
#######################################################
#                                                     #
#                        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  158 (  158),  selected  158 , name T0361TS599_2-D1
# Molecule2: number of CA atoms  158 ( 1268),  selected  158 , name T0361_D1.pdb
# PARAMETERS: T0361TS599_2-D1.T0361_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    T       3      T       3          1.347
LGA    L       4      L       4          3.137
LGA    T       5      T       5          0.760
LGA    E       6      E       6          1.274
LGA    D       7      D       7          1.506
LGA    D       8      D       8          1.016
LGA    V       9      V       9          1.802
LGA    L      10      L      10          1.574
LGA    E      11      E      11          1.065
LGA    Q      12      Q      12          1.644
LGA    L      13      L      13          2.057
LGA    D      14      D      14          1.695
LGA    A      15      A      15          1.674
LGA    Q      16      Q      16          3.638
LGA    D      17      D      17          4.497
LGA    N      18      N      18           #
LGA    -       -      L      19           -
LGA    -       -      F      20           -
LGA    L      19      S      21          3.277
LGA    F      20      F      22          1.908
LGA    -       -      M      23           -
LGA    S      21      K      24          0.511
LGA    F      22      T      25          1.168
LGA    M      23      A      26          1.774
LGA    K      24      H      27          1.066
LGA    T      25      S      28          0.668
LGA    A      26      I      29          1.514
LGA    H      27      L      30          1.383
LGA    S      28      L      31          0.302
LGA    I      29      Q      32          1.325
LGA    L      30      G      33          2.103
LGA    L      31      I      34          1.354
LGA    Q      32      R      35          0.666
LGA    G      33      Q      36          2.193
LGA    I      34      F      37          2.889
LGA    R      35      L      38          1.550
LGA    Q      36      P      39          3.277
LGA    F      37      S      40           #
LGA    L      38      L      41           #
LGA    P      39      F      42          3.533
LGA    S      40      -       -           -
LGA    L      41      -       -           -
LGA    F      42      V      43          3.707
LGA    V      43      D      44          2.955
LGA    D      44      N      45          2.758
LGA    N      45      D      46          1.803
LGA    D      46      E      47          6.517
LGA    E      47      E      48           -
LGA    E      48      I      49           -
LGA    I      49      V      50           -
LGA    V      50      E      51           -
LGA    E      51      Y      52           -
LGA    Y      52      A      53           -
LGA    A      53      V      54           -
LGA    V      54      K      55           -
LGA    K      55      P      56           -
LGA    P      56      L      57           -
LGA    L      57      L      58           -
LGA    L      58      A      59           -
LGA    A      59      Q      60           -
LGA    Q      60      S      61           -
LGA    S      61      G      62           -
LGA    G      62      P      63           -
LGA    P      63      L      64           -
LGA    L      64      D      65           -
LGA    D      65      D      66           -
LGA    D      66      I      67           -
LGA    I      67      D      68           -
LGA    D      68      V      69           -
LGA    V      69      A      70           -
LGA    A      70      L      71           -
LGA    L      71      R      72           -
LGA    R      72      L      73           -
LGA    L      73      I      74           -
LGA    I      74      Y      75           -
LGA    Y      75      A      76           -
LGA    A      76      L      77           -
LGA    L      77      G      78           -
LGA    G      78      K      79           -
LGA    K      79      -       -           -
LGA    M      80      -       -           -
LGA    D      81      -       -           -
LGA    K      82      -       -           -
LGA    W      83      -       -           -
LGA    L      84      -       -           -
LGA    Y      85      -       -           -
LGA    A      86      -       -           -
LGA    D      87      -       -           -
LGA    I      88      -       -           -
LGA    T      89      -       -           -
LGA    H      90      -       -           -
LGA    F      91      -       -           -
LGA    S      92      -       -           -
LGA    Q      93      -       -           -
LGA    Y      94      -       -           -
LGA    W      95      -       -           -
LGA    H      96      -       -           -
LGA    Y      97      -       -           -
LGA    L      98      -       -           -
LGA    N      99      -       -           -
LGA    E     100      -       -           -
LGA    Q     101      -       -           -
LGA    D     102      -       -           -
LGA    E     103      -       -           -
LGA    T     104      -       -           -
LGA    P     105      -       -           -
LGA    G     106      -       -           -
LGA    F     107      -       -           -
LGA    A     108      M      80           #
LGA    D     109      D      81          1.346
LGA    D     110      K      82          0.921
LGA    I     111      W      83          1.627
LGA    T     112      L      84          1.748
LGA    W     113      Y      85          1.372
LGA    D     114      A      86          1.239
LGA    F     115      D      87          1.697
LGA    I     116      I      88          1.796
LGA    S     117      T      89          1.524
LGA    N     118      H      90          1.529
LGA    V     119      F      91          1.678
LGA    N     120      S      92          1.695
LGA    S     121      Q      93          1.479
LGA    I     122      Y      94          1.606
LGA    T     123      W      95          2.107
LGA    R     124      H      96          2.455
LGA    N     125      Y      97          1.757
LGA    A     126      L      98          1.861
LGA    T     127      N      99           -
LGA    L     128      E     100           -
LGA    Y     129      Q     101           -
LGA    -       -      D     102           -
LGA    -       -      E     103           -
LGA    D     130      T     104          4.525
LGA    A     131      P     105          2.304
LGA    L     132      G     106          2.460
LGA    K     133      F     107          4.176
LGA    A     134      A     108           #
LGA    M     135      D     109           #
LGA    -       -      D     110           -
LGA    -       -      I     111           -
LGA    -       -      T     112           -
LGA    -       -      W     113           -
LGA    -       -      D     114           -
LGA    -       -      F     115           -
LGA    -       -      I     116           -
LGA    -       -      S     117           -
LGA    -       -      N     118           -
LGA    -       -      V     119           -
LGA    -       -      N     120           -
LGA    -       -      S     121           -
LGA    -       -      I     122           -
LGA    -       -      T     123           -
LGA    -       -      R     124           -
LGA    -       -      N     125           -
LGA    -       -      A     126           -
LGA    -       -      T     127           -
LGA    -       -      L     128           -
LGA    -       -      Y     129           -
LGA    -       -      D     130           -
LGA    -       -      A     131           -
LGA    -       -      L     132           -
LGA    -       -      K     133           -
LGA    -       -      A     134           -
LGA    -       -      M     135           -
LGA    -       -      K     136           -
LGA    -       -      E     145           -
LGA    K     136      A     146          3.158
LGA    -       -      R     147           -
LGA    -       -      F     148           -
LGA    -       -      S     149           -
LGA    -       -      G     150           -
LGA    -       -      M     151           -
LGA    -       -      V     152           -
LGA    -       -      K     153           -
LGA    E     145      T     154          2.998
LGA    A     146      A     155          0.341
LGA    R     147      L     156          3.570
LGA    F     148      T     157          4.156
LGA    S     149      L     158          1.923
LGA    G     150      A     159          2.427
LGA    M     151      V     160          4.693
LGA    V     152      T     161          4.107
LGA    K     153      T     162          0.892
LGA    T     154      T     163          3.263
LGA    A     155      L     164          4.972
LGA    L     156      K     165          3.451
LGA    T     157      E     166          1.015
LGA    L     158      -       -           -
LGA    A     159      L     167          3.073
LGA    V     160      T     168          2.955
LGA    T     161      -       -           -
LGA    T     162      -       -           -
LGA    T     163      -       -           -
LGA    L     164      -       -           -
LGA    K     165      -       -           -
LGA    E     166      -       -           -
LGA    L     167      -       -           -
LGA    T     168      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  158  158    5.0     77    2.50    25.97     33.081     2.959

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.849485 * X  +  -0.407409 * Y  +   0.335251 * Z  +  21.503361
  Y_new =  -0.364863 * X  +   0.912598 * Y  +   0.184500 * Z  +   2.794565
  Z_new =  -0.381116 * X  +   0.034410 * Y  +  -0.923887 * Z  +  22.084789 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.104366   -0.037227  [ DEG:   177.8671     -2.1330 ]
  Theta =   0.391003    2.750589  [ DEG:    22.4028    157.5972 ]
  Phi   =  -2.735907    0.405685  [ DEG:  -156.7559     23.2441 ]
 
# 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: T0361TS599_2-D1                               
REMARK     2: T0361_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0361TS599_2-D1.T0361_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  158  158   5.0   77   2.50   25.97  33.081
REMARK  ---------------------------------------------------------- 
MOLECULE T0361TS599_2-D1
PFRMAT TS                                                                       
TARGET T0361                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      3  CA  THR     3      15.170  12.607  21.168  1.00  0.00              
ATOM      4  CA  LEU     4      13.697  11.357  24.237  1.00  0.00              
ATOM      5  CA  THR     5      16.045  10.778  27.187  1.00  0.00              
ATOM      6  CA  GLU     6      15.914   7.440  29.048  1.00  0.00              
ATOM      7  CA  ASP     7      14.216   9.034  31.998  1.00  0.00              
ATOM      8  CA  ASP     8      11.514  10.812  30.091  1.00  0.00              
ATOM      9  CA  VAL     9      10.599   7.628  28.145  1.00  0.00              
ATOM     10  CA  LEU    10      10.410   5.507  31.272  1.00  0.00              
ATOM     11  CA  GLU    11       8.156   8.111  33.012  1.00  0.00              
ATOM     12  CA  GLN    12       5.826   8.247  30.007  1.00  0.00              
ATOM     13  CA  LEU    13       5.672   4.409  29.970  1.00  0.00              
ATOM     14  CA  ASP    14       4.932   4.291  33.678  1.00  0.00              
ATOM     15  CA  ALA    15       1.964   6.661  33.243  1.00  0.00              
ATOM     16  CA  GLN    16       0.332   5.401  30.101  1.00  0.00              
ATOM     17  CA  ASP    17      -2.061   2.504  30.387  1.00  0.00              
ATOM     18  CA  ASN    18      -0.687   1.064  27.081  1.00  0.00              
ATOM     19  CA  LEU    19       2.894   1.190  28.375  1.00  0.00              
ATOM     20  CA  PHE    20       4.109  -1.873  26.455  1.00  0.00              
ATOM     21  CA  SER    21       2.918  -0.340  23.173  1.00  0.00              
ATOM     22  CA  PHE    22       4.655   2.915  24.043  1.00  0.00              
ATOM     23  CA  MET    23       8.049   1.432  24.965  1.00  0.00              
ATOM     24  CA  LYS    24       8.261  -0.658  21.783  1.00  0.00              
ATOM     25  CA  THR    25       7.339   2.249  19.478  1.00  0.00              
ATOM     26  CA  ALA    26       9.851   4.520  21.255  1.00  0.00              
ATOM     27  CA  HIS    27      12.739   2.022  20.904  1.00  0.00              
ATOM     28  CA  SER    28      11.959   1.590  17.198  1.00  0.00              
ATOM     29  CA  ILE    29      11.920   5.373  16.693  1.00  0.00              
ATOM     30  CA  LEU    30      15.278   5.693  18.506  1.00  0.00              
ATOM     31  CA  LEU    31      16.926   2.990  16.443  1.00  0.00              
ATOM     32  CA  GLN    32      15.729   4.449  13.204  1.00  0.00              
ATOM     33  CA  GLY    33      16.859   7.969  14.170  1.00  0.00              
ATOM     34  CA  ILE    34      20.321   7.010  15.266  1.00  0.00              
ATOM     35  CA  ARG    35      20.790   4.931  12.163  1.00  0.00              
ATOM     36  CA  GLN    36      19.800   7.938  10.001  1.00  0.00              
ATOM     37  CA  PHE    37      22.190  10.199  11.840  1.00  0.00              
ATOM     38  CA  LEU    38      25.135   7.759  11.479  1.00  0.00              
ATOM     39  CA  PRO    39      24.485   7.343   7.783  1.00  0.00              
ATOM     40  CA  SER    40      24.374  11.131   7.282  1.00  0.00              
ATOM     41  CA  LEU    41      27.588  11.848   9.156  1.00  0.00              
ATOM     42  CA  PHE    42      29.567   9.216   7.205  1.00  0.00              
ATOM     43  CA  VAL    43      28.200   9.829   3.745  1.00  0.00              
ATOM     44  CA  ASP    44      28.207  13.475   2.593  1.00  0.00              
ATOM     45  CA  ASN    45      29.386  13.037  -0.947  1.00  0.00              
ATOM     46  CA  ASP    46      32.807  14.557  -0.699  1.00  0.00              
ATOM     47  CA  GLU    47      33.647  13.640   2.917  1.00  0.00              
ATOM     48  CA  GLU    48      36.206  16.367   3.474  1.00  0.00              
ATOM     49  CA  ILE    49      35.380  17.520   7.003  1.00  0.00              
ATOM     50  CA  VAL    50      35.374  14.039   8.528  1.00  0.00              
ATOM     51  CA  GLU    51      38.500  12.766   6.757  1.00  0.00              
ATOM     52  CA  TYR    52      40.487  15.933   7.467  1.00  0.00              
ATOM     53  CA  ALA    53      39.433  16.067  11.121  1.00  0.00              
ATOM     54  CA  VAL    54      40.173  12.501  11.927  1.00  0.00              
ATOM     55  CA  LYS    55      43.587  12.358  10.355  1.00  0.00              
ATOM     56  CA  PRO    56      44.657  15.571  12.047  1.00  0.00              
ATOM     57  CA  LEU    57      43.550  14.503  15.491  1.00  0.00              
ATOM     58  CA  LEU    58      45.100  11.009  15.235  1.00  0.00              
ATOM     59  CA  ALA    59      48.352  12.581  14.063  1.00  0.00              
ATOM     60  CA  GLN    60      49.154  15.575  16.252  1.00  0.00              
ATOM     61  CA  SER    61      49.523  13.986  19.584  1.00  0.00              
ATOM     62  CA  GLY    62      46.043  13.126  20.720  1.00  0.00              
ATOM     63  CA  PRO    63      46.269   9.341  21.028  1.00  0.00              
ATOM     64  CA  LEU    64      44.028   7.435  18.602  1.00  0.00              
ATOM     65  CA  ASP    65      41.948   5.535  21.121  1.00  0.00              
ATOM     66  CA  ASP    66      38.939   4.232  19.291  1.00  0.00              
ATOM     67  CA  ILE    67      35.915   5.824  20.896  1.00  0.00              
ATOM     68  CA  ASP    68      37.389   8.900  22.537  1.00  0.00              
ATOM     69  CA  VAL    69      39.536  10.466  19.892  1.00  0.00              
ATOM     70  CA  ALA    70      36.999   9.829  17.086  1.00  0.00              
ATOM     71  CA  LEU    71      33.991  11.211  18.962  1.00  0.00              
ATOM     72  CA  ARG    72      35.685  14.403  20.212  1.00  0.00              
ATOM     73  CA  LEU    73      36.954  15.182  16.738  1.00  0.00              
ATOM     74  CA  ILE    74      33.867  14.653  14.579  1.00  0.00              
ATOM     75  CA  TYR    75      31.668  16.601  16.944  1.00  0.00              
ATOM     76  CA  ALA    76      34.073  19.497  17.425  1.00  0.00              
ATOM     77  CA  LEU    77      34.487  19.803  13.668  1.00  0.00              
ATOM     78  CA  GLY    78      30.814  20.223  12.867  1.00  0.00              
ATOM     79  CA  LYS    79      30.235  16.848  11.188  1.00  0.00              
ATOM     80  CA  MET    80      27.908  15.365  13.684  1.00  0.00              
ATOM     81  CA  ASP    81      24.816  17.052  14.958  1.00  0.00              
ATOM     82  CA  LYS    82      24.495  17.844  18.611  1.00  0.00              
ATOM     83  CA  TRP    83      21.627  15.335  19.209  1.00  0.00              
ATOM     84  CA  LEU    84      23.747  12.502  17.939  1.00  0.00              
ATOM     85  CA  TYR    85      26.825  13.581  19.942  1.00  0.00              
ATOM     86  CA  ALA    86      24.819  13.413  23.190  1.00  0.00              
ATOM     87  CA  ASP    87      23.818   9.814  22.437  1.00  0.00              
ATOM     88  CA  ILE    88      27.445   8.916  21.688  1.00  0.00              
ATOM     89  CA  THR    89      28.765  10.130  25.079  1.00  0.00              
ATOM     90  CA  HIS    90      26.310   7.862  26.932  1.00  0.00              
ATOM     91  CA  PHE    91      27.038   4.875  24.787  1.00  0.00              
ATOM     92  CA  SER    92      30.787   5.247  25.188  1.00  0.00              
ATOM     93  CA  GLN    93      30.478   5.254  28.939  1.00  0.00              
ATOM     94  CA  TYR    94      28.320   2.117  28.881  1.00  0.00              
ATOM     95  CA  TRP    95      30.788   0.320  26.591  1.00  0.00              
ATOM     96  CA  HIS    96      33.620   1.169  28.980  1.00  0.00              
ATOM     97  CA  TYR    97      31.556  -0.153  31.908  1.00  0.00              
ATOM     98  CA  LEU    98      30.798  -3.393  30.005  1.00  0.00              
ATOM     99  CA  ASN    99      34.473  -3.911  29.108  1.00  0.00              
ATOM    100  CA  GLU   100      35.784  -3.405  32.666  1.00  0.00              
ATOM    101  CA  GLN   101      37.122  -6.853  33.445  1.00  0.00              
ATOM    102  CA  ASP   102      35.984  -7.104  37.040  1.00  0.00              
ATOM    103  CA  GLU   103      32.287  -6.551  36.481  1.00  0.00              
ATOM    104  CA  THR   104      31.821  -8.825  33.515  1.00  0.00              
ATOM    105  CA  PRO   105      29.989  -7.454  30.419  1.00  0.00              
ATOM    106  CA  GLY   106      31.112  -8.304  26.940  1.00  0.00              
ATOM    107  CA  PHE   107      27.834  -8.865  25.001  1.00  0.00              
ATOM    108  CA  ALA   108      28.616 -11.243  22.204  1.00  0.00              
ATOM    109  CA  ASP   109      26.706  -9.955  19.233  1.00  0.00              
ATOM    110  CA  ASP   110      24.301 -12.826  19.108  1.00  0.00              
ATOM    111  CA  ILE   111      23.141 -12.680  22.668  1.00  0.00              
ATOM    112  CA  THR   112      22.134  -9.066  22.239  1.00  0.00              
ATOM    113  CA  TRP   113      20.161  -9.888  19.070  1.00  0.00              
ATOM    114  CA  ASP   114      18.304 -12.799  20.746  1.00  0.00              
ATOM    115  CA  PHE   115      17.421 -10.597  23.701  1.00  0.00              
ATOM    116  CA  ILE   116      16.147  -7.841  21.380  1.00  0.00              
ATOM    117  CA  SER   117      14.092 -10.277  19.492  1.00  0.00              
ATOM    118  CA  ASN   118      12.394 -11.335  22.734  1.00  0.00              
ATOM    119  CA  VAL   119      11.370  -7.822  23.598  1.00  0.00              
ATOM    120  CA  ASN   120       9.998  -7.176  20.105  1.00  0.00              
ATOM    121  CA  SER   121       7.955 -10.396  19.930  1.00  0.00              
ATOM    122  CA  ILE   122       6.263  -9.986  23.286  1.00  0.00              
ATOM    123  CA  THR   123       5.378  -6.356  22.443  1.00  0.00              
ATOM    124  CA  ARG   124       3.856  -6.954  19.058  1.00  0.00              
ATOM    125  CA  ASN   125       1.526  -9.771  20.169  1.00  0.00              
ATOM    126  CA  ALA   126       0.450  -8.653  23.583  1.00  0.00              
ATOM    127  CA  THR   127       0.529 -11.796  25.651  1.00  0.00              
ATOM    128  CA  LEU   128       2.766 -11.893  28.763  1.00  0.00              
ATOM    129  CA  TYR   129       2.555  -8.240  29.765  1.00  0.00              
ATOM    130  CA  ASP   130      -1.200  -7.924  29.324  1.00  0.00              
ATOM    131  CA  ALA   131      -2.076 -10.988  31.430  1.00  0.00              
ATOM    132  CA  LEU   132       0.404 -10.008  34.130  1.00  0.00              
ATOM    133  CA  LYS   133      -0.666  -6.332  34.318  1.00  0.00              
ATOM    134  CA  ALA   134      -4.098  -7.712  35.141  1.00  0.00              
ATOM    135  CA  MET   135      -2.879  -9.885  38.021  1.00  0.00              
ATOM    136  CA  LYS   136      -1.386  -7.271  40.341  1.00  0.00              
ATOM    145  CA  GLU   145       9.652  -4.389  34.439  1.00  0.00              
ATOM    146  CA  ALA   146      13.182  -5.601  35.089  1.00  0.00              
ATOM    147  CA  ARG   147      13.299  -7.660  31.885  1.00  0.00              
ATOM    148  CA  PHE   148      12.100  -4.725  29.809  1.00  0.00              
ATOM    149  CA  SER   149      14.643  -2.347  31.165  1.00  0.00              
ATOM    150  CA  GLY   150      17.554  -4.794  30.838  1.00  0.00              
ATOM    151  CA  MET   151      16.697  -5.656  27.255  1.00  0.00              
ATOM    152  CA  VAL   152      16.445  -2.031  26.265  1.00  0.00              
ATOM    153  CA  LYS   153      19.728  -1.044  27.835  1.00  0.00              
ATOM    154  CA  THR   154      21.546  -3.901  26.181  1.00  0.00              
ATOM    155  CA  ALA   155      19.968  -2.955  22.769  1.00  0.00              
ATOM    156  CA  LEU   156      21.223   0.610  23.087  1.00  0.00              
ATOM    157  CA  THR   157      24.719  -0.745  23.694  1.00  0.00              
ATOM    158  CA  LEU   158      24.676  -3.154  20.762  1.00  0.00              
ATOM    159  CA  ALA   159      23.299  -0.538  18.287  1.00  0.00              
ATOM    160  CA  VAL   160      25.556   2.392  19.176  1.00  0.00              
ATOM    161  CA  THR   161      28.736   0.411  18.983  1.00  0.00              
ATOM    162  CA  THR   162      27.873  -0.875  15.517  1.00  0.00              
ATOM    163  CA  THR   163      27.072   2.630  14.246  1.00  0.00              
ATOM    164  CA  LEU   164      30.260   4.108  15.607  1.00  0.00              
ATOM    165  CA  LYS   165      32.395   1.430  14.049  1.00  0.00              
ATOM    166  CA  GLU   166      30.752   1.901  10.708  1.00  0.00              
ATOM    167  CA  LEU   167      31.327   5.872  10.996  1.00  0.00              
ATOM    168  CA  THR   168      34.930   6.060  12.349  1.00  0.00              
TER                                                                             
END
