
#######################################################
#                                                     #
#                        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  125 (  125),  selected  125 , name T0367TS168_1
# Molecule2: number of CA atoms  125 ( 1016),  selected  125 , name T0367.pdb
# PARAMETERS: T0367TS168_1.T0367.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    D       2      -       -           -
LGA    E       3      -       -           -
LGA    L       4      -       -           -
LGA    E       5      -       -           -
LGA    L       6      -       -           -
LGA    R       7      -       -           -
LGA    I       8      -       -           -
LGA    R       9      -       -           -
LGA    K      10      -       -           -
LGA    A      11      -       -           -
LGA    E      12      -       -           -
LGA    K      13      -       -           -
LGA    L      14      -       -           -
LGA    V      15      -       -           -
LGA    Q      16      -       -           -
LGA    D      17      -       -           -
LGA    A      18      -       -           -
LGA    K      19      -       -           -
LGA    K      20      -       -           -
LGA    E      21      -       -           -
LGA    F      22      -       -           -
LGA    E      23      -       -           -
LGA    M      24      -       -           -
LGA    G      25      -       -           -
LGA    L      26      -       -           -
LGA    Y      27      -       -           -
LGA    E      28      -       -           -
LGA    R      29      -       -           -
LGA    C      30      -       -           -
LGA    C      31      -       -           -
LGA    S      32      -       -           -
LGA    T      33      -       -           -
LGA    A      34      -       -           -
LGA    Y      35      -       -           -
LGA    Y      36      -       -           -
LGA    A      37      -       -           -
LGA    M      38      -       -           -
LGA    F      39      -       -           -
LGA    H      40      -       -           -
LGA    A      41      -       -           -
LGA    A      42      -       -           -
LGA    K      43      -       -           -
LGA    A      44      -       -           -
LGA    M      45      -       -           -
LGA    L      46      -       -           -
LGA    L      47      -       -           -
LGA    G      48      -       -           -
LGA    Y      49      -       -           -
LGA    G      50      -       -           -
LGA    R      51      -       -           -
LGA    D      52      M       1          2.423
LGA    S      53      D       2          3.000
LGA    K      54      E       3          4.783
LGA    -       -      L       4           -
LGA    T      55      E       5          2.531
LGA    H      56      L       6           #
LGA    -       -      R       7           -
LGA    R      57      I       8          4.942
LGA    G      58      R       9          0.703
LGA    -       -      K      10           -
LGA    T      59      A      11          2.180
LGA    I      60      E      12          1.604
LGA    Y      61      K      13          1.850
LGA    L      62      L      14          2.057
LGA    I      63      V      15          0.960
LGA    W      64      Q      16          0.756
LGA    E      65      D      17          1.837
LGA    C      66      A      18          2.321
LGA    R      67      K      19          1.992
LGA    E      68      K      20          2.104
LGA    E      69      E      21          3.095
LGA    -       -      F      22           -
LGA    -       -      E      23           -
LGA    -       -      M      24           -
LGA    -       -      G      25           -
LGA    L      70      L      26           #
LGA    G      71      Y      27           -
LGA    L      72      E      28           -
LGA    S      73      -       -           -
LGA    D      74      R      29           #
LGA    D      75      C      30           -
LGA    D      76      C      31           -
LGA    C      77      S      32          4.583
LGA    S      78      T      33           -
LGA    K      79      A      34           -
LGA    L      80      Y      35          5.031
LGA    S      81      Y      36          5.263
LGA    R      82      A      37           -
LGA    A      83      M      38           #
LGA    F      84      F      39          3.926
LGA    -       -      H      40           -
LGA    -       -      A      41           -
LGA    -       -      A      42           -
LGA    -       -      K      43           -
LGA    -       -      A      44           -
LGA    -       -      M      45           -
LGA    -       -      L      46           -
LGA    -       -      L      47           -
LGA    -       -      G      48           -
LGA    -       -      Y      49           -
LGA    -       -      G      50           -
LGA    -       -      R      51           -
LGA    -       -      D      52           -
LGA    -       -      S      53           -
LGA    -       -      K      54           -
LGA    -       -      T      55           -
LGA    D      85      H      56          2.325
LGA    L      86      R      57          4.811
LGA    -       -      G      58           -
LGA    R      87      T      59          3.270
LGA    E      88      I      60          1.302
LGA    E      89      Y      61          3.041
LGA    S      90      L      62          4.233
LGA    D      91      I      63           -
LGA    Y      92      W      64           -
LGA    G      93      E      65           -
LGA    I      94      -       -           -
LGA    Y      95      C      66           #
LGA    K      96      R      67           -
LGA    E      97      E      68           #
LGA    V      98      E      69          3.294
LGA    S      99      L      70          2.325
LGA    K     100      G      71          5.427
LGA    D     101      L      72          4.103
LGA    L     102      -       -           -
LGA    A     103      S      73           #
LGA    I     104      D      74           #
LGA    -       -      D      75           -
LGA    -       -      D      76           -
LGA    K     105      C      77          1.582
LGA    -       -      S      78           -
LGA    I     106      K      79          2.284
LGA    L     107      L      80          1.492
LGA    K     108      S      81          1.088
LGA    D     109      R      82          1.847
LGA    A     110      A      83          0.938
LGA    E     111      F      84          2.346
LGA    I     112      D      85          3.178
LGA    F     113      -       -           -
LGA    V     114      L      86          1.927
LGA    Q     115      R      87           -
LGA    K     116      E      88           -
LGA    A     117      E      89          2.757
LGA    -       -      S      90           -
LGA    -       -      D      91           -
LGA    K     118      Y      92          5.095
LGA    N     119      G      93          5.211
LGA    A     120      -       -           -
LGA    V     121      I      94          2.375
LGA    N     122      Y      95          2.551
LGA    K     123      K      96           #
LGA    N     124      E      97           -
LGA    R     125      V      98           -
LGA    -       -      S      99           -
LGA    -       -      K     100           -
LGA    -       -      D     101           -
LGA    -       -      L     102           -
LGA    -       -      A     103           -
LGA    -       -      I     104           -
LGA    -       -      K     105           -
LGA    -       -      I     106           -
LGA    -       -      L     107           -
LGA    -       -      K     108           -
LGA    -       -      D     109           -
LGA    -       -      A     110           -
LGA    -       -      E     111           -
LGA    -       -      I     112           -
LGA    -       -      F     113           -
LGA    -       -      V     114           -
LGA    -       -      Q     115           -
LGA    -       -      K     116           -
LGA    -       -      A     117           -
LGA    -       -      K     118           -
LGA    -       -      N     119           -
LGA    -       -      A     120           -
LGA    -       -      V     121           -
LGA    -       -      N     122           -
LGA    -       -      K     123           -
LGA    -       -      N     124           -
LGA    -       -      R     125           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  125  125    5.0     45    3.13    11.11     22.834     1.395

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.878163 * X  +   0.123066 * Y  +  -0.462260 * Z  +  38.157112
  Y_new =   0.400950 * X  +   0.337684 * Y  +   0.851592 * Z  +  32.680431
  Z_new =   0.260900 * X  +  -0.933179 * Y  +   0.247199 * Z  +  28.489967 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.311845    1.829748  [ DEG:   -75.1632    104.8368 ]
  Theta =  -0.263955   -2.877638  [ DEG:   -15.1235   -164.8765 ]
  Phi   =   0.428311   -2.713282  [ DEG:    24.5404   -155.4596 ]
 
# 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: T0367TS168_1                                  
REMARK     2: T0367.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0367TS168_1.T0367.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  125  125   5.0   45   3.13   11.11  22.834
REMARK  ---------------------------------------------------------- 
MOLECULE T0367TS168_1
PFRMAT TS
TARGET T0367
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      13.993  28.648  -7.881  1.00 25.00           C
ATOM      2  CA  ASP     2      15.858  29.106  -4.666  1.00 25.00           C
ATOM      3  CA  GLU     3      15.787  32.391  -2.700  1.00 25.00           C
ATOM      4  CA  LEU     4      14.321  30.572   0.334  1.00 25.00           C
ATOM      5  CA  GLU     5      17.063  27.909   0.093  1.00 25.00           C
ATOM      6  CA  LEU     6      19.739  30.643  -0.079  1.00 25.00           C
ATOM      7  CA  ARG     7      18.230  32.347   3.002  1.00 25.00           C
ATOM      8  CA  ILE     8      18.240  29.012   4.882  1.00 25.00           C
ATOM      9  CA  ARG     9      21.907  28.456   3.928  1.00 25.00           C
ATOM     10  CA  LYS    10      22.785  31.976   5.158  1.00 25.00           C
ATOM     11  CA  ALA    11      20.974  31.299   8.465  1.00 25.00           C
ATOM     12  CA  GLU    12      22.887  28.005   8.866  1.00 25.00           C
ATOM     13  CA  LYS    13      26.195  29.817   8.199  1.00 25.00           C
ATOM     14  CA  LEU    14      25.295  32.472  10.808  1.00 25.00           C
ATOM     15  CA  VAL    15      24.462  29.729  13.348  1.00 25.00           C
ATOM     16  CA  GLN    16      27.813  28.017  12.636  1.00 25.00           C
ATOM     17  CA  ASP    17      29.645  31.345  13.123  1.00 25.00           C
ATOM     18  CA  ALA    18      27.820  31.891  16.444  1.00 25.00           C
ATOM     19  CA  LYS    19      28.783  28.364  17.583  1.00 25.00           C
ATOM     20  CA  LYS    20      32.436  29.033  16.645  1.00 25.00           C
ATOM     21  CA  GLU    21      32.365  32.318  18.612  1.00 25.00           C
ATOM     22  CA  PHE    22      30.899  30.499  21.646  1.00 25.00           C
ATOM     23  CA  GLU    23      33.641  27.835  21.405  1.00 25.00           C
ATOM     24  CA  MET    24      36.316  30.570  21.233  1.00 25.00           C
ATOM     25  CA  GLY    25      34.808  32.274  24.313  1.00 25.00           C
ATOM     26  CA  LEU    26      34.818  28.938  26.194  1.00 25.00           C
ATOM     27  CA  TYR    27      38.485  28.384  25.240  1.00 25.00           C
ATOM     28  CA  GLU    28      39.363  31.903  26.470  1.00 25.00           C
ATOM     29  CA  ARG    29      37.552  31.225  29.776  1.00 25.00           C
ATOM     30  CA  CYS    30      39.465  27.932  30.177  1.00 25.00           C
ATOM     31  CA  CYS    31      42.773  29.743  29.510  1.00 25.00           C
ATOM     32  CA  SER    32      41.873  32.398  32.119  1.00 25.00           C
ATOM     33  CA  THR    33      41.040  29.655  34.659  1.00 25.00           C
ATOM     34  CA  ALA    34      44.391  27.943  33.947  1.00 25.00           C
ATOM     35  CA  TYR    35      46.222  31.271  34.434  1.00 25.00           C
ATOM     36  CA  TYR    36      44.397  31.818  37.756  1.00 25.00           C
ATOM     37  CA  ALA    37      45.362  28.290  38.894  1.00 25.00           C
ATOM     38  CA  MET    38      49.014  28.960  37.956  1.00 25.00           C
ATOM     39  CA  PHE    39      48.943  32.245  39.923  1.00 25.00           C
ATOM     40  CA  HIS    40      47.477  30.426  42.957  1.00 25.00           C
ATOM     41  CA  ALA    41      50.219  27.763  42.715  1.00 25.00           C
ATOM     42  CA  ALA    42      52.894  30.497  42.545  1.00 25.00           C
ATOM     43  CA  LYS    43      51.384  32.201  45.625  1.00 25.00           C
ATOM     44  CA  ALA    44      51.396  28.865  47.505  1.00 25.00           C
ATOM     45  CA  MET    45      55.063  28.310  46.551  1.00 25.00           C
ATOM     46  CA  LEU    46      55.940  31.829  47.781  1.00 25.00           C
ATOM     47  CA  LEU    47      54.130  31.153  51.087  1.00 25.00           C
ATOM     48  CA  GLY    48      56.043  27.859  51.488  1.00 25.00           C
ATOM     49  CA  TYR    49      54.322  24.926  49.821  1.00 25.00           C
ATOM     50  CA  GLY    50      53.418  23.119  46.633  1.00 25.00           C
ATOM     51  CA  ARG    51      52.870  21.989  43.005  1.00 25.00           C
ATOM     52  CA  ASP    52      54.100  19.262  40.566  1.00 25.00           C
ATOM     53  CA  SER    53      52.732  19.481  36.982  1.00 25.00           C
ATOM     54  CA  LYS    54      51.056  21.109  33.943  1.00 25.00           C
ATOM     55  CA  THR    55      49.832  20.700  30.387  1.00 25.00           C
ATOM     56  CA  HIS    56      46.498  21.746  28.868  1.00 25.00           C
ATOM     57  CA  ARG    57      43.722  19.597  30.396  1.00 25.00           C
ATOM     58  CA  GLY    58      43.884  22.123  33.270  1.00 25.00           C
ATOM     59  CA  THR    59      42.211  24.772  31.069  1.00 25.00           C
ATOM     60  CA  ILE    60      39.452  22.288  30.132  1.00 25.00           C
ATOM     61  CA  TYR    61      38.905  21.462  33.831  1.00 25.00           C
ATOM     62  CA  LEU    62      38.676  25.194  34.656  1.00 25.00           C
ATOM     63  CA  ILE    63      36.125  25.685  31.843  1.00 25.00           C
ATOM     64  CA  TRP    64      34.062  22.742  33.167  1.00 25.00           C
ATOM     65  CA  GLU    65      34.152  24.235  36.693  1.00 25.00           C
ATOM     66  CA  CYS    66      33.006  27.620  35.316  1.00 25.00           C
ATOM     67  CA  ARG    67      30.135  25.913  33.441  1.00 25.00           C
ATOM     68  CA  GLU    68      29.101  24.082  36.641  1.00 25.00           C
ATOM     69  CA  GLU    69      29.152  27.385  38.578  1.00 25.00           C
ATOM     70  CA  LEU    70      28.008  30.118  40.957  1.00 25.00           C
ATOM     71  CA  GLY    71      28.652  28.223  44.234  1.00 25.00           C
ATOM     72  CA  LEU    72      32.129  27.786  42.719  1.00 25.00           C
ATOM     73  CA  SER    73      32.924  31.107  44.388  1.00 25.00           C
ATOM     74  CA  ASP    74      33.454  34.810  44.038  1.00 25.00           C
ATOM     75  CA  ASP    75      37.227  34.421  44.573  1.00 25.00           C
ATOM     76  CA  ASP    76      37.414  31.967  41.639  1.00 25.00           C
ATOM     77  CA  CYS    77      35.484  34.425  39.427  1.00 25.00           C
ATOM     78  CA  SER    78      37.873  37.244  40.431  1.00 25.00           C
ATOM     79  CA  LYS    79      40.881  35.024  39.598  1.00 25.00           C
ATOM     80  CA  LEU    80      39.354  34.193  36.184  1.00 25.00           C
ATOM     81  CA  SER    81      38.784  37.920  35.506  1.00 25.00           C
ATOM     82  CA  ARG    82      42.417  38.674  36.456  1.00 25.00           C
ATOM     83  CA  ALA    83      43.632  35.903  34.107  1.00 25.00           C
ATOM     84  CA  PHE    84      41.485  37.329  31.275  1.00 25.00           C
ATOM     85  CA  ASP    85      42.922  40.822  31.910  1.00 25.00           C
ATOM     86  CA  LEU    86      46.477  39.400  31.825  1.00 25.00           C
ATOM     87  CA  ARG    87      45.712  37.619  28.522  1.00 25.00           C
ATOM     88  CA  GLU    88      44.330  40.877  27.057  1.00 25.00           C
ATOM     89  CA  GLU    89      47.482  42.745  28.171  1.00 25.00           C
ATOM     90  CA  SER    90      50.815  41.291  29.157  1.00 25.00           C
ATOM     91  CA  ASP    91      53.639  38.746  28.968  1.00 25.00           C
ATOM     92  CA  TYR    92      54.881  36.457  26.195  1.00 25.00           C
ATOM     93  CA  GLY    93      58.552  35.996  25.548  1.00 25.00           C
ATOM     94  CA  ILE    94      59.245  35.345  21.821  1.00 25.00           C
ATOM     95  CA  TYR    95      57.969  34.418  18.331  1.00 25.00           C
ATOM     96  CA  LYS    96      56.268  32.048  15.822  1.00 25.00           C
ATOM     97  CA  GLU    97      53.991  30.420  13.289  1.00 25.00           C
ATOM     98  CA  VAL    98      50.629  31.510  14.841  1.00 25.00           C
ATOM     99  CA  SER    99      48.223  31.230  17.815  1.00 25.00           C
ATOM    100  CA  LYS   100      48.340  34.451  19.729  1.00 25.00           C
ATOM    101  CA  ASP   101      45.996  36.817  17.836  1.00 25.00           C
ATOM    102  CA  LEU   102      43.035  34.500  18.557  1.00 25.00           C
ATOM    103  CA  ALA   103      43.971  34.417  22.269  1.00 25.00           C
ATOM    104  CA  ILE   104      44.174  38.240  22.329  1.00 25.00           C
ATOM    105  CA  LYS   105      40.732  38.474  20.666  1.00 25.00           C
ATOM    106  CA  ILE   106      39.290  36.047  23.254  1.00 25.00           C
ATOM    107  CA  LEU   107      40.799  38.135  26.088  1.00 25.00           C
ATOM    108  CA  LYS   108      39.283  41.314  24.587  1.00 25.00           C
ATOM    109  CA  ASP   109      35.866  39.600  24.345  1.00 25.00           C
ATOM    110  CA  ALA   110      36.135  38.493  28.001  1.00 25.00           C
ATOM    111  CA  GLU   111      37.024  42.070  29.044  1.00 25.00           C
ATOM    112  CA  ILE   112      34.012  43.413  27.096  1.00 25.00           C
ATOM    113  CA  PHE   113      31.735  40.848  28.799  1.00 25.00           C
ATOM    114  CA  VAL   114      33.103  41.874  32.226  1.00 25.00           C
ATOM    115  CA  GLN   115      32.471  45.561  31.402  1.00 25.00           C
ATOM    116  CA  LYS   116      28.888  44.732  30.332  1.00 25.00           C
ATOM    117  CA  ALA   117      28.330  42.812  33.598  1.00 25.00           C
ATOM    118  CA  LYS   118      29.673  45.786  35.605  1.00 25.00           C
ATOM    119  CA  ASN   119      27.330  48.150  33.712  1.00 25.00           C
ATOM    120  CA  ALA   120      24.367  45.834  34.434  1.00 25.00           C
ATOM    121  CA  VAL   121      25.304  45.751  38.146  1.00 25.00           C
ATOM    122  CA  ASN   122      25.507  49.574  38.206  1.00 25.00           C
ATOM    123  CA  LYS   123      21.667  49.612  37.983  1.00 25.00           C
ATOM    124  CA  ASN   124      19.919  50.592  34.752  1.00 25.00           C
ATOM    125  CA  ARG   125      20.649  53.737  32.724  1.00 25.00           C
TER
END
