
#######################################################
#                                                     #
#                        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_1
# Molecule2: number of CA atoms  135 ( 1055),  selected  135 , name T0319.pdb
# PARAMETERS: T0319TS168_1.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      -       -           -
LGA    L       4      -       -           -
LGA    T       5      F       3           #
LGA    T       6      L       4          1.765
LGA    N       7      T       5          3.996
LGA    F       8      T       6          3.720
LGA    -       -      N       7           -
LGA    L       9      F       8           #
LGA    K      10      L       9          4.561
LGA    C      11      -       -           -
LGA    S      12      -       -           -
LGA    V      13      -       -           -
LGA    K      14      -       -           -
LGA    A      15      -       -           -
LGA    C      16      -       -           -
LGA    D      17      K      10          2.866
LGA    T      18      C      11          4.657
LGA    S      19      S      12          4.047
LGA    -       -      V      13           -
LGA    -       -      K      14           -
LGA    -       -      A      15           -
LGA    -       -      C      16           -
LGA    -       -      D      17           -
LGA    -       -      T      18           -
LGA    -       -      S      19           -
LGA    N      20      N      20           #
LGA    -       -      D      21           -
LGA    D      21      N      22          2.534
LGA    -       -      F      23           -
LGA    N      22      P      24          1.136
LGA    F      23      L      25          3.969
LGA    P      24      Q      26           -
LGA    L      25      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           -
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    Q      26      V      51           #
LGA    -       -      D      52           -
LGA    Y      27      R      53           #
LGA    D      28      V      54          3.863
LGA    -       -      D      55           -
LGA    G      29      W      56          1.417
LGA    S      30      P      57          1.421
LGA    K      31      A      58          1.167
LGA    -       -      V      59           -
LGA    -       -      L      60           -
LGA    C      32      T      61           #
LGA    Q      33      V      62          4.235
LGA    L      34      A      63           #
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      A      64          4.505
LGA    V      54      E      65          0.728
LGA    D      55      -       -           -
LGA    W      56      L      66           #
LGA    P      57      G      67          3.344
LGA    A      58      -       -           -
LGA    V      59      N      68          5.072
LGA    L      60      N      69          3.358
LGA    T      61      -       -           -
LGA    V      62      -       -           -
LGA    A      63      -       -           -
LGA    A      64      A      70          3.843
LGA    E      65      L      71           -
LGA    L      66      P      72           -
LGA    G      67      P      73           -
LGA    N      68      T      74           -
LGA    N      69      K      75           -
LGA    A      70      P      76           -
LGA    L      71      S      77           -
LGA    P      72      F      78           -
LGA    P      73      P      79           -
LGA    T      74      S      80           -
LGA    K      75      S      81           -
LGA    P      76      I      82           -
LGA    S      77      Q      83           -
LGA    F      78      -       -           -
LGA    P      79      -       -           -
LGA    S      80      -       -           -
LGA    S      81      -       -           -
LGA    I      82      -       -           -
LGA    Q      83      E      84          4.064
LGA    E      84      L      85          1.897
LGA    -       -      T      86           -
LGA    -       -      D      87           -
LGA    L      85      D      88           #
LGA    T      86      D      89          1.406
LGA    D      87      M      90          2.114
LGA    D      88      A      91          1.940
LGA    D      89      I      92          0.947
LGA    M      90      L      93          1.466
LGA    A      91      N      94          1.780
LGA    I      92      D      95          0.894
LGA    L      93      L      96          0.641
LGA    N      94      H      97          1.415
LGA    D      95      T      98          0.669
LGA    L      96      L      99          0.516
LGA    H      97      L     100          1.276
LGA    T      98      L     101          2.855
LGA    L      99      Q     102          4.678
LGA    L     100      T     103          4.062
LGA    L     101      S     104          2.467
LGA    Q     102      I     105          3.626
LGA    T     103      A     106          4.173
LGA    -       -      E     107           -
LGA    -       -      G     108           -
LGA    -       -      E     109           -
LGA    -       -      M     110           -
LGA    -       -      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    -       -      I     121           -
LGA    -       -      K     122           -
LGA    -       -      N     123           -
LGA    S     104      G     124          4.211
LGA    I     105      I     125          4.142
LGA    -       -      P     126           -
LGA    -       -      N     127           -
LGA    -       -      L     128           -
LGA    A     106      L     129           #
LGA    E     107      L     130           -
LGA    G     108      -       -           -
LGA    E     109      -       -           -
LGA    M     110      -       -           -
LGA    K     111      P     131          4.895
LGA    -       -      P     132           -
LGA    -       -      H     133           -
LGA    C     112      L     134          3.824
LGA    R     113      V     135           -
LGA    N     114      -       -           -
LGA    C     115      -       -           -
LGA    G     116      -       -           -
LGA    H     117      -       -           -
LGA    I     118      -       -           -
LGA    Y     119      -       -           -
LGA    Y     120      -       -           -
LGA    I     121      -       -           -
LGA    K     122      -       -           -
LGA    N     123      -       -           -
LGA    G     124      -       -           -
LGA    I     125      -       -           -
LGA    P     126      -       -           -
LGA    N     127      -       -           -
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     45    3.14    11.11     19.680     1.388

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.228499 * X  +   0.817449 * Y  +   0.528739 * Z  +  25.918842
  Y_new =  -0.915869 * X  +   0.364653 * Y  +  -0.167965 * Z  +   0.937682
  Z_new =  -0.330109 * X  +  -0.445875 * Y  +   0.831999 * Z  +  11.226674 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.491960    2.649633  [ DEG:   -28.1872    151.8128 ]
  Theta =   0.336419    2.805173  [ DEG:    19.2754    160.7246 ]
  Phi   =  -1.326299    1.815294  [ DEG:   -75.9913    104.0087 ]
 
# 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_1                                  
REMARK     2: T0319.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0319TS168_1.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   45   3.14   11.11  19.680
REMARK  ---------------------------------------------------------- 
MOLECULE T0319TS168_1
PFRMAT TS
TARGET T0319
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1      18.189  -2.107  -1.126  1.00 25.00           C
ATOM      2  CA  LYS     2      18.872  -5.451   0.535  1.00 25.00           C
ATOM      3  CA  PHE     3      21.834  -4.912   2.951  1.00 25.00           C
ATOM      4  CA  LEU     4      20.985  -3.522   6.423  1.00 25.00           C
ATOM      5  CA  THR     5      21.407  -1.470   9.530  1.00 25.00           C
ATOM      6  CA  THR     6      20.949  -0.856  13.300  1.00 25.00           C
ATOM      7  CA  ASN     7      18.293   1.779  12.615  1.00 25.00           C
ATOM      8  CA  PHE     8      16.683   3.921  15.316  1.00 25.00           C
ATOM      9  CA  LEU     9      13.051   4.796  15.599  1.00 25.00           C
ATOM     10  CA  LYS    10       9.563   3.905  16.766  1.00 25.00           C
ATOM     11  CA  CYS    11       9.457   0.114  17.307  1.00 25.00           C
ATOM     12  CA  SER    12       6.782  -2.583  17.732  1.00 25.00           C
ATOM     13  CA  VAL    13       8.991  -5.750  17.755  1.00 25.00           C
ATOM     14  CA  LYS    14       7.255  -8.125  15.330  1.00 25.00           C
ATOM     15  CA  ALA    15      10.316  -8.030  13.069  1.00 25.00           C
ATOM     16  CA  CYS    16      11.821  -4.719  12.028  1.00 25.00           C
ATOM     17  CA  ASP    17       8.416  -3.294  13.009  1.00 25.00           C
ATOM     18  CA  THR    18       4.664  -2.782  12.890  1.00 25.00           C
ATOM     19  CA  SER    19       4.462   0.995  12.348  1.00 25.00           C
ATOM     20  CA  ASN    20       4.922   1.700   8.589  1.00 25.00           C
ATOM     21  CA  ASP    21       7.443  -1.185   8.329  1.00 25.00           C
ATOM     22  CA  ASN    22      11.059  -0.060   7.878  1.00 25.00           C
ATOM     23  CA  PHE    23      12.002   1.094  11.421  1.00 25.00           C
ATOM     24  CA  PRO    24      13.749  -0.121  14.574  1.00 25.00           C
ATOM     25  CA  LEU    25      16.260  -0.175  17.441  1.00 25.00           C
ATOM     26  CA  GLN    26      17.412  -3.018  15.240  1.00 25.00           C
ATOM     27  CA  TYR    27      17.943  -4.692  11.912  1.00 25.00           C
ATOM     28  CA  ASP    28      18.905  -7.239   9.276  1.00 25.00           C
ATOM     29  CA  GLY    29      19.124  -8.969   5.932  1.00 25.00           C
ATOM     30  CA  SER    30      16.009  -6.853   5.158  1.00 25.00           C
ATOM     31  CA  LYS    31      15.271  -3.766   7.314  1.00 25.00           C
ATOM     32  CA  CYS    32      16.420  -0.267   8.270  1.00 25.00           C
ATOM     33  CA  GLN    33      15.474   3.436   8.556  1.00 25.00           C
ATOM     34  CA  LEU    34      18.598   5.614   8.669  1.00 25.00           C
ATOM     35  CA  VAL    35      16.648   7.954  10.900  1.00 25.00           C
ATOM     36  CA  GLN    36      16.283  11.615  12.048  1.00 25.00           C
ATOM     37  CA  ASP    37      15.248  15.026  13.356  1.00 25.00           C
ATOM     38  CA  GLU    38      14.881  18.243  11.352  1.00 25.00           C
ATOM     39  CA  SER    39      13.954  20.809   8.627  1.00 25.00           C
ATOM     40  CA  ILE    40      15.873  18.379   6.407  1.00 25.00           C
ATOM     41  CA  GLU    41      18.659  19.870   4.321  1.00 25.00           C
ATOM     42  CA  PHE    42      21.204  18.264   6.625  1.00 25.00           C
ATOM     43  CA  ASN    43      23.766  19.382   9.187  1.00 25.00           C
ATOM     44  CA  PRO    44      25.545  16.741  11.227  1.00 25.00           C
ATOM     45  CA  GLU    45      27.685  16.393   8.070  1.00 25.00           C
ATOM     46  CA  PHE    46      28.523  12.775   9.008  1.00 25.00           C
ATOM     47  CA  LEU    47      24.806  12.030   9.554  1.00 25.00           C
ATOM     48  CA  LEU    48      23.974  13.555   6.142  1.00 25.00           C
ATOM     49  CA  ASN    49      26.694  11.421   4.496  1.00 25.00           C
ATOM     50  CA  ILE    50      25.296   8.286   6.195  1.00 25.00           C
ATOM     51  CA  VAL    51      21.776   9.160   4.965  1.00 25.00           C
ATOM     52  CA  ASP    52      23.111   9.640   1.408  1.00 25.00           C
ATOM     53  CA  ARG    53      20.582   6.894   0.631  1.00 25.00           C
ATOM     54  CA  VAL    54      18.089   5.290   2.971  1.00 25.00           C
ATOM     55  CA  ASP    55      19.093   1.692   2.032  1.00 25.00           C
ATOM     56  CA  TRP    56      20.711   1.419   5.448  1.00 25.00           C
ATOM     57  CA  PRO    57      22.958   4.280   4.252  1.00 25.00           C
ATOM     58  CA  ALA    58      25.192   3.847   7.332  1.00 25.00           C
ATOM     59  CA  VAL    59      25.433   0.085   6.659  1.00 25.00           C
ATOM     60  CA  LEU    60      26.380   0.773   3.012  1.00 25.00           C
ATOM     61  CA  THR    61      29.073   3.245   4.153  1.00 25.00           C
ATOM     62  CA  VAL    62      30.455   0.647   6.604  1.00 25.00           C
ATOM     63  CA  ALA    63      30.545  -1.975   3.813  1.00 25.00           C
ATOM     64  CA  ALA    64      32.396   0.482   1.532  1.00 25.00           C
ATOM     65  CA  GLU    65      34.927   1.199   4.314  1.00 25.00           C
ATOM     66  CA  LEU    66      35.460  -2.559   4.830  1.00 25.00           C
ATOM     67  CA  GLY    67      37.839  -2.121   1.844  1.00 25.00           C
ATOM     68  CA  ASN    68      39.268  -0.330  -1.243  1.00 25.00           C
ATOM     69  CA  ASN    69      40.772   1.249  -4.320  1.00 25.00           C
ATOM     70  CA  ALA    70      42.540  -1.973  -5.406  1.00 25.00           C
ATOM     71  CA  LEU    71      39.777  -4.538  -5.480  1.00 25.00           C
ATOM     72  CA  PRO    72      41.354  -7.666  -6.919  1.00 25.00           C
ATOM     73  CA  PRO    73      41.733 -11.464  -6.736  1.00 25.00           C
ATOM     74  CA  THR    74      45.470 -11.467  -5.870  1.00 25.00           C
ATOM     75  CA  LYS    75      48.199 -11.312  -3.186  1.00 25.00           C
ATOM     76  CA  PRO    76      48.366 -14.903  -1.930  1.00 25.00           C
ATOM     77  CA  SER    77      47.231 -18.226  -0.425  1.00 25.00           C
ATOM     78  CA  PHE    78      43.498 -17.281  -0.140  1.00 25.00           C
ATOM     79  CA  PRO    79      41.095 -20.037   0.963  1.00 25.00           C
ATOM     80  CA  SER    80      38.772 -19.252   3.897  1.00 25.00           C
ATOM     81  CA  SER    81      40.917 -21.318   6.263  1.00 25.00           C
ATOM     82  CA  ILE    82      40.321 -19.215   9.376  1.00 25.00           C
ATOM     83  CA  GLN    83      40.618 -17.404  12.674  1.00 25.00           C
ATOM     84  CA  GLU    84      36.884 -17.191  13.060  1.00 25.00           C
ATOM     85  CA  LEU    85      34.078 -15.698  10.884  1.00 25.00           C
ATOM     86  CA  THR    86      35.155 -12.098  11.034  1.00 25.00           C
ATOM     87  CA  ASP    87      36.033  -9.915  14.056  1.00 25.00           C
ATOM     88  CA  ASP    88      36.900  -6.999  11.730  1.00 25.00           C
ATOM     89  CA  ASP    89      33.565  -7.437   9.898  1.00 25.00           C
ATOM     90  CA  MET    90      31.701  -7.443  13.244  1.00 25.00           C
ATOM     91  CA  ALA    91      33.527  -4.246  14.296  1.00 25.00           C
ATOM     92  CA  ILE    92      32.602  -2.593  10.968  1.00 25.00           C
ATOM     93  CA  LEU    93      28.940  -3.607  11.454  1.00 25.00           C
ATOM     94  CA  ASN    94      28.982  -2.151  14.997  1.00 25.00           C
ATOM     95  CA  ASP    95      30.472   1.115  13.662  1.00 25.00           C
ATOM     96  CA  LEU    96      27.758   1.282  10.966  1.00 25.00           C
ATOM     97  CA  HIS    97      25.054   0.715  13.620  1.00 25.00           C
ATOM     98  CA  THR    98      26.553   3.503  15.776  1.00 25.00           C
ATOM     99  CA  LEU    99      26.579   5.858  12.757  1.00 25.00           C
ATOM    100  CA  LEU   100      22.916   5.011  12.031  1.00 25.00           C
ATOM    101  CA  LEU   101      22.005   5.707  15.685  1.00 25.00           C
ATOM    102  CA  GLN   102      23.829   9.071  15.525  1.00 25.00           C
ATOM    103  CA  THR   103      21.001   9.599  13.043  1.00 25.00           C
ATOM    104  CA  SER   104      18.417   8.648  15.689  1.00 25.00           C
ATOM    105  CA  ILE   105      18.850   8.821  19.396  1.00 25.00           C
ATOM    106  CA  ALA   106      15.347   8.796  20.816  1.00 25.00           C
ATOM    107  CA  GLU   107      16.476   9.184  24.404  1.00 25.00           C
ATOM    108  CA  GLY   108      17.718   5.777  25.652  1.00 25.00           C
ATOM    109  CA  GLU   109      19.783   3.333  23.616  1.00 25.00           C
ATOM    110  CA  MET   110      17.151   3.887  20.925  1.00 25.00           C
ATOM    111  CA  LYS   111      15.235   0.666  21.028  1.00 25.00           C
ATOM    112  CA  CYS   112      17.145  -2.550  21.373  1.00 25.00           C
ATOM    113  CA  ARG   113      20.109  -3.126  23.681  1.00 25.00           C
ATOM    114  CA  ASN   114      21.899  -6.383  24.479  1.00 25.00           C
ATOM    115  CA  CYS   115      23.839  -6.912  21.237  1.00 25.00           C
ATOM    116  CA  GLY   116      25.592  -3.655  21.834  1.00 25.00           C
ATOM    117  CA  HIS   117      24.781  -2.162  18.442  1.00 25.00           C
ATOM    118  CA  ILE   118      21.050  -1.251  18.484  1.00 25.00           C
ATOM    119  CA  TYR   119      22.406   2.240  19.369  1.00 25.00           C
ATOM    120  CA  TYR   120      23.221   5.851  20.238  1.00 25.00           C
ATOM    121  CA  ILE   121      27.019   5.836  20.341  1.00 25.00           C
ATOM    122  CA  LYS   122      29.404   6.746  23.120  1.00 25.00           C
ATOM    123  CA  ASN   123      31.108   7.912  26.305  1.00 25.00           C
ATOM    124  CA  GLY   124      33.242  10.369  28.271  1.00 25.00           C
ATOM    125  CA  ILE   125      36.852  11.458  27.885  1.00 25.00           C
ATOM    126  CA  PRO   126      37.746   7.771  27.809  1.00 25.00           C
ATOM    127  CA  ASN   127      41.091   6.382  26.508  1.00 25.00           C
ATOM    128  CA  LEU   128      43.107   6.540  23.288  1.00 25.00           C
ATOM    129  CA  LEU   129      43.218   9.638  21.064  1.00 25.00           C
ATOM    130  CA  LEU   130      44.896  12.352  19.031  1.00 25.00           C
ATOM    131  CA  PRO   131      47.654  10.165  17.521  1.00 25.00           C
ATOM    132  CA  PRO   132      49.137   7.077  15.865  1.00 25.00           C
ATOM    133  CA  HIS   133      50.240   3.588  14.862  1.00 25.00           C
ATOM    134  CA  LEU   134      53.689   3.016  16.192  1.00 25.00           C
ATOM    135  CA  VAL   135      53.814   5.617  18.911  1.00 25.00           C
TER
END
