
#######################################################
#                                                     #
#                        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  133 (  133),  selected  133 , name T0307TS168_2
# Molecule2: number of CA atoms  132 ( 1005),  selected  132 , name T0307.pdb
# PARAMETERS: T0307TS168_2.T0307.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    G       2      G       2           -
LGA    L       3      L       3           -
LGA    G       4      G       4           -
LGA    R       5      R       5           -
LGA    Q       6      Q       6           -
LGA    S       7      S       7           -
LGA    L       8      L       8           -
LGA    N       9      N       9           -
LGA    I      10      I      10           -
LGA    M      11      M      11           -
LGA    T      12      T      12           -
LGA    F      13      F      13           -
LGA    S      14      S      14           -
LGA    -       -      G      15           -
LGA    -       -      Q      16           -
LGA    -       -      E      17           -
LGA    -       -      L      18           -
LGA    -       -      T      19           -
LGA    -       -      A      20           -
LGA    -       -      I      21           -
LGA    -       -      I      22           -
LGA    -       -      K      23           -
LGA    G      15      M      24           #
LGA    -       -      A      25           -
LGA    -       -      K      26           -
LGA    Q      16      S      27           #
LGA    E      17      M      28          3.981
LGA    L      18      V      29          4.663
LGA    T      19      M      30          3.360
LGA    A      20      A      31          3.150
LGA    I      21      D      32          5.214
LGA    I      22      -       -           -
LGA    K      23      G      33          3.220
LGA    M      24      K      34          2.370
LGA    A      25      I      35          2.426
LGA    K      26      -       -           -
LGA    S      27      -       -           -
LGA    M      28      -       -           -
LGA    V      29      -       -           -
LGA    M      30      -       -           -
LGA    A      31      -       -           -
LGA    D      32      -       -           -
LGA    G      33      -       -           -
LGA    K      34      -       -           -
LGA    I      35      -       -           -
LGA    K      36      -       -           -
LGA    P      37      -       -           -
LGA    A      38      -       -           -
LGA    E      39      -       -           -
LGA    I      40      -       -           -
LGA    A      41      -       -           -
LGA    V      42      -       -           -
LGA    M      43      -       -           -
LGA    T      44      -       -           -
LGA    R      45      -       -           -
LGA    E      46      -       -           -
LGA    F      47      -       -           -
LGA    M      48      -       -           -
LGA    R      49      -       -           -
LGA    F      50      -       -           -
LGA    G      51      -       -           -
LGA    I      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      -       -           -
LGA    D      55      -       -           -
LGA    Q      56      -       -           -
LGA    V      57      -       -           -
LGA    D      58      -       -           -
LGA    L      59      K      36          5.402
LGA    L      60      P      37          3.863
LGA    L      61      A      38           -
LGA    K      62      E      39           #
LGA    A      63      I      40          1.758
LGA    S      64      A      41          4.734
LGA    D      65      -       -           -
LGA    S      66      V      42          2.601
LGA    I      67      M      43          2.090
LGA    E      68      T      44          1.892
LGA    A      69      R      45          1.376
LGA    S      70      E      46          1.943
LGA    Q      71      F      47          1.449
LGA    A      72      M      48          0.710
LGA    V      73      R      49          0.902
LGA    A      74      F      50          2.004
LGA    L      75      G      51          2.416
LGA    I      76      I      52           #
LGA    A      77      L      53           -
LGA    R      78      Q      54           -
LGA    M      79      D      55           -
LGA    D      80      Q      56           -
LGA    E      81      V      57           -
LGA    E      82      D      58           -
LGA    R      83      L      59           -
LGA    K      84      L      60           -
LGA    K      85      L      61           -
LGA    Y      86      K      62           -
LGA    V      87      A      63           -
LGA    A      88      S      64           -
LGA    S      89      D      65           -
LGA    Y      90      S      66           -
LGA    L      91      I      67           -
LGA    G      92      E      68           -
LGA    V      93      A      69           -
LGA    I      94      S      70           -
LGA    M      95      Q      71           -
LGA    A      96      A      72           -
LGA    S      97      V      73           -
LGA    D      98      A      74           -
LGA    G      99      L      75           -
LGA    D     100      I      76           -
LGA    I     101      A      77           -
LGA    -       -      R      78           -
LGA    -       -      M      79           -
LGA    D     102      D      80           #
LGA    D     103      E      81          5.148
LGA    N     104      E      82          4.378
LGA    E     105      R      83          1.982
LGA    -       -      K      84           -
LGA    L     106      K      85          1.256
LGA    A     107      Y      86          1.736
LGA    L     108      V      87          1.851
LGA    W     109      A      88          1.225
LGA    T     110      S      89          2.542
LGA    L     111      Y      90          3.089
LGA    I     112      L      91          2.358
LGA    S     113      G      92          3.168
LGA    T     114      V      93          4.156
LGA    L     115      I      94          4.129
LGA    C     116      M      95          3.730
LGA    G     117      A      96          4.103
LGA    L     118      S      97           #
LGA    P     119      D      98           -
LGA    T     120      G      99           -
LGA    -       -      D     100           -
LGA    -       -      I     101           -
LGA    M     121      D     102          2.906
LGA    T     122      D     103          2.711
LGA    -       -      N     104           -
LGA    -       -      E     105           -
LGA    V     123      L     106          3.413
LGA    M     124      A     107          2.192
LGA    E     125      L     108          1.629
LGA    A     126      W     109          2.314
LGA    I     127      T     110          1.413
LGA    N     128      L     111          0.710
LGA    N     129      I     112          2.163
LGA    M     130      S     113          0.992
LGA    K     131      T     114          2.472
LGA    -       -      L     115           -
LGA    N     132      C     116          1.062
LGA    L     133      G     117           -
LGA    -       -      L     118           -
LGA    -       -      P     119           -
LGA    -       -      T     120           -
LGA    -       -      M     121           -
LGA    -       -      T     122           -
LGA    -       -      V     123           -
LGA    -       -      M     124           -
LGA    -       -      E     125           -
LGA    -       -      A     126           -
LGA    -       -      I     127           -
LGA    -       -      N     128           -
LGA    -       -      N     129           -
LGA    -       -      M     130           -
LGA    -       -      K     131           -
LGA    -       -      N     132           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  133  132    5.0     49    2.94     2.04     23.455     1.614

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.104221 * X  +   0.694754 * Y  +  -0.711656 * Z  +  22.318968
  Y_new =  -0.944375 * X  +  -0.293549 * Y  +  -0.148275 * Z  +  10.419687
  Z_new =  -0.311921 * X  +   0.656616 * Y  +   0.686703 * Z  +  21.413668 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.763005   -2.378588  [ DEG:    43.7170   -136.2830 ]
  Theta =   0.317214    2.824379  [ DEG:    18.1750    161.8250 ]
  Phi   =  -1.680712    1.460881  [ DEG:   -96.2977     83.7023 ]
 
# 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: T0307TS168_2                                  
REMARK     2: T0307.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS168_2.T0307.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  133  132   5.0   49   2.94    2.04  23.455
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS168_2
PFRMAT TS
TARGET T0307
MODEL 2
PARENT N/A
ATOM      1  CA  MET     1      42.374  -0.150   1.440  1.00 25.00           C
ATOM      2  CA  GLY     2      44.716  -0.773   4.355  1.00 25.00           C
ATOM      3  CA  LEU     3      44.708  -2.062   7.866  1.00 25.00           C
ATOM      4  CA  GLY     4      41.697  -4.302   7.822  1.00 25.00           C
ATOM      5  CA  ARG     5      41.361  -6.394  10.961  1.00 25.00           C
ATOM      6  CA  GLN     6      40.999  -9.092  13.615  1.00 25.00           C
ATOM      7  CA  SER     7      39.451 -10.073  16.961  1.00 25.00           C
ATOM      8  CA  LEU     8      37.069 -10.138  19.904  1.00 25.00           C
ATOM      9  CA  ASN     9      34.284  -9.644  22.447  1.00 25.00           C
ATOM     10  CA  ILE    10      33.467  -6.895  24.892  1.00 25.00           C
ATOM     11  CA  MET    11      32.107  -4.316  27.310  1.00 25.00           C
ATOM     12  CA  THR    12      33.695  -1.680  29.497  1.00 25.00           C
ATOM     13  CA  PHE    13      30.705   0.678  29.017  1.00 25.00           C
ATOM     14  CA  SER    14      33.156   3.654  28.854  1.00 25.00           C
ATOM     15  CA  GLY    15      32.137   6.328  26.290  1.00 25.00           C
ATOM     16  CA  GLN    16      32.121   3.433  23.782  1.00 25.00           C
ATOM     17  CA  GLU    17      28.496   4.237  22.840  1.00 25.00           C
ATOM     18  CA  LEU    18      29.418   7.920  22.338  1.00 25.00           C
ATOM     19  CA  THR    19      32.369   6.904  20.117  1.00 25.00           C
ATOM     20  CA  ALA    20      30.069   4.641  18.055  1.00 25.00           C
ATOM     21  CA  ILE    21      27.564   7.511  17.655  1.00 25.00           C
ATOM     22  CA  ILE    22      30.380   9.845  16.520  1.00 25.00           C
ATOM     23  CA  LYS    23      31.554   7.232  13.978  1.00 25.00           C
ATOM     24  CA  MET    24      27.977   6.873  12.658  1.00 25.00           C
ATOM     25  CA  ALA    25      27.692  10.678  12.323  1.00 25.00           C
ATOM     26  CA  LYS    26      31.015  10.782  10.421  1.00 25.00           C
ATOM     27  CA  SER    27      29.792   8.009   8.081  1.00 25.00           C
ATOM     28  CA  MET    28      26.540   9.935   7.459  1.00 25.00           C
ATOM     29  CA  VAL    29      28.539  13.107   6.678  1.00 25.00           C
ATOM     30  CA  MET    30      30.743  11.147   4.236  1.00 25.00           C
ATOM     31  CA  ALA    31      31.302  12.102   0.565  1.00 25.00           C
ATOM     32  CA  ASP    32      33.099  12.989  -2.644  1.00 25.00           C
ATOM     33  CA  GLY    33      35.168  13.958  -5.691  1.00 25.00           C
ATOM     34  CA  LYS    34      37.215  15.520  -8.525  1.00 25.00           C
ATOM     35  CA  ILE    35      39.463  16.715 -11.344  1.00 25.00           C
ATOM     36  CA  LYS    36      42.264  18.087 -13.586  1.00 25.00           C
ATOM     37  CA  PRO    37      45.721  19.554 -14.275  1.00 25.00           C
ATOM     38  CA  ALA    38      46.868  17.026 -11.637  1.00 25.00           C
ATOM     39  CA  GLU    39      47.522  19.871  -9.159  1.00 25.00           C
ATOM     40  CA  ILE    40      44.036  21.302  -9.843  1.00 25.00           C
ATOM     41  CA  ALA    41      42.480  17.850  -9.269  1.00 25.00           C
ATOM     42  CA  VAL    42      44.394  17.509  -5.969  1.00 25.00           C
ATOM     43  CA  MET    43      43.174  20.970  -4.874  1.00 25.00           C
ATOM     44  CA  THR    44      39.571  20.000  -5.739  1.00 25.00           C
ATOM     45  CA  ARG    45      39.931  16.766  -3.718  1.00 25.00           C
ATOM     46  CA  GLU    46      41.296  18.750  -0.741  1.00 25.00           C
ATOM     47  CA  PHE    47      38.351  21.186  -0.980  1.00 25.00           C
ATOM     48  CA  MET    48      35.896  18.247  -1.059  1.00 25.00           C
ATOM     49  CA  ARG    49      37.583  16.723   2.023  1.00 25.00           C
ATOM     50  CA  PHE    50      37.340  20.081   3.847  1.00 25.00           C
ATOM     51  CA  GLY    51      33.626  20.329   2.945  1.00 25.00           C
ATOM     52  CA  ILE    52      33.046  16.775   4.250  1.00 25.00           C
ATOM     53  CA  LEU    53      34.850  17.652   7.512  1.00 25.00           C
ATOM     54  CA  GLN    54      32.690  20.793   7.891  1.00 25.00           C
ATOM     55  CA  ASP    55      29.525  18.716   7.312  1.00 25.00           C
ATOM     56  CA  GLN    56      30.672  16.187   9.950  1.00 25.00           C
ATOM     57  CA  VAL    57      31.327  19.033  12.428  1.00 25.00           C
ATOM     58  CA  ASP    58      27.841  20.464  11.744  1.00 25.00           C
ATOM     59  CA  LEU    59      26.284  17.012  12.319  1.00 25.00           C
ATOM     60  CA  LEU    60      28.200  16.670  15.618  1.00 25.00           C
ATOM     61  CA  LEU    61      26.978  20.132  16.712  1.00 25.00           C
ATOM     62  CA  LYS    62      23.376  19.162  15.849  1.00 25.00           C
ATOM     63  CA  ALA    63      23.736  15.928  17.869  1.00 25.00           C
ATOM     64  CA  SER    64      25.101  17.912  20.846  1.00 25.00           C
ATOM     65  CA  ASP    65      22.155  20.347  20.607  1.00 25.00           C
ATOM     66  CA  SER    66      19.701  17.408  20.527  1.00 25.00           C
ATOM     67  CA  ILE    67      21.387  15.884  23.610  1.00 25.00           C
ATOM     68  CA  GLU    68      21.144  19.243  25.433  1.00 25.00           C
ATOM     69  CA  ALA    69      17.430  19.491  24.533  1.00 25.00           C
ATOM     70  CA  SER    70      16.851  15.937  25.837  1.00 25.00           C
ATOM     71  CA  GLN    71      18.654  16.814  29.100  1.00 25.00           C
ATOM     72  CA  ALA    72      16.495  19.954  29.478  1.00 25.00           C
ATOM     73  CA  VAL    73      13.330  17.877  28.899  1.00 25.00           C
ATOM     74  CA  ALA    74      14.477  15.348  31.537  1.00 25.00           C
ATOM     75  CA  LEU    75      15.131  18.195  34.015  1.00 25.00           C
ATOM     76  CA  ILE    76      11.645  19.625  33.331  1.00 25.00           C
ATOM     77  CA  ALA    77      10.089  16.173  33.906  1.00 25.00           C
ATOM     78  CA  ARG    78      12.004  15.832  37.205  1.00 25.00           C
ATOM     79  CA  MET    79      10.783  19.293  38.300  1.00 25.00           C
ATOM     80  CA  ASP    80       7.181  18.322  37.436  1.00 25.00           C
ATOM     81  CA  GLU    81       7.540  15.089  39.456  1.00 25.00           C
ATOM     82  CA  GLU    82       8.906  17.073  42.433  1.00 25.00           C
ATOM     83  CA  ARG    83       5.960  19.508  42.194  1.00 25.00           C
ATOM     84  CA  LYS    84       3.506  16.569  42.115  1.00 25.00           C
ATOM     85  CA  LYS    85       5.192  15.045  45.197  1.00 25.00           C
ATOM     86  CA  TYR    86       4.949  18.405  47.021  1.00 25.00           C
ATOM     87  CA  VAL    87       1.235  18.652  46.120  1.00 25.00           C
ATOM     88  CA  ALA    88       0.656  15.099  47.424  1.00 25.00           C
ATOM     89  CA  SER    89       2.459  15.975  50.687  1.00 25.00           C
ATOM     90  CA  TYR    90       0.299  19.115  51.065  1.00 25.00           C
ATOM     91  CA  LEU    91      -2.866  17.039  50.485  1.00 25.00           C
ATOM     92  CA  GLY    92      -1.719  14.510  53.125  1.00 25.00           C
ATOM     93  CA  VAL    93      -1.064  17.357  55.602  1.00 25.00           C
ATOM     94  CA  ILE    94      -4.550  18.787  54.918  1.00 25.00           C
ATOM     95  CA  MET    95      -6.106  15.334  55.493  1.00 25.00           C
ATOM     96  CA  ALA    96      -4.191  14.994  58.793  1.00 25.00           C
ATOM     97  CA  SER    97      -2.176  12.279  57.056  1.00 25.00           C
ATOM     98  CA  ASP    98      -0.328  10.874  54.102  1.00 25.00           C
ATOM     99  CA  GLY    99       1.381  10.008  50.860  1.00 25.00           C
ATOM    100  CA  ASP   100       2.895   9.134  47.479  1.00 25.00           C
ATOM    101  CA  ILE   101       4.659   8.739  44.131  1.00 25.00           C
ATOM    102  CA  ASP   102       6.353   8.258  40.813  1.00 25.00           C
ATOM    103  CA  ASP   103       8.165   7.858  37.445  1.00 25.00           C
ATOM    104  CA  ASN   104      10.909  10.110  36.008  1.00 25.00           C
ATOM    105  CA  GLU   105      13.129   7.052  35.389  1.00 25.00           C
ATOM    106  CA  LEU   106      10.232   5.276  33.624  1.00 25.00           C
ATOM    107  CA  ALA   107       9.636   8.365  31.440  1.00 25.00           C
ATOM    108  CA  LEU   108      13.358   8.483  30.547  1.00 25.00           C
ATOM    109  CA  TRP   109      13.279   4.767  29.624  1.00 25.00           C
ATOM    110  CA  THR   110      10.202   5.354  27.421  1.00 25.00           C
ATOM    111  CA  LEU   111      11.968   8.281  25.693  1.00 25.00           C
ATOM    112  CA  ILE   112      15.050   6.091  25.079  1.00 25.00           C
ATOM    113  CA  SER   113      12.831   3.339  23.604  1.00 25.00           C
ATOM    114  CA  THR   114      11.137   5.899  21.314  1.00 25.00           C
ATOM    115  CA  LEU   115      14.561   7.176  20.167  1.00 25.00           C
ATOM    116  CA  CYS   116      14.826   5.925  16.558  1.00 25.00           C
ATOM    117  CA  GLY   117      13.649   5.747  12.898  1.00 25.00           C
ATOM    118  CA  LEU   118      17.234   4.784  12.207  1.00 25.00           C
ATOM    119  CA  PRO   119      15.879   2.468   9.433  1.00 25.00           C
ATOM    120  CA  THR   120      16.007  -0.189  12.197  1.00 25.00           C
ATOM    121  CA  MET   121      15.078   0.864  15.672  1.00 25.00           C
ATOM    122  CA  THR   122      17.713  -1.745  16.694  1.00 25.00           C
ATOM    123  CA  VAL   123      15.713  -3.911  19.139  1.00 25.00           C
ATOM    124  CA  MET   124      18.967  -5.212  20.685  1.00 25.00           C
ATOM    125  CA  GLU   125      20.251  -1.624  21.062  1.00 25.00           C
ATOM    126  CA  ALA   126      16.967  -0.598  22.744  1.00 25.00           C
ATOM    127  CA  ILE   127      17.238  -3.573  25.142  1.00 25.00           C
ATOM    128  CA  ASN   128      20.844  -2.595  25.987  1.00 25.00           C
ATOM    129  CA  ASN   129      19.735   1.010  26.654  1.00 25.00           C
ATOM    130  CA  MET   130      16.930  -0.250  28.937  1.00 25.00           C
ATOM    131  CA  LYS   131      19.853  -1.749  30.851  1.00 25.00           C
ATOM    132  CA  ASN   132      19.700   1.056  33.417  1.00 25.00           C
ATOM    133  CA  LEU   133      20.471   4.043  31.200  1.00 25.00           C
TER
END
