ATOM     14  CA  VAL    14      22.834  -2.381  -6.697  1.00  0.00              
ATOM     15  CA  GLY    15      19.956  -1.106  -4.504  1.00  0.00              
ATOM     16  CA  VAL    16      17.946  -4.180  -5.511  1.00  0.00              
ATOM     17  CA  ARG    17      20.550  -6.927  -4.955  1.00  0.00              
ATOM     18  CA  THR    18      21.510  -5.719  -1.446  1.00  0.00              
ATOM     19  CA  THR    19      17.768  -5.492  -0.741  1.00  0.00              
ATOM     20  CA  ARG    20      16.942  -9.026  -1.955  1.00  0.00              
ATOM     21  CA  ASP    21      19.765 -10.368   0.199  1.00  0.00              
ATOM     22  CA  LEU    22      18.463  -8.509   3.249  1.00  0.00              
ATOM     23  CA  ILE    23      14.974  -9.881   2.520  1.00  0.00              
ATOM     24  CA  ARG    24      16.341 -13.408   2.199  1.00  0.00              
ATOM     25  CA  LEU    25      18.226 -13.105   5.498  1.00  0.00              
ATOM     26  CA  ILE    26      15.145 -11.797   7.334  1.00  0.00              
ATOM     27  CA  GLN    27      12.919 -14.561   5.987  1.00  0.00              
ATOM     28  CA  PRO    28      14.779 -17.710   6.834  1.00  0.00              
ATOM     29  CA  GLU    29      14.910 -16.713  10.454  1.00  0.00              
ATOM     30  CA  ASP    30      11.541 -15.313  11.076  1.00  0.00              
ATOM     31  CA  TRP    31       9.338 -17.721   9.198  1.00  0.00              
ATOM     32  CA  ASP    32       6.759 -16.554   6.595  1.00  0.00              
ATOM     33  CA  LYS    33       6.181 -18.768   3.554  1.00  0.00              
ATOM     34  CA  ARG    34       6.293 -16.922   0.213  1.00  0.00              
ATOM     35  CA  PRO    35       5.987 -18.579  -3.077  1.00  0.00              
ATOM     36  CA  ILE    36       9.339 -18.121  -4.863  1.00  0.00              
ATOM     37  CA  SER    37       8.485 -16.892  -8.394  1.00  0.00              
ATOM     38  CA  GLY    38       5.935 -14.337  -7.192  1.00  0.00              
ATOM     39  CA  LYS    39       8.427 -12.851  -4.694  1.00  0.00              
ATOM     40  CA  ARG    40      10.948 -12.226  -7.519  1.00  0.00              
ATOM     41  CA  SER    41       8.349 -10.479  -9.712  1.00  0.00              
ATOM     42  CA  VAL    42       7.227  -8.118  -6.922  1.00  0.00              
ATOM     43  CA  TYR    43      10.807  -7.102  -6.067  1.00  0.00              
ATOM     44  CA  GLU    44      11.468  -6.404  -9.736  1.00  0.00              
ATOM     45  CA  VAL    45       8.315  -4.277 -10.154  1.00  0.00              
ATOM     46  CA  ALA    46       9.220  -2.198  -7.088  1.00  0.00              
ATOM     47  CA  VAL    47      12.801  -1.672  -8.225  1.00  0.00              
ATOM     48  CA  HIS    48      11.574  -0.599 -11.673  1.00  0.00              
ATOM     49  CA  LEU    49       8.987   1.927 -10.438  1.00  0.00              
ATOM     50  CA  ALA    50      11.561   3.592  -8.170  1.00  0.00              
ATOM     51  CA  VAL    51      14.013   3.759 -11.083  1.00  0.00              
ATOM     52  CA  LEU    52      11.731   5.236 -13.769  1.00  0.00              
ATOM     53  CA  LEU    53      10.809   7.988 -11.295  1.00  0.00              
ATOM     54  CA  GLU    54      14.333   9.041 -10.216  1.00  0.00              
ATOM     55  CA  ALA    55      15.977   8.776 -13.666  1.00  0.00              
ATOM     56  CA  ASP    56      17.300  12.236 -14.265  1.00  0.00              
ATOM     57  CA  LEU    57      16.886  12.488 -18.064  1.00  0.00              
ATOM     58  CA  ARG    58      16.448   9.670 -20.546  1.00  0.00              
ATOM     59  CA  ILE    59      16.935  10.219 -24.325  1.00  0.00              
ATOM     60  CA  ALA    60      15.538   7.409 -26.366  1.00  0.00              
ATOM     61  CA  THR    61      15.910   7.075 -30.082  1.00  0.00              
ATOM     62  CA  GLY    62      12.324   6.224 -31.211  1.00  0.00              
ATOM     63  CA  ALA    63      10.805   9.117 -29.235  1.00  0.00              
ATOM     64  CA  THR    64       7.839  10.833 -30.928  1.00  0.00              
ATOM     65  CA  ALA    65       8.063  14.502 -31.700  1.00  0.00              
ATOM     66  CA  ASP    66       5.724  15.614 -28.870  1.00  0.00              
ATOM     67  CA  GLU    67       7.647  13.546 -26.346  1.00  0.00              
ATOM     68  CA  MET    68      10.974  15.001 -27.530  1.00  0.00              
ATOM     69  CA  ALA    69       9.637  18.568 -27.256  1.00  0.00              
ATOM     70  CA  GLN    70       8.551  17.841 -23.704  1.00  0.00              
ATOM     71  CA  PHE    71      11.973  16.439 -22.781  1.00  0.00              
ATOM     72  CA  TYR    72      13.725  19.449 -24.294  1.00  0.00              
ATOM     73  CA  ALA    73      11.427  22.030 -22.668  1.00  0.00              
ATOM     74  CA  VAL    74      11.690  20.600 -19.149  1.00  0.00              
ATOM     75  CA  PRO    75       9.449  22.956 -17.259  1.00  0.00              
ATOM     76  CA  VAL    76       7.956  20.848 -14.528  1.00  0.00              
ATOM     77  CA  LEU    77       7.749  22.506 -11.165  1.00  0.00              
ATOM     78  CA  PRO    78       9.156  21.251  -7.920  1.00  0.00              
ATOM     79  CA  GLU    79       5.712  20.422  -6.518  1.00  0.00              
ATOM     80  CA  GLN    80       4.748  18.355  -9.573  1.00  0.00              
ATOM     81  CA  LEU    81       7.957  16.376  -9.417  1.00  0.00              
ATOM     82  CA  VAL    82       7.360  15.696  -5.701  1.00  0.00              
ATOM     83  CA  ASP    83       3.852  14.518  -6.394  1.00  0.00              
ATOM     84  CA  ARG    84       4.919  12.116  -9.120  1.00  0.00              
ATOM     85  CA  LEU    85       7.640  10.621  -7.024  1.00  0.00              
ATOM     86  CA  ASP    86       5.269  10.108  -4.114  1.00  0.00              
ATOM     87  CA  GLN    87       2.736   8.388  -6.361  1.00  0.00              
ATOM     88  CA  SER    88       5.346   5.978  -7.747  1.00  0.00              
ATOM     89  CA  TRP    89       6.677   4.951  -4.311  1.00  0.00              
ATOM     90  CA  GLN    90       3.155   4.397  -3.127  1.00  0.00              
ATOM     91  CA  TYR    91       2.213   2.235  -6.144  1.00  0.00              
ATOM     92  CA  TYR    92       4.960  -0.235  -5.403  1.00  0.00              
ATOM     93  CA  GLN    93       4.134  -0.506  -1.705  1.00  0.00              
ATOM     94  CA  ASP    94       0.391  -1.070  -2.405  1.00  0.00              
ATOM     95  CA  ARG    95       1.036  -3.774  -4.984  1.00  0.00              
ATOM     96  CA  LEU    96       3.407  -5.691  -2.755  1.00  0.00              
ATOM     97  CA  MET    97       0.954  -5.572   0.151  1.00  0.00              
ATOM     98  CA  ALA    98      -1.887  -6.792  -2.100  1.00  0.00              
ATOM     99  CA  ASP    99      -0.000  -9.729  -3.564  1.00  0.00              
ATOM    100  CA  PHE   100       1.000 -10.797  -0.019  1.00  0.00              
ATOM    101  CA  SER   101      -2.551 -10.527   1.303  1.00  0.00              
ATOM    102  CA  THR   102      -4.408 -12.400  -1.477  1.00  0.00              
ATOM    103  CA  GLU   103      -2.020 -15.330  -1.087  1.00  0.00              
ATOM    104  CA  THR   104      -1.798 -15.520   2.705  1.00  0.00              
ATOM    105  CA  THR   105       1.973 -16.023   2.901  1.00  0.00              
ATOM    106  CA  TYR   106       3.737 -13.524   5.086  1.00  0.00              
ATOM    107  CA  TRP   107       7.406 -12.922   4.508  1.00  0.00              
ATOM    108  CA  GLY   108       8.252 -10.188   6.961  1.00  0.00              
ATOM    109  CA  VAL   109      11.413  -8.765   5.456  1.00  0.00              
ATOM    110  CA  THR   110      12.443  -5.249   6.368  1.00  0.00              
ATOM    111  CA  ASP   111      13.588  -3.323   3.257  1.00  0.00              
ATOM    112  CA  SER   112      15.954  -0.732   4.732  1.00  0.00              
ATOM    113  CA  THR   113      17.954   0.170   1.626  1.00  0.00              
ATOM    114  CA  THR   114      15.044   0.314  -0.803  1.00  0.00              
ATOM    115  CA  GLY   115      13.009   2.532   1.486  1.00  0.00              
ATOM    116  CA  TRP   116      15.983   4.855   1.969  1.00  0.00              
ATOM    117  CA  LEU   117      16.262   5.620  -1.752  1.00  0.00              
ATOM    118  CA  LEU   118      12.528   6.407  -1.959  1.00  0.00              
ATOM    119  CA  GLU   119      12.838   8.704   1.097  1.00  0.00              
ATOM    120  CA  ALA   120      15.872  10.490  -0.479  1.00  0.00              
ATOM    121  CA  ALA   121      13.841  11.225  -3.560  1.00  0.00              
ATOM    122  CA  VAL   122      11.053  12.610  -1.384  1.00  0.00              
ATOM    123  CA  HIS   123      13.539  14.767   0.573  1.00  0.00              
ATOM    124  CA  LEU   124      14.943  16.161  -2.676  1.00  0.00              
ATOM    125  CA  TYR   125      11.392  17.048  -3.779  1.00  0.00              
ATOM    126  CA  HIS   126      10.909  18.933  -0.499  1.00  0.00              
ATOM    127  CA  HIS   127      14.110  21.024  -0.852  1.00  0.00              
ATOM    128  CA  ARG   128      13.154  23.105  -3.852  1.00  0.00              
ATOM    129  CA  SER   129      16.518  24.712  -4.603  1.00  0.00              
ATOM    130  CA  GLN   130      18.339  21.384  -5.097  1.00  0.00              
ATOM    131  CA  LEU   131      15.456  20.141  -7.230  1.00  0.00              
ATOM    132  CA  LEU   132      15.269  23.144  -9.571  1.00  0.00              
ATOM    133  CA  ASP   133      19.016  22.915 -10.155  1.00  0.00              
ATOM    134  CA  TYR   134      18.716  19.166 -10.921  1.00  0.00              
ATOM    135  CA  LEU   135      15.840  19.834 -13.337  1.00  0.00              
ATOM    136  CA  ASN   136      17.741  22.643 -14.997  1.00  0.00              
ATOM    137  CA  LEU   137      20.781  20.371 -15.458  1.00  0.00              
ATOM    138  CA  LEU   138      18.631  17.641 -16.960  1.00  0.00              
ATOM    139  CA  GLY   139      16.991  20.103 -19.365  1.00  0.00              
ATOM    140  CA  TYR   140      20.242  21.604 -20.623  1.00  0.00              
ATOM    141  CA  ASP   141      22.053  18.391 -21.387  1.00  0.00              
ATOM    142  CA  ILE   142      21.384  17.915 -25.084  1.00  0.00              
ATOM    143  CA  LYS   143      22.786  14.350 -25.413  1.00  0.00              
ATOM    144  CA  LEU   144      19.649  12.659 -26.683  1.00  0.00              
ATOM    145  CA  ASP   145      19.649  10.060 -29.385  1.00  0.00              
ATOM    146  CA  LEU   146      15.934  11.119 -31.047  1.00  0.00              
ATOM    147  CA  PHE   147      15.559   8.420 -34.103  1.00  0.00              
ATOM    148  CA  GLU   148      18.990  10.382 -32.679  1.00  0.00              
TER                                                                             
END
