
#######################################################
#                                                     #
#                        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  135 (  135),  selected  135 , name T0319TS168_4
# Molecule2: number of CA atoms  135 ( 1055),  selected  135 , name T0319.pdb
# PARAMETERS: T0319TS168_4.T0319.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    K       2      K       2           -
LGA    F       3      F       3           -
LGA    L       4      L       4           -
LGA    -       -      T       5           -
LGA    T       5      T       6           #
LGA    -       -      N       7           -
LGA    T       6      F       8          5.035
LGA    N       7      L       9          3.354
LGA    F       8      K      10          3.135
LGA    L       9      C      11           #
LGA    K      10      -       -           -
LGA    C      11      S      12          4.230
LGA    S      12      -       -           -
LGA    V      13      -       -           -
LGA    K      14      -       -           -
LGA    A      15      -       -           -
LGA    C      16      V      13          2.077
LGA    D      17      K      14          3.977
LGA    T      18      A      15          1.978
LGA    -       -      C      16           -
LGA    S      19      D      17          2.745
LGA    N      20      T      18          2.440
LGA    D      21      S      19          2.079
LGA    -       -      N      20           -
LGA    N      22      D      21           #
LGA    F      23      N      22          1.776
LGA    P      24      -       -           -
LGA    L      25      -       -           -
LGA    Q      26      -       -           -
LGA    Y      27      -       -           -
LGA    D      28      -       -           -
LGA    G      29      -       -           -
LGA    S      30      -       -           -
LGA    K      31      -       -           -
LGA    C      32      -       -           -
LGA    Q      33      -       -           -
LGA    L      34      -       -           -
LGA    V      35      F      23          1.263
LGA    Q      36      P      24          4.779
LGA    D      37      L      25           -
LGA    E      38      Q      26           -
LGA    S      39      Y      27           -
LGA    I      40      D      28           -
LGA    E      41      G      29           -
LGA    F      42      S      30           -
LGA    N      43      K      31           -
LGA    -       -      C      32           -
LGA    -       -      Q      33           -
LGA    -       -      L      34           -
LGA    -       -      V      35           -
LGA    -       -      Q      36           -
LGA    -       -      D      37           -
LGA    -       -      E      38           -
LGA    -       -      S      39           -
LGA    -       -      I      40           -
LGA    -       -      E      41           -
LGA    -       -      F      42           -
LGA    -       -      N      43           -
LGA    -       -      P      44           -
LGA    -       -      E      45           -
LGA    -       -      F      46           -
LGA    -       -      L      47           -
LGA    -       -      L      48           -
LGA    -       -      N      49           -
LGA    -       -      I      50           -
LGA    -       -      V      51           -
LGA    -       -      D      52           -
LGA    -       -      R      53           -
LGA    P      44      V      54           #
LGA    E      45      -       -           -
LGA    F      46      D      55          4.666
LGA    L      47      W      56          1.930
LGA    L      48      -       -           -
LGA    N      49      P      57          1.743
LGA    I      50      A      58          1.901
LGA    V      51      V      59          2.224
LGA    D      52      L      60          2.086
LGA    R      53      T      61          2.215
LGA    V      54      V      62          2.208
LGA    D      55      A      63          4.508
LGA    W      56      A      64           -
LGA    P      57      E      65           -
LGA    A      58      L      66           -
LGA    V      59      G      67           -
LGA    L      60      N      68           -
LGA    T      61      N      69           -
LGA    V      62      A      70           -
LGA    A      63      L      71           -
LGA    A      64      P      72           -
LGA    E      65      P      73           -
LGA    L      66      T      74           -
LGA    G      67      K      75           -
LGA    N      68      P      76           -
LGA    N      69      S      77           -
LGA    A      70      F      78           -
LGA    L      71      P      79           -
LGA    P      72      -       -           -
LGA    P      73      -       -           -
LGA    T      74      -       -           -
LGA    K      75      -       -           -
LGA    P      76      S      80           #
LGA    S      77      S      81          2.383
LGA    F      78      I      82          4.256
LGA    -       -      Q      83           -
LGA    P      79      E      84          1.954
LGA    S      80      L      85          3.016
LGA    S      81      T      86          4.509
LGA    -       -      D      87           -
LGA    -       -      D      88           -
LGA    I      82      D      89          5.222
LGA    Q      83      M      90          4.534
LGA    E      84      -       -           -
LGA    L      85      A      91          1.006
LGA    T      86      I      92          1.628
LGA    -       -      L      93           -
LGA    D      87      N      94          1.398
LGA    D      88      D      95          1.501
LGA    D      89      L      96          1.594
LGA    M      90      H      97          1.388
LGA    A      91      T      98          0.760
LGA    I      92      L      99          0.666
LGA    L      93      L     100          0.756
LGA    N      94      L     101          0.910
LGA    D      95      Q     102          4.590
LGA    L      96      T     103           #
LGA    H      97      -       -           -
LGA    T      98      S     104          3.759
LGA    L      99      I     105          3.982
LGA    L     100      -       -           -
LGA    L     101      -       -           -
LGA    Q     102      A     106           #
LGA    -       -      E     107           -
LGA    T     103      G     108           #
LGA    S     104      -       -           -
LGA    I     105      -       -           -
LGA    A     106      -       -           -
LGA    E     107      -       -           -
LGA    G     108      -       -           -
LGA    E     109      E     109           #
LGA    M     110      M     110          2.866
LGA    K     111      K     111           #
LGA    -       -      C     112           -
LGA    -       -      R     113           -
LGA    -       -      N     114           -
LGA    -       -      C     115           -
LGA    -       -      G     116           -
LGA    -       -      H     117           -
LGA    -       -      I     118           -
LGA    -       -      Y     119           -
LGA    -       -      Y     120           -
LGA    C     112      I     121          1.398
LGA    R     113      K     122          1.439
LGA    N     114      N     123          0.887
LGA    C     115      G     124          2.793
LGA    G     116      I     125           -
LGA    H     117      -       -           -
LGA    I     118      P     126           #
LGA    Y     119      N     127           -
LGA    Y     120      L     128           -
LGA    I     121      L     129           -
LGA    K     122      L     130           -
LGA    N     123      P     131           -
LGA    G     124      P     132           -
LGA    I     125      H     133           -
LGA    P     126      L     134           -
LGA    N     127      V     135           -
LGA    L     128      -       -           -
LGA    L     129      -       -           -
LGA    L     130      -       -           -
LGA    P     131      -       -           -
LGA    P     132      -       -           -
LGA    H     133      -       -           -
LGA    L     134      -       -           -
LGA    V     135      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  135  135    5.0     47    2.91    14.89     21.887     1.564

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.398683 * X  +  -0.140353 * Y  +   0.906285 * Z  +  17.309740
  Y_new =  -0.619025 * X  +   0.687951 * Y  +   0.378855 * Z  +  -1.016271
  Z_new =  -0.676654 * X  +  -0.712056 * Y  +   0.187393 * Z  +  10.911479 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.313460    1.828133  [ DEG:   -75.2557    104.7443 ]
  Theta =   0.743208    2.398385  [ DEG:    42.5827    137.4173 ]
  Phi   =  -0.998615    2.142977  [ DEG:   -57.2164    122.7836 ]
 
# 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: T0319TS168_4                                  
REMARK     2: T0319.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0319TS168_4.T0319.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  135  135   5.0   47   2.91   14.89  21.887
REMARK  ---------------------------------------------------------- 
MOLECULE T0319TS168_4
PFRMAT TS
TARGET T0319
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1       7.987   5.754  -0.933  1.00 25.00           C
ATOM      2  CA  LYS     2      10.948   3.963   0.671  1.00 25.00           C
ATOM      3  CA  PHE     3      14.129   3.247   2.682  1.00 25.00           C
ATOM      4  CA  LEU     4      13.725   2.124   6.281  1.00 25.00           C
ATOM      5  CA  THR     5      11.775   2.541   9.509  1.00 25.00           C
ATOM      6  CA  THR     6      11.923   1.360  13.085  1.00 25.00           C
ATOM      7  CA  ASN     7       8.520  -0.289  12.803  1.00 25.00           C
ATOM      8  CA  PHE     8       5.719  -1.082  15.332  1.00 25.00           C
ATOM      9  CA  LEU     9       7.698  -2.588  18.249  1.00 25.00           C
ATOM     10  CA  LYS    10       7.306  -0.553  21.396  1.00 25.00           C
ATOM     11  CA  CYS    11       4.784   1.655  19.577  1.00 25.00           C
ATOM     12  CA  SER    12       2.326  -1.023  20.672  1.00 25.00           C
ATOM     13  CA  VAL    13      -0.996  -0.187  18.968  1.00 25.00           C
ATOM     14  CA  LYS    14      -2.973   2.980  19.205  1.00 25.00           C
ATOM     15  CA  ALA    15      -0.384   4.657  17.066  1.00 25.00           C
ATOM     16  CA  CYS    16       1.631   2.841  14.422  1.00 25.00           C
ATOM     17  CA  ASP    17      -1.789   2.318  12.846  1.00 25.00           C
ATOM     18  CA  THR    18      -3.002  -1.181  13.760  1.00 25.00           C
ATOM     19  CA  SER    19      -0.070  -3.343  14.794  1.00 25.00           C
ATOM     20  CA  ASN    20      -0.411  -5.270  11.533  1.00 25.00           C
ATOM     21  CA  ASP    21       1.394  -4.013   8.473  1.00 25.00           C
ATOM     22  CA  ASN    22       1.206  -0.230   8.430  1.00 25.00           C
ATOM     23  CA  PHE    23       4.921   0.055   9.030  1.00 25.00           C
ATOM     24  CA  PRO    24       7.102   2.915   7.686  1.00 25.00           C
ATOM     25  CA  LEU    25       6.328   4.480  11.127  1.00 25.00           C
ATOM     26  CA  GLN    26       6.881   4.233  14.922  1.00 25.00           C
ATOM     27  CA  TYR    27       9.930   3.643  17.170  1.00 25.00           C
ATOM     28  CA  ASP    28       9.565   4.630  20.803  1.00 25.00           C
ATOM     29  CA  GLY    29      12.806   5.076  22.754  1.00 25.00           C
ATOM     30  CA  SER    30      14.390   1.642  23.348  1.00 25.00           C
ATOM     31  CA  LYS    31      13.543   0.566  19.805  1.00 25.00           C
ATOM     32  CA  CYS    32      12.878  -1.746  16.811  1.00 25.00           C
ATOM     33  CA  GLN    33      11.321  -3.900  14.071  1.00 25.00           C
ATOM     34  CA  LEU    34      11.770  -3.380  10.332  1.00 25.00           C
ATOM     35  CA  VAL    35       9.406  -1.861   7.839  1.00 25.00           C
ATOM     36  CA  GLN    36       9.969  -5.086   5.977  1.00 25.00           C
ATOM     37  CA  ASP    37       7.905  -6.678   3.205  1.00 25.00           C
ATOM     38  CA  GLU    38       6.958 -10.280   3.984  1.00 25.00           C
ATOM     39  CA  SER    39       6.784 -14.009   3.576  1.00 25.00           C
ATOM     40  CA  ILE    40      10.555 -14.571   3.068  1.00 25.00           C
ATOM     41  CA  GLU    41      10.995 -17.861   4.978  1.00 25.00           C
ATOM     42  CA  PHE    42      14.468 -17.087   6.440  1.00 25.00           C
ATOM     43  CA  ASN    43      14.056 -13.937   8.480  1.00 25.00           C
ATOM     44  CA  PRO    44      17.898 -13.603   8.316  1.00 25.00           C
ATOM     45  CA  GLU    45      17.310 -12.655   4.652  1.00 25.00           C
ATOM     46  CA  PHE    46      15.137  -9.695   5.742  1.00 25.00           C
ATOM     47  CA  LEU    47      17.869  -8.552   8.169  1.00 25.00           C
ATOM     48  CA  LEU    48      20.482  -8.789   5.380  1.00 25.00           C
ATOM     49  CA  ASN    49      18.232  -6.730   3.063  1.00 25.00           C
ATOM     50  CA  ILE    50      17.789  -4.089   5.801  1.00 25.00           C
ATOM     51  CA  VAL    51      21.583  -3.945   6.310  1.00 25.00           C
ATOM     52  CA  ASP    52      22.097  -3.517   2.538  1.00 25.00           C
ATOM     53  CA  ARG    53      19.336  -0.896   2.064  1.00 25.00           C
ATOM     54  CA  VAL    54      20.042   0.861   5.299  1.00 25.00           C
ATOM     55  CA  ASP    55      19.894   0.753   9.141  1.00 25.00           C
ATOM     56  CA  TRP    56      16.819  -0.778  10.771  1.00 25.00           C
ATOM     57  CA  PRO    57      18.592  -4.173  10.791  1.00 25.00           C
ATOM     58  CA  ALA    58      20.988  -2.933  13.511  1.00 25.00           C
ATOM     59  CA  VAL    59      18.021  -1.695  15.594  1.00 25.00           C
ATOM     60  CA  LEU    60      16.295  -5.091  15.198  1.00 25.00           C
ATOM     61  CA  THR    61      19.499  -6.876  16.299  1.00 25.00           C
ATOM     62  CA  VAL    62      19.752  -4.588  19.359  1.00 25.00           C
ATOM     63  CA  ALA    63      16.098  -5.325  20.242  1.00 25.00           C
ATOM     64  CA  ALA    64      16.754  -9.084  19.923  1.00 25.00           C
ATOM     65  CA  GLU    65      19.818  -8.769  22.198  1.00 25.00           C
ATOM     66  CA  LEU    66      17.737  -6.845  24.774  1.00 25.00           C
ATOM     67  CA  GLY    67      18.763  -9.515  27.283  1.00 25.00           C
ATOM     68  CA  ASN    68      18.067 -12.411  29.556  1.00 25.00           C
ATOM     69  CA  ASN    69      18.884 -15.218  27.150  1.00 25.00           C
ATOM     70  CA  ALA    70      21.801 -15.962  24.782  1.00 25.00           C
ATOM     71  CA  LEU    71      24.159 -17.087  27.571  1.00 25.00           C
ATOM     72  CA  PRO    72      26.236 -18.400  24.593  1.00 25.00           C
ATOM     73  CA  PRO    73      29.047 -20.011  26.603  1.00 25.00           C
ATOM     74  CA  THR    74      32.016 -18.718  28.603  1.00 25.00           C
ATOM     75  CA  LYS    75      34.420 -17.163  26.132  1.00 25.00           C
ATOM     76  CA  PRO    76      34.256 -19.249  22.936  1.00 25.00           C
ATOM     77  CA  SER    77      35.404 -20.854  19.702  1.00 25.00           C
ATOM     78  CA  PHE    78      34.659 -18.998  16.446  1.00 25.00           C
ATOM     79  CA  PRO    79      37.299 -19.338  13.663  1.00 25.00           C
ATOM     80  CA  SER    80      40.333 -17.131  14.477  1.00 25.00           C
ATOM     81  CA  SER    81      38.713 -13.783  15.320  1.00 25.00           C
ATOM     82  CA  ILE    82      39.544 -10.320  13.877  1.00 25.00           C
ATOM     83  CA  GLN    83      40.917  -6.803  14.347  1.00 25.00           C
ATOM     84  CA  GLU    84      39.858  -4.570  11.446  1.00 25.00           C
ATOM     85  CA  LEU    85      37.387  -6.156   9.072  1.00 25.00           C
ATOM     86  CA  THR    86      33.874  -6.301  10.411  1.00 25.00           C
ATOM     87  CA  ASP    87      34.784  -2.929  11.983  1.00 25.00           C
ATOM     88  CA  ASP    88      32.687  -1.107   9.346  1.00 25.00           C
ATOM     89  CA  ASP    89      29.728  -3.433  10.057  1.00 25.00           C
ATOM     90  CA  MET    90      30.076  -2.768  13.813  1.00 25.00           C
ATOM     91  CA  ALA    91      30.138   1.006  13.164  1.00 25.00           C
ATOM     92  CA  ILE    92      26.991   0.710  11.001  1.00 25.00           C
ATOM     93  CA  LEU    93      25.246  -1.282  13.767  1.00 25.00           C
ATOM     94  CA  ASN    94      26.222   1.385  16.336  1.00 25.00           C
ATOM     95  CA  ASP    95      24.851   4.129  14.044  1.00 25.00           C
ATOM     96  CA  LEU    96      21.574   2.188  13.637  1.00 25.00           C
ATOM     97  CA  HIS    97      21.306   1.797  17.437  1.00 25.00           C
ATOM     98  CA  THR    98      21.899   5.554  17.891  1.00 25.00           C
ATOM     99  CA  LEU    99      19.185   6.319  15.299  1.00 25.00           C
ATOM    100  CA  LEU   100      16.758   3.975  17.113  1.00 25.00           C
ATOM    101  CA  LEU   101      17.538   5.703  20.441  1.00 25.00           C
ATOM    102  CA  GLN   102      16.917   9.126  18.838  1.00 25.00           C
ATOM    103  CA  THR   103      13.487   7.788  17.939  1.00 25.00           C
ATOM    104  CA  SER   104      10.516   7.888  15.619  1.00 25.00           C
ATOM    105  CA  ILE   105       8.446  11.126  15.662  1.00 25.00           C
ATOM    106  CA  ALA   106       5.891  12.201  13.008  1.00 25.00           C
ATOM    107  CA  GLU   107       7.494  15.028  11.030  1.00 25.00           C
ATOM    108  CA  GLY   108       7.511  12.948   7.811  1.00 25.00           C
ATOM    109  CA  GLU   109       6.962   9.187   7.538  1.00 25.00           C
ATOM    110  CA  MET   110       9.001   8.587  10.658  1.00 25.00           C
ATOM    111  CA  LYS   111      11.693  11.337  10.879  1.00 25.00           C
ATOM    112  CA  CYS   112      13.709  11.806  14.062  1.00 25.00           C
ATOM    113  CA  ARG   113      14.573  13.624  17.293  1.00 25.00           C
ATOM    114  CA  ASN   114      17.874  15.107  18.622  1.00 25.00           C
ATOM    115  CA  CYS   115      20.054  12.678  16.656  1.00 25.00           C
ATOM    116  CA  GLY   116      20.280  13.166  12.907  1.00 25.00           C
ATOM    117  CA  HIS   117      19.416   9.865  11.259  1.00 25.00           C
ATOM    118  CA  ILE   118      16.287   7.859  12.013  1.00 25.00           C
ATOM    119  CA  TYR   119      13.992   7.148   9.093  1.00 25.00           C
ATOM    120  CA  TYR   120      11.483   7.151   6.221  1.00 25.00           C
ATOM    121  CA  ILE   121      14.334   8.616   4.226  1.00 25.00           C
ATOM    122  CA  LYS   122      15.868  10.866   1.500  1.00 25.00           C
ATOM    123  CA  ASN   123      17.661  12.938  -1.119  1.00 25.00           C
ATOM    124  CA  GLY   124      19.951  14.982  -3.430  1.00 25.00           C
ATOM    125  CA  ILE   125      18.361  14.555  -6.904  1.00 25.00           C
ATOM    126  CA  PRO   126      21.158  14.430  -9.430  1.00 25.00           C
ATOM    127  CA  ASN   127      22.061  10.719  -9.122  1.00 25.00           C
ATOM    128  CA  LEU   128      23.186  11.208 -12.688  1.00 25.00           C
ATOM    129  CA  LEU   129      23.832   7.760 -14.114  1.00 25.00           C
ATOM    130  CA  LEU   130      21.552   4.712 -14.437  1.00 25.00           C
ATOM    131  CA  PRO   131      20.529   1.106 -15.259  1.00 25.00           C
ATOM    132  CA  PRO   132      23.961  -0.302 -16.211  1.00 25.00           C
ATOM    133  CA  HIS   133      27.550   0.399 -17.270  1.00 25.00           C
ATOM    134  CA  LEU   134      30.225   2.458 -15.482  1.00 25.00           C
ATOM    135  CA  VAL   135      33.624   1.373 -16.790  1.00 25.00           C
TER
END
