
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  132 ( 1005),  selected  132 , name T0307.pdb
# PARAMETERS: T0307TS168_4.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    F      13      A      20           #
LGA    S      14      I      21           -
LGA    -       -      I      22           -
LGA    -       -      K      23           -
LGA    -       -      M      24           -
LGA    -       -      A      25           -
LGA    G      15      K      26          5.251
LGA    Q      16      S      27           #
LGA    E      17      M      28          4.864
LGA    L      18      V      29          4.099
LGA    T      19      M      30          3.174
LGA    A      20      A      31          3.125
LGA    I      21      D      32          4.158
LGA    I      22      G      33           #
LGA    K      23      K      34          1.380
LGA    M      24      -       -           -
LGA    A      25      I      35          5.008
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      -       -           -
LGA    L      60      K      36          2.405
LGA    L      61      P      37          2.275
LGA    K      62      A      38          2.127
LGA    A      63      E      39          1.709
LGA    S      64      I      40          1.391
LGA    D      65      A      41          1.270
LGA    S      66      V      42          0.782
LGA    I      67      M      43          0.297
LGA    E      68      T      44          0.533
LGA    A      69      R      45          0.959
LGA    S      70      E      46          1.289
LGA    Q      71      F      47          0.669
LGA    A      72      M      48          0.311
LGA    V      73      R      49          0.903
LGA    A      74      F      50          1.728
LGA    L      75      G      51          1.940
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           #
LGA    E     105      R      83          1.267
LGA    L     106      K      84          3.607
LGA    A     107      K      85          4.301
LGA    L     108      Y      86          1.737
LGA    W     109      V      87          2.989
LGA    T     110      A      88          4.366
LGA    L     111      S      89          1.289
LGA    I     112      Y      90          3.402
LGA    S     113      L      91           #
LGA    T     114      G      92          4.100
LGA    L     115      V      93          2.606
LGA    -       -      I      94           -
LGA    C     116      M      95          4.401
LGA    G     117      A      96          5.209
LGA    -       -      S      97           -
LGA    -       -      D      98           -
LGA    -       -      G      99           -
LGA    L     118      D     100          2.138
LGA    P     119      I     101          3.313
LGA    -       -      D     102           -
LGA    T     120      D     103          3.389
LGA    -       -      N     104           -
LGA    -       -      E     105           -
LGA    M     121      L     106          1.905
LGA    T     122      A     107          1.023
LGA    -       -      L     108           -
LGA    -       -      W     109           -
LGA    V     123      T     110          2.779
LGA    M     124      L     111          1.457
LGA    E     125      I     112          3.352
LGA    A     126      S     113          3.119
LGA    I     127      T     114          1.672
LGA    N     128      L     115          3.619
LGA    N     129      C     116           #
LGA    M     130      G     117          3.969
LGA    K     131      L     118          5.239
LGA    N     132      P     119           -
LGA    L     133      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    2.98     4.08     23.707     1.591

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.821135 * X  +   0.091096 * Y  +  -0.563418 * Z  +  21.547773
  Y_new =  -0.081301 * X  +  -0.995782 * Y  +  -0.042513 * Z  +   9.831952
  Z_new =  -0.564914 * X  +   0.010898 * Y  +   0.825078 * Z  +  21.902170 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.013208   -3.128385  [ DEG:     0.7567   -179.2433 ]
  Theta =   0.600329    2.541263  [ DEG:    34.3963    145.6037 ]
  Phi   =  -3.042903    0.098689  [ DEG:  -174.3455      5.6545 ]
 
# 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_4                                  
REMARK     2: T0307.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS168_4.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   2.98    4.08  23.707
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS168_4
PFRMAT TS
TARGET T0307
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      42.936  -2.482   2.851  1.00 25.00           C
ATOM      2  CA  GLY     2      41.276  -5.508   4.447  1.00 25.00           C
ATOM      3  CA  LEU     3      41.080  -7.352   7.736  1.00 25.00           C
ATOM      4  CA  GLY     4      42.200  -5.200  10.710  1.00 25.00           C
ATOM      5  CA  ARG     5      41.637  -7.207  13.958  1.00 25.00           C
ATOM      6  CA  GLN     6      42.154  -8.417  17.569  1.00 25.00           C
ATOM      7  CA  SER     7      40.123  -8.726  20.806  1.00 25.00           C
ATOM      8  CA  LEU     8      38.009  -7.768  23.793  1.00 25.00           C
ATOM      9  CA  ASN     9      35.606  -6.630  26.521  1.00 25.00           C
ATOM     10  CA  ILE    10      34.665  -3.655  28.738  1.00 25.00           C
ATOM     11  CA  MET    11      32.486  -0.585  29.253  1.00 25.00           C
ATOM     12  CA  THR    12      33.916   2.873  30.115  1.00 25.00           C
ATOM     13  CA  PHE    13      31.587   5.898  30.148  1.00 25.00           C
ATOM     14  CA  SER    14      34.053   8.569  29.036  1.00 25.00           C
ATOM     15  CA  GLY    15      31.739   9.408  26.199  1.00 25.00           C
ATOM     16  CA  GLN    16      33.031   6.214  24.527  1.00 25.00           C
ATOM     17  CA  GLU    17      29.435   5.097  23.827  1.00 25.00           C
ATOM     18  CA  LEU    18      28.643   8.521  22.305  1.00 25.00           C
ATOM     19  CA  THR    19      31.765   8.290  20.098  1.00 25.00           C
ATOM     20  CA  ALA    20      30.724   4.787  18.949  1.00 25.00           C
ATOM     21  CA  ILE    21      27.214   6.076  18.118  1.00 25.00           C
ATOM     22  CA  ILE    22      28.725   8.972  16.119  1.00 25.00           C
ATOM     23  CA  LYS    23      30.960   6.520  14.208  1.00 25.00           C
ATOM     24  CA  MET    24      27.924   4.316  13.434  1.00 25.00           C
ATOM     25  CA  ALA    25      25.995   7.376  12.177  1.00 25.00           C
ATOM     26  CA  LYS    26      28.952   8.358   9.950  1.00 25.00           C
ATOM     27  CA  SER    27      29.106   4.799   8.544  1.00 25.00           C
ATOM     28  CA  MET    28      25.346   4.895   7.823  1.00 25.00           C
ATOM     29  CA  VAL    29      25.748   8.261   6.043  1.00 25.00           C
ATOM     30  CA  MET    30      28.620   6.838   3.946  1.00 25.00           C
ATOM     31  CA  ALA    31      28.376   7.051   0.193  1.00 25.00           C
ATOM     32  CA  ASP    32      29.533   7.438  -3.412  1.00 25.00           C
ATOM     33  CA  GLY    33      30.806   8.108  -6.935  1.00 25.00           C
ATOM     34  CA  LYS    34      32.741   8.537 -10.126  1.00 25.00           C
ATOM     35  CA  ILE    35      34.660   9.500 -13.316  1.00 25.00           C
ATOM     36  CA  LYS    36      37.462  10.494 -15.731  1.00 25.00           C
ATOM     37  CA  PRO    37      40.999  11.394 -16.949  1.00 25.00           C
ATOM     38  CA  ALA    38      42.002   8.949 -14.177  1.00 25.00           C
ATOM     39  CA  GLU    39      43.303  11.857 -12.051  1.00 25.00           C
ATOM     40  CA  ILE    40      40.018  13.752 -12.589  1.00 25.00           C
ATOM     41  CA  ALA    41      38.029  10.647 -11.555  1.00 25.00           C
ATOM     42  CA  VAL    42      40.175  10.291  -8.403  1.00 25.00           C
ATOM     43  CA  MET    43      39.590  13.980  -7.558  1.00 25.00           C
ATOM     44  CA  THR    44      35.818  13.515  -8.031  1.00 25.00           C
ATOM     45  CA  ARG    45      35.884  10.448  -5.738  1.00 25.00           C
ATOM     46  CA  GLU    46      37.805  12.439  -3.089  1.00 25.00           C
ATOM     47  CA  PHE    47      35.243  15.275  -3.328  1.00 25.00           C
ATOM     48  CA  MET    48      32.383  12.761  -2.922  1.00 25.00           C
ATOM     49  CA  ARG    49      34.109  11.258   0.150  1.00 25.00           C
ATOM     50  CA  PHE    50      34.541  14.756   1.649  1.00 25.00           C
ATOM     51  CA  GLY    51      30.836  15.505   1.030  1.00 25.00           C
ATOM     52  CA  ILE    52      29.863  12.207   2.719  1.00 25.00           C
ATOM     53  CA  LEU    53      32.076  13.064   5.725  1.00 25.00           C
ATOM     54  CA  GLN    54      30.451  16.525   5.965  1.00 25.00           C
ATOM     55  CA  ASP    55      26.973  14.926   5.850  1.00 25.00           C
ATOM     56  CA  GLN    56      27.976  12.482   8.622  1.00 25.00           C
ATOM     57  CA  VAL    57      29.277  15.390  10.748  1.00 25.00           C
ATOM     58  CA  ASP    58      25.993  17.285  10.210  1.00 25.00           C
ATOM     59  CA  LEU    59      24.003  14.180  11.244  1.00 25.00           C
ATOM     60  CA  LEU    60      26.150  13.823  14.396  1.00 25.00           C
ATOM     61  CA  LEU    61      25.565  17.513  15.241  1.00 25.00           C
ATOM     62  CA  LYS    62      21.792  17.048  14.769  1.00 25.00           C
ATOM     63  CA  ALA    63      21.859  13.981  17.061  1.00 25.00           C
ATOM     64  CA  SER    64      23.779  15.972  19.710  1.00 25.00           C
ATOM     65  CA  ASP    65      21.217  18.808  19.471  1.00 25.00           C
ATOM     66  CA  SER    66      18.357  16.292  19.878  1.00 25.00           C
ATOM     67  CA  ILE    67      20.083  14.791  22.949  1.00 25.00           C
ATOM     68  CA  GLU    68      20.514  18.288  24.449  1.00 25.00           C
ATOM     69  CA  ALA    69      16.810  19.036  23.830  1.00 25.00           C
ATOM     70  CA  SER    70      15.837  15.740  25.518  1.00 25.00           C
ATOM     71  CA  GLN    71      18.051  16.597  28.524  1.00 25.00           C
ATOM     72  CA  ALA    72      16.426  20.057  28.764  1.00 25.00           C
ATOM     73  CA  VAL    73      12.947  18.458  28.648  1.00 25.00           C
ATOM     74  CA  ALA    74      13.951  16.015  31.421  1.00 25.00           C
ATOM     75  CA  LEU    75      15.252  18.923  33.548  1.00 25.00           C
ATOM     76  CA  ILE    76      11.967  20.818  33.009  1.00 25.00           C
ATOM     77  CA  ALA    77       9.978  17.712  34.043  1.00 25.00           C
ATOM     78  CA  ARG    78      12.125  17.356  37.195  1.00 25.00           C
ATOM     79  CA  MET    79      11.540  21.045  38.040  1.00 25.00           C
ATOM     80  CA  ASP    80       7.767  20.581  37.568  1.00 25.00           C
ATOM     81  CA  GLU    81       7.834  17.514  39.860  1.00 25.00           C
ATOM     82  CA  GLU    82       9.754  19.505  42.509  1.00 25.00           C
ATOM     83  CA  ARG    83       7.191  22.341  42.270  1.00 25.00           C
ATOM     84  CA  LYS    84       4.332  19.825  42.677  1.00 25.00           C
ATOM     85  CA  LYS    85       6.058  18.324  45.748  1.00 25.00           C
ATOM     86  CA  TYR    86       6.488  21.821  47.248  1.00 25.00           C
ATOM     87  CA  VAL    87       2.784  22.569  46.629  1.00 25.00           C
ATOM     88  CA  ALA    88       1.812  19.273  48.318  1.00 25.00           C
ATOM     89  CA  SER    89       4.025  20.130  51.323  1.00 25.00           C
ATOM     90  CA  TYR    90       2.400  23.590  51.563  1.00 25.00           C
ATOM     91  CA  LEU    91      -1.079  21.991  51.448  1.00 25.00           C
ATOM     92  CA  GLY    92      -0.075  19.547  54.221  1.00 25.00           C
ATOM     93  CA  VAL    93       1.226  22.455  56.346  1.00 25.00           C
ATOM     94  CA  ILE    94      -2.059  24.349  55.808  1.00 25.00           C
ATOM     95  CA  MET    95      -4.047  21.244  56.842  1.00 25.00           C
ATOM     96  CA  ALA    96      -1.902  20.890  59.995  1.00 25.00           C
ATOM     97  CA  SER    97      -0.342  17.970  58.178  1.00 25.00           C
ATOM     98  CA  ASP    98       1.263  15.507  55.677  1.00 25.00           C
ATOM     99  CA  GLY    99       2.401  13.780  52.446  1.00 25.00           C
ATOM    100  CA  ASP   100       3.935  12.522  49.267  1.00 25.00           C
ATOM    101  CA  ILE   101       5.306  11.260  45.901  1.00 25.00           C
ATOM    102  CA  ASP   102       6.733  10.212  42.536  1.00 25.00           C
ATOM    103  CA  ASP   103       8.122   9.575  39.052  1.00 25.00           C
ATOM    104  CA  ASN   104      10.527  11.818  37.089  1.00 25.00           C
ATOM    105  CA  GLU   105      13.033   8.936  36.817  1.00 25.00           C
ATOM    106  CA  LEU   106      10.262   6.610  35.562  1.00 25.00           C
ATOM    107  CA  ALA   107       9.220   9.218  32.957  1.00 25.00           C
ATOM    108  CA  LEU   108      12.856   9.554  31.804  1.00 25.00           C
ATOM    109  CA  TRP   109      13.137   5.747  31.497  1.00 25.00           C
ATOM    110  CA  THR   110       9.905   5.650  29.444  1.00 25.00           C
ATOM    111  CA  LEU   111      11.249   8.407  27.152  1.00 25.00           C
ATOM    112  CA  ILE   112      14.516   6.464  26.688  1.00 25.00           C
ATOM    113  CA  SER   113      12.540   3.298  25.829  1.00 25.00           C
ATOM    114  CA  THR   114      10.461   5.258  23.279  1.00 25.00           C
ATOM    115  CA  LEU   115      13.661   6.660  21.711  1.00 25.00           C
ATOM    116  CA  CYS   116      14.690   4.769  18.645  1.00 25.00           C
ATOM    117  CA  GLY   117      11.513   3.488  17.034  1.00 25.00           C
ATOM    118  CA  LEU   118      12.714   4.151  13.457  1.00 25.00           C
ATOM    119  CA  PRO   119      13.478   0.407  13.385  1.00 25.00           C
ATOM    120  CA  THR   120      13.802  -2.435  15.979  1.00 25.00           C
ATOM    121  CA  MET   121      15.015  -1.496  19.469  1.00 25.00           C
ATOM    122  CA  THR   122      18.354  -2.997  20.510  1.00 25.00           C
ATOM    123  CA  VAL   123      17.232  -5.022  23.561  1.00 25.00           C
ATOM    124  CA  MET   124      20.682  -4.568  25.161  1.00 25.00           C
ATOM    125  CA  GLU   125      20.514  -0.798  24.515  1.00 25.00           C
ATOM    126  CA  ALA   126      17.030  -0.656  26.100  1.00 25.00           C
ATOM    127  CA  ILE   127      18.316  -2.573  29.156  1.00 25.00           C
ATOM    128  CA  ASN   128      21.260  -0.144  29.470  1.00 25.00           C
ATOM    129  CA  ASN   129      18.860   2.833  29.265  1.00 25.00           C
ATOM    130  CA  MET   130      16.656   1.274  31.983  1.00 25.00           C
ATOM    131  CA  LYS   131      19.773   1.075  34.117  1.00 25.00           C
ATOM    132  CA  ASN   132      21.733   3.859  35.847  1.00 25.00           C
ATOM    133  CA  LEU   133      21.751   6.042  32.774  1.00 25.00           C
TER
END
