
#######################################################
#                                                     #
#                        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_3
# Molecule2: number of CA atoms  132 ( 1005),  selected  132 , name T0307.pdb
# PARAMETERS: T0307TS168_3.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           -
LGA    -       -      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    F      13      K      23           #
LGA    S      14      M      24           -
LGA    -       -      A      25           -
LGA    G      15      K      26          4.621
LGA    Q      16      S      27          4.201
LGA    E      17      M      28          3.195
LGA    L      18      V      29          2.938
LGA    T      19      M      30          1.779
LGA    A      20      A      31          1.597
LGA    I      21      D      32          4.060
LGA    I      22      G      33          4.559
LGA    K      23      K      34          2.381
LGA    M      24      -       -           -
LGA    A      25      -       -           -
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      I      35           #
LGA    D      58      -       -           -
LGA    L      59      -       -           -
LGA    L      60      K      36          2.394
LGA    L      61      P      37          2.042
LGA    K      62      A      38          1.642
LGA    A      63      E      39          1.518
LGA    S      64      I      40          1.322
LGA    D      65      A      41          0.886
LGA    S      66      V      42          0.477
LGA    I      67      M      43          0.197
LGA    E      68      T      44          0.655
LGA    A      69      R      45          1.233
LGA    S      70      E      46          1.402
LGA    Q      71      F      47          0.379
LGA    A      72      M      48          0.635
LGA    V      73      R      49          1.301
LGA    A      74      F      50          2.016
LGA    L      75      G      51          1.749
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    D     102      R      78           -
LGA    -       -      M      79           -
LGA    -       -      D      80           -
LGA    D     103      E      81           #
LGA    N     104      E      82          5.278
LGA    E     105      R      83          0.980
LGA    L     106      K      84          3.877
LGA    A     107      K      85          3.921
LGA    L     108      Y      86          0.816
LGA    W     109      V      87          3.571
LGA    T     110      A      88          4.756
LGA    L     111      S      89          1.272
LGA    I     112      Y      90          4.301
LGA    S     113      L      91           #
LGA    T     114      -       -           -
LGA    L     115      G      92          1.954
LGA    C     116      V      93           #
LGA    -       -      I      94           -
LGA    -       -      M      95           -
LGA    -       -      A      96           -
LGA    -       -      S      97           -
LGA    -       -      D      98           -
LGA    -       -      G      99           -
LGA    -       -      D     100           -
LGA    G     117      I     101          3.388
LGA    -       -      D     102           -
LGA    L     118      D     103          3.281
LGA    P     119      N     104           #
LGA    T     120      E     105           -
LGA    M     121      L     106          4.469
LGA    -       -      A     107           -
LGA    -       -      L     108           -
LGA    T     122      W     109           #
LGA    V     123      T     110           #
LGA    M     124      L     111          2.306
LGA    E     125      I     112          2.832
LGA    A     126      S     113          3.050
LGA    I     127      T     114          2.489
LGA    -       -      L     115           -
LGA    N     128      C     116          3.945
LGA    N     129      G     117          5.210
LGA    M     130      L     118          3.250
LGA    K     131      P     119           -
LGA    N     132      T     120           -
LGA    L     133      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     45    2.91     4.44     22.306     1.495

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.819728 * X  +   0.433519 * Y  +  -0.374309 * Z  +  21.513962
  Y_new =  -0.514179 * X  +  -0.844908 * Y  +   0.147482 * Z  +   9.354195
  Z_new =  -0.252321 * X  +   0.313357 * Y  +   0.915501 * Z  +  22.002987 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.329780   -2.811812  [ DEG:    18.8950   -161.1050 ]
  Theta =   0.255078    2.886515  [ DEG:    14.6149    165.3851 ]
  Phi   =  -2.581373    0.560220  [ DEG:  -147.9018     32.0982 ]
 
# 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_3                                  
REMARK     2: T0307.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS168_3.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   45   2.91    4.44  22.306
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS168_3
PFRMAT TS
TARGET T0307
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      40.817  -5.391   2.416  1.00 25.00           C
ATOM      2  CA  GLY     2      43.161  -4.053   5.113  1.00 25.00           C
ATOM      3  CA  LEU     3      45.648  -2.808   7.633  1.00 25.00           C
ATOM      4  CA  GLY     4      43.821  -4.384  10.551  1.00 25.00           C
ATOM      5  CA  ARG     5      44.114  -5.140  14.265  1.00 25.00           C
ATOM      6  CA  GLN     6      44.074  -5.840  18.015  1.00 25.00           C
ATOM      7  CA  SER     7      43.708  -6.510  21.725  1.00 25.00           C
ATOM      8  CA  LEU     8      41.001  -6.500  24.396  1.00 25.00           C
ATOM      9  CA  ASN     9      38.244  -5.962  26.909  1.00 25.00           C
ATOM     10  CA  ILE    10      35.626  -4.133  28.942  1.00 25.00           C
ATOM     11  CA  MET    11      33.745  -1.329  30.632  1.00 25.00           C
ATOM     12  CA  THR    12      34.200   2.445  31.167  1.00 25.00           C
ATOM     13  CA  PHE    13      31.287   4.809  30.266  1.00 25.00           C
ATOM     14  CA  SER    14      33.673   7.168  28.394  1.00 25.00           C
ATOM     15  CA  GLY    15      30.594   7.653  26.164  1.00 25.00           C
ATOM     16  CA  GLN    16      31.323   4.268  24.527  1.00 25.00           C
ATOM     17  CA  GLU    17      27.628   3.896  23.592  1.00 25.00           C
ATOM     18  CA  LEU    18      27.633   7.413  22.075  1.00 25.00           C
ATOM     19  CA  THR    19      30.778   6.566  20.060  1.00 25.00           C
ATOM     20  CA  ALA    20      29.132   3.347  18.798  1.00 25.00           C
ATOM     21  CA  ILE    21      26.011   5.315  17.774  1.00 25.00           C
ATOM     22  CA  ILE    22      28.192   7.853  15.913  1.00 25.00           C
ATOM     23  CA  LYS    23      30.008   5.006  14.105  1.00 25.00           C
ATOM     24  CA  MET    24      26.647   3.459  13.116  1.00 25.00           C
ATOM     25  CA  ALA    25      25.451   6.846  11.788  1.00 25.00           C
ATOM     26  CA  LYS    26      28.679   7.220   9.761  1.00 25.00           C
ATOM     27  CA  SER    27      28.205   3.706   8.315  1.00 25.00           C
ATOM     28  CA  MET    28      24.594   4.556   7.367  1.00 25.00           C
ATOM     29  CA  VAL    29      25.772   7.778   5.665  1.00 25.00           C
ATOM     30  CA  MET    30      28.427   5.811   3.726  1.00 25.00           C
ATOM     31  CA  ALA    31      28.257   5.887  -0.052  1.00 25.00           C
ATOM     32  CA  ASP    32      29.875   6.347  -3.471  1.00 25.00           C
ATOM     33  CA  GLY    33      31.524   7.077  -6.848  1.00 25.00           C
ATOM     34  CA  LYS    34      33.341   7.809 -10.103  1.00 25.00           C
ATOM     35  CA  ILE    35      35.296   8.254 -13.379  1.00 25.00           C
ATOM     36  CA  LYS    36      38.171   9.404 -15.611  1.00 25.00           C
ATOM     37  CA  PRO    37      41.674  10.564 -16.523  1.00 25.00           C
ATOM     38  CA  ALA    38      42.825   8.377 -13.596  1.00 25.00           C
ATOM     39  CA  GLU    39      43.867  11.500 -11.640  1.00 25.00           C
ATOM     40  CA  ILE    40      40.454  13.097 -12.323  1.00 25.00           C
ATOM     41  CA  ALA    41      38.697   9.915 -11.120  1.00 25.00           C
ATOM     42  CA  VAL    42      40.819   9.918  -7.933  1.00 25.00           C
ATOM     43  CA  MET    43      39.939  13.595  -7.321  1.00 25.00           C
ATOM     44  CA  THR    44      36.221  12.809  -7.799  1.00 25.00           C
ATOM     45  CA  ARG    45      36.492   9.901  -5.322  1.00 25.00           C
ATOM     46  CA  GLU    46      38.216  12.191  -2.782  1.00 25.00           C
ATOM     47  CA  PHE    47      35.445  14.800  -3.219  1.00 25.00           C
ATOM     48  CA  MET    48      32.784  12.098  -2.684  1.00 25.00           C
ATOM     49  CA  ARG    49      34.578  10.923   0.489  1.00 25.00           C
ATOM     50  CA  PHE    50      34.715  14.528   1.775  1.00 25.00           C
ATOM     51  CA  GLY    51      30.973  14.946   1.078  1.00 25.00           C
ATOM     52  CA  ILE    52      30.234  11.692   2.956  1.00 25.00           C
ATOM     53  CA  LEU    53      32.332  12.898   5.923  1.00 25.00           C
ATOM     54  CA  GLN    54      30.442  16.230   5.936  1.00 25.00           C
ATOM     55  CA  ASP    55      27.099  14.361   5.886  1.00 25.00           C
ATOM     56  CA  GLN    56      28.251  12.174   8.813  1.00 25.00           C
ATOM     57  CA  VAL    57      29.293  15.297  10.769  1.00 25.00           C
ATOM     58  CA  ASP    58      25.879  16.894  10.086  1.00 25.00           C
ATOM     59  CA  LEU    59      24.122  13.711  11.289  1.00 25.00           C
ATOM     60  CA  LEU    60      26.245  13.715  14.477  1.00 25.00           C
ATOM     61  CA  LEU    61      25.364  17.391  15.089  1.00 25.00           C
ATOM     62  CA  LYS    62      21.647  16.606  14.610  1.00 25.00           C
ATOM     63  CA  ALA    63      21.918  13.698  17.087  1.00 25.00           C
ATOM     64  CA  SER    64      23.641  15.989  19.627  1.00 25.00           C
ATOM     65  CA  ASP    65      20.871  18.596  19.190  1.00 25.00           C
ATOM     66  CA  SER    66      18.209  15.895  19.725  1.00 25.00           C
ATOM     67  CA  ILE    67      20.003  14.720  22.898  1.00 25.00           C
ATOM     68  CA  GLU    68      20.141  18.325  24.184  1.00 25.00           C
ATOM     69  CA  ALA    69      16.399  18.744  23.486  1.00 25.00           C
ATOM     70  CA  SER    70      15.660  15.488  25.364  1.00 25.00           C
ATOM     71  CA  GLN    71      17.758  16.696  28.332  1.00 25.00           C
ATOM     72  CA  ALA    72      15.868  20.026  28.346  1.00 25.00           C
ATOM     73  CA  VAL    73      12.525  18.158  28.296  1.00 25.00           C
ATOM     74  CA  ALA    74      13.675  15.971  31.222  1.00 25.00           C
ATOM     75  CA  LEU    75      14.718  19.094  33.178  1.00 25.00           C
ATOM     76  CA  ILE    76      11.305  20.691  32.494  1.00 25.00           C
ATOM     77  CA  ALA    77       9.547  17.508  33.698  1.00 25.00           C
ATOM     78  CA  ARG    78      11.671  17.512  36.886  1.00 25.00           C
ATOM     79  CA  MET    79      10.790  21.189  37.497  1.00 25.00           C
ATOM     80  CA  ASP    80       7.072  20.404  37.020  1.00 25.00           C
ATOM     81  CA  GLU    81       7.343  17.494  39.496  1.00 25.00           C
ATOM     82  CA  GLU    82       9.066  19.785  42.036  1.00 25.00           C
ATOM     83  CA  ARG    83       6.296  22.393  41.600  1.00 25.00           C
ATOM     84  CA  LYS    84       3.634  19.691  42.134  1.00 25.00           C
ATOM     85  CA  LYS    85       5.429  18.517  45.307  1.00 25.00           C
ATOM     86  CA  TYR    86       5.567  22.122  46.592  1.00 25.00           C
ATOM     87  CA  VAL    87       1.824  22.540  45.895  1.00 25.00           C
ATOM     88  CA  ALA    88       1.086  19.285  47.774  1.00 25.00           C
ATOM     89  CA  SER    89       3.183  20.492  50.741  1.00 25.00           C
ATOM     90  CA  TYR    90       1.292  23.823  50.754  1.00 25.00           C
ATOM     91  CA  LEU    91      -2.050  21.954  50.705  1.00 25.00           C
ATOM     92  CA  GLY    92      -0.899  19.767  53.630  1.00 25.00           C
ATOM     93  CA  VAL    93       0.143  22.891  55.587  1.00 25.00           C
ATOM     94  CA  ILE    94      -3.270  24.488  54.903  1.00 25.00           C
ATOM     95  CA  MET    95      -5.028  21.304  56.108  1.00 25.00           C
ATOM     96  CA  ALA    96      -2.905  21.309  59.295  1.00 25.00           C
ATOM     97  CA  SER    97      -1.515  18.243  57.626  1.00 25.00           C
ATOM     98  CA  ASP    98      -0.098  15.959  54.987  1.00 25.00           C
ATOM     99  CA  GLY    99       1.417  14.423  51.852  1.00 25.00           C
ATOM    100  CA  ASP   100       3.099  12.934  48.781  1.00 25.00           C
ATOM    101  CA  ILE   101       4.411  11.415  45.605  1.00 25.00           C
ATOM    102  CA  ASP   102       6.026  10.401  42.266  1.00 25.00           C
ATOM    103  CA  ASP   103       7.466   9.450  38.847  1.00 25.00           C
ATOM    104  CA  ASN   104       9.575  11.692  36.568  1.00 25.00           C
ATOM    105  CA  GLU   105      12.384   9.090  36.566  1.00 25.00           C
ATOM    106  CA  LEU   106       9.872   6.342  35.670  1.00 25.00           C
ATOM    107  CA  ALA   107       8.507   8.489  32.808  1.00 25.00           C
ATOM    108  CA  LEU   108      12.066   9.081  31.522  1.00 25.00           C
ATOM    109  CA  TRP   109      12.767   5.318  31.656  1.00 25.00           C
ATOM    110  CA  THR   110       9.536   4.623  29.719  1.00 25.00           C
ATOM    111  CA  LEU   111      10.528   7.217  27.083  1.00 25.00           C
ATOM    112  CA  ILE   112      13.986   5.601  26.760  1.00 25.00           C
ATOM    113  CA  SER   113      12.364   2.158  26.333  1.00 25.00           C
ATOM    114  CA  THR   114      10.042   3.560  23.630  1.00 25.00           C
ATOM    115  CA  LEU   115      13.042   5.106  21.820  1.00 25.00           C
ATOM    116  CA  CYS   116      13.467   3.043  18.600  1.00 25.00           C
ATOM    117  CA  GLY   117      11.545   1.157  15.954  1.00 25.00           C
ATOM    118  CA  LEU   118      14.478  -1.329  16.288  1.00 25.00           C
ATOM    119  CA  PRO   119      13.025  -4.694  17.416  1.00 25.00           C
ATOM    120  CA  THR   120      16.183  -6.291  18.649  1.00 25.00           C
ATOM    121  CA  MET   121      16.029  -3.951  21.699  1.00 25.00           C
ATOM    122  CA  THR   122      19.533  -5.252  22.402  1.00 25.00           C
ATOM    123  CA  VAL   123      20.850  -6.654  25.714  1.00 25.00           C
ATOM    124  CA  MET   124      23.145  -3.615  26.117  1.00 25.00           C
ATOM    125  CA  GLU   125      20.195  -1.268  25.440  1.00 25.00           C
ATOM    126  CA  ALA   126      18.091  -3.122  28.047  1.00 25.00           C
ATOM    127  CA  ILE   127      20.936  -2.824  30.593  1.00 25.00           C
ATOM    128  CA  ASN   128      21.218   0.927  29.876  1.00 25.00           C
ATOM    129  CA  ASN   129      17.440   1.327  30.355  1.00 25.00           C
ATOM    130  CA  MET   130      17.635  -0.562  33.679  1.00 25.00           C
ATOM    131  CA  LYS   131      20.884   1.022  34.866  1.00 25.00           C
ATOM    132  CA  ASN   132      21.316   4.538  36.085  1.00 25.00           C
ATOM    133  CA  LEU   133      19.799   5.516  32.730  1.00 25.00           C
TER
END
