
#######################################################
#                                                     #
#                        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  132 (  132),  selected  132 , name T0302TS393_3
# Molecule2: number of CA atoms  132 ( 2145),  selected  132 , name T0302.pdb
# PARAMETERS: T0302TS393_3.T0302.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1           -
LGA    M       2      M       2           #
LGA    V       3      V       3           #
LGA    S       4      S       4           #
LGA    P       5      -       -           -
LGA    E       6      P       5           #
LGA    E       7      E       6          2.732
LGA    A       8      E       7          4.268
LGA    V       9      A       8          3.399
LGA    K      10      V       9          2.556
LGA    W      11      K      10          3.246
LGA    G      12      W      11          3.492
LGA    E      13      G      12          3.419
LGA    S      14      E      13           #
LGA    F      15      S      14           #
LGA    D      16      F      15           #
LGA    K      17      D      16          2.164
LGA    L      18      K      17          2.669
LGA    -       -      L      18           -
LGA    L      19      L      19          2.718
LGA    S      20      S      20          2.234
LGA    H      21      H      21          1.758
LGA    R      22      R      22          2.840
LGA    D      23      D      23          2.298
LGA    G      24      G      24          2.028
LGA    L      25      L      25          2.269
LGA    E      26      E      26          1.636
LGA    A      27      A      27          1.062
LGA    F      28      F      28          1.237
LGA    T      29      T      29          1.504
LGA    R      30      R      30          0.884
LGA    F      31      F      31          0.926
LGA    L      32      L      32          1.051
LGA    K      33      K      33          0.419
LGA    T      34      T      34          0.859
LGA    E      35      E      35          1.183
LGA    F      36      F      36          4.189
LGA    S      37      S      37          2.896
LGA    E      38      E      38          1.935
LGA    E      39      E      39          2.733
LGA    N      40      N      40          1.366
LGA    I      41      I      41          1.397
LGA    E      42      E      42          2.089
LGA    F      43      F      43          0.841
LGA    W      44      W      44          1.354
LGA    I      45      I      45          1.038
LGA    A      46      A      46          0.684
LGA    C      47      C      47          1.022
LGA    E      48      E      48          1.272
LGA    D      49      D      49          0.517
LGA    F      50      F      50          1.308
LGA    K      51      K      51          1.411
LGA    K      52      K      52          4.255
LGA    S      53      S      53          2.267
LGA    K      54      K      54          3.276
LGA    G      55      G      55          3.726
LGA    P      56      P      56          1.838
LGA    Q      57      Q      57          1.291
LGA    Q      58      Q      58          1.514
LGA    I      59      I      59          1.710
LGA    H      60      H      60          0.980
LGA    L      61      L      61          0.371
LGA    K      62      K      62          0.534
LGA    A      63      A      63          0.623
LGA    K      64      K      64          0.629
LGA    A      65      A      65          0.291
LGA    I      66      I      66          0.828
LGA    Y      67      Y      67          0.261
LGA    E      68      E      68          0.954
LGA    K      69      K      69          1.479
LGA    F      70      F      70          1.192
LGA    -       -      I      71           -
LGA    I      71      Q      72          1.541
LGA    -       -      T      73           -
LGA    Q      72      D      74          3.945
LGA    T      73      A      75          2.926
LGA    D      74      P      76           #
LGA    -       -      K      77           -
LGA    A      75      E      78          5.372
LGA    P      76      V      79           -
LGA    K      77      -       -           -
LGA    E      78      -       -           -
LGA    V      79      N      80           #
LGA    N      80      L      81           -
LGA    L      81      D      82          6.037
LGA    D      82      -       -           -
LGA    F      83      F      83          3.635
LGA    H      84      H      84          3.682
LGA    T      85      T      85          2.884
LGA    K      86      K      86          2.605
LGA    E      87      E      87          2.960
LGA    V      88      V      88          1.854
LGA    I      89      I      89          1.232
LGA    T      90      T      90          1.857
LGA    N      91      N      91          1.826
LGA    S      92      S      92          1.309
LGA    I      93      I      93          1.915
LGA    T      94      T      94          2.754
LGA    Q      95      Q      95          2.315
LGA    P      96      P      96          2.658
LGA    T      97      T      97          1.362
LGA    L      98      L      98          4.605
LGA    H      99      H      99          5.939
LGA    S     100      S     100          3.799
LGA    F     101      F     101          0.977
LGA    D     102      D     102          0.450
LGA    A     103      A     103          0.682
LGA    A     104      A     104          0.773
LGA    Q     105      Q     105          0.741
LGA    S     106      S     106          1.188
LGA    R     107      R     107          0.743
LGA    V     108      V     108          0.884
LGA    Y     109      Y     109          1.167
LGA    Q     110      Q     110          1.595
LGA    L     111      L     111          1.586
LGA    M     112      M     112          2.053
LGA    E     113      E     113          2.310
LGA    Q     114      Q     114          2.018
LGA    D     115      D     115          2.584
LGA    S     116      S     116          1.365
LGA    Y     117      Y     117          1.258
LGA    T     118      T     118          1.338
LGA    R     119      R     119          1.604
LGA    F     120      F     120          1.525
LGA    L     121      L     121          0.977
LGA    K     122      K     122          2.269
LGA    S     123      S     123          2.972
LGA    D     124      D     124          2.338
LGA    I     125      I     125          3.695
LGA    Y     126      Y     126          2.885
LGA    L     127      L     127          2.023
LGA    D     128      D     128          3.639
LGA    L     129      L     129          4.135
LGA    M     130      M     130          2.334
LGA    E     131      E     131          2.326
LGA    G     132      G     132           #

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  132  132    5.0    115    2.37    88.70     60.764     4.660

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.184614 * X  +   0.273382 * Y  +  -0.944023 * Z  + 123.045471
  Y_new =   0.337962 * X  +   0.919616 * Y  +   0.200222 * Z  +  -3.649859
  Z_new =   0.922876 * X  +  -0.282080 * Y  +  -0.262167 * Z  +   0.168414 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.319623    0.821969  [ DEG:  -132.9046     47.0954 ]
  Theta =  -1.175482   -1.966110  [ DEG:   -67.3502   -112.6498 ]
  Phi   =   2.070763   -1.070830  [ DEG:   118.6460    -61.3540 ]
 
# 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: T0302TS393_3                                  
REMARK     2: T0302.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0302TS393_3.T0302.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  132  132   5.0  115   2.37   88.70  60.764
REMARK  ---------------------------------------------------------- 
MOLECULE T0302TS393_3
PFRMAT TS
TARGET T0302
MODEL 3
PARENT N/A
ATOM      1  CA  SER     1     150.070   6.257   3.301  1.00 25.00           C
ATOM      2  CA  MET     2     147.882   9.383   3.216  1.00 25.00           C
ATOM      3  CA  VAL     3     145.282  11.945   2.328  1.00 25.00           C
ATOM      4  CA  SER     4     145.176  13.634  -1.037  1.00 25.00           C
ATOM      5  CA  PRO     5     142.519  15.004  -3.394  1.00 25.00           C
ATOM      6  CA  GLU     6     141.202  14.071  -6.867  1.00 25.00           C
ATOM      7  CA  GLU     7     143.252  10.837  -6.804  1.00 25.00           C
ATOM      8  CA  ALA     8     141.859   9.994  -3.337  1.00 25.00           C
ATOM      9  CA  VAL     9     138.295  10.622  -4.588  1.00 25.00           C
ATOM     10  CA  LYS    10     138.926   8.347  -7.605  1.00 25.00           C
ATOM     11  CA  TRP    11     140.274   5.610  -5.289  1.00 25.00           C
ATOM     12  CA  GLY    12     137.175   5.936  -3.062  1.00 25.00           C
ATOM     13  CA  GLU    13     134.906   5.661  -6.135  1.00 25.00           C
ATOM     14  CA  SER    14     136.794   2.533  -7.279  1.00 25.00           C
ATOM     15  CA  PHE    15     136.410   0.995  -3.792  1.00 25.00           C
ATOM     16  CA  ASP    16     132.657   1.759  -3.842  1.00 25.00           C
ATOM     17  CA  LYS    17     132.346   0.132  -7.296  1.00 25.00           C
ATOM     18  CA  LEU    18     134.208  -2.966  -6.031  1.00 25.00           C
ATOM     19  CA  LEU    19     131.874  -3.162  -3.001  1.00 25.00           C
ATOM     20  CA  SER    20     134.181  -3.534   0.002  1.00 25.00           C
ATOM     21  CA  HIS    21     137.442  -1.781   0.632  1.00 25.00           C
ATOM     22  CA  ARG    22     138.051  -0.367   4.157  1.00 25.00           C
ATOM     23  CA  ASP    23     137.746   3.378   4.895  1.00 25.00           C
ATOM     24  CA  GLY    24     135.415   3.805   1.886  1.00 25.00           C
ATOM     25  CA  LEU    25     133.268   0.877   3.103  1.00 25.00           C
ATOM     26  CA  GLU    26     133.084   2.432   6.598  1.00 25.00           C
ATOM     27  CA  ALA    27     132.033   5.787   5.076  1.00 25.00           C
ATOM     28  CA  PHE    28     129.321   4.032   3.020  1.00 25.00           C
ATOM     29  CA  THR    29     128.052   2.253   6.164  1.00 25.00           C
ATOM     30  CA  ARG    30     127.944   5.592   8.038  1.00 25.00           C
ATOM     31  CA  PHE    31     125.989   7.176   5.151  1.00 25.00           C
ATOM     32  CA  LEU    32     123.515   4.253   5.189  1.00 25.00           C
ATOM     33  CA  LYS    33     123.067   4.650   8.972  1.00 25.00           C
ATOM     34  CA  THR    34     122.435   8.401   8.530  1.00 25.00           C
ATOM     35  CA  GLU    35     118.685   7.630   8.635  1.00 25.00           C
ATOM     36  CA  PHE    36     117.427   6.704   5.119  1.00 25.00           C
ATOM     37  CA  SER    37     117.864   3.718   2.849  1.00 25.00           C
ATOM     38  CA  GLU    38     119.620   1.411   5.397  1.00 25.00           C
ATOM     39  CA  GLU    39     117.086  -1.422   4.934  1.00 25.00           C
ATOM     40  CA  ASN    40     118.582  -2.234   1.504  1.00 25.00           C
ATOM     41  CA  ILE    41     122.096  -2.303   3.026  1.00 25.00           C
ATOM     42  CA  GLU    42     120.877  -4.650   5.795  1.00 25.00           C
ATOM     43  CA  PHE    43     119.285  -6.950   3.180  1.00 25.00           C
ATOM     44  CA  TRP    44     122.555  -6.988   1.186  1.00 25.00           C
ATOM     45  CA  ILE    45     124.509  -7.858   4.362  1.00 25.00           C
ATOM     46  CA  ALA    46     122.059 -10.702   5.121  1.00 25.00           C
ATOM     47  CA  CYS    47     122.453 -12.027   1.549  1.00 25.00           C
ATOM     48  CA  GLU    48     126.265 -11.907   1.900  1.00 25.00           C
ATOM     49  CA  ASP    49     126.045 -13.807   5.217  1.00 25.00           C
ATOM     50  CA  PHE    50     123.807 -16.451   3.583  1.00 25.00           C
ATOM     51  CA  LYS    51     126.303 -16.817   0.701  1.00 25.00           C
ATOM     52  CA  LYS    52     127.452 -20.472   0.866  1.00 25.00           C
ATOM     53  CA  SER    53     125.896 -22.218   3.795  1.00 25.00           C
ATOM     54  CA  LYS    54     124.557 -25.464   2.223  1.00 25.00           C
ATOM     55  CA  GLY    55     123.886 -28.985   3.494  1.00 25.00           C
ATOM     56  CA  PRO    56     120.870 -27.723   5.441  1.00 25.00           C
ATOM     57  CA  GLN    57     118.082 -27.018   7.970  1.00 25.00           C
ATOM     58  CA  GLN    58     120.085 -24.081   9.395  1.00 25.00           C
ATOM     59  CA  ILE    59     120.611 -22.694   5.865  1.00 25.00           C
ATOM     60  CA  HIS    60     116.859 -23.000   5.159  1.00 25.00           C
ATOM     61  CA  LEU    61     116.070 -21.168   8.428  1.00 25.00           C
ATOM     62  CA  LYS    62     118.529 -18.386   7.492  1.00 25.00           C
ATOM     63  CA  ALA    63     116.898 -18.072   4.041  1.00 25.00           C
ATOM     64  CA  LYS    64     113.439 -17.851   5.668  1.00 25.00           C
ATOM     65  CA  ALA    65     114.704 -15.130   8.048  1.00 25.00           C
ATOM     66  CA  ILE    66     116.158 -13.183   5.086  1.00 25.00           C
ATOM     67  CA  TYR    67     112.821 -13.468   3.229  1.00 25.00           C
ATOM     68  CA  GLU    68     110.961 -12.203   6.328  1.00 25.00           C
ATOM     69  CA  LYS    69     113.377  -9.245   6.603  1.00 25.00           C
ATOM     70  CA  PHE    70     112.832  -8.426   2.902  1.00 25.00           C
ATOM     71  CA  ILE    71     109.038  -8.556   3.406  1.00 25.00           C
ATOM     72  CA  GLN    72     106.157 -10.721   4.428  1.00 25.00           C
ATOM     73  CA  THR    73     104.999  -8.281   7.080  1.00 25.00           C
ATOM     74  CA  ASP    74     102.712  -5.215   7.286  1.00 25.00           C
ATOM     75  CA  ALA    75     105.789  -3.204   6.243  1.00 25.00           C
ATOM     76  CA  PRO    76     104.722   0.434   5.507  1.00 25.00           C
ATOM     77  CA  LYS    77     102.825  -0.724   2.409  1.00 25.00           C
ATOM     78  CA  GLU    78     103.782   1.440  -0.572  1.00 25.00           C
ATOM     79  CA  VAL    79     105.858  -1.089  -2.471  1.00 25.00           C
ATOM     80  CA  ASN    80     104.011  -0.406  -5.743  1.00 25.00           C
ATOM     81  CA  LEU    81     106.570  -2.781  -7.216  1.00 25.00           C
ATOM     82  CA  ASP    82     104.563  -5.437  -9.090  1.00 25.00           C
ATOM     83  CA  PHE    83     105.474  -8.834  -7.517  1.00 25.00           C
ATOM     84  CA  HIS    84     106.723 -11.653  -9.787  1.00 25.00           C
ATOM     85  CA  THR    85     110.092 -11.660  -7.965  1.00 25.00           C
ATOM     86  CA  LYS    86     108.294 -11.835  -4.589  1.00 25.00           C
ATOM     87  CA  GLU    87     106.170 -14.765  -5.843  1.00 25.00           C
ATOM     88  CA  VAL    88     109.328 -16.570  -7.045  1.00 25.00           C
ATOM     89  CA  ILE    89     110.975 -16.011  -3.632  1.00 25.00           C
ATOM     90  CA  THR    90     107.867 -17.397  -1.876  1.00 25.00           C
ATOM     91  CA  ASN    91     107.920 -20.473  -4.158  1.00 25.00           C
ATOM     92  CA  SER    92     111.631 -21.015  -3.382  1.00 25.00           C
ATOM     93  CA  ILE    93     110.911 -20.749   0.370  1.00 25.00           C
ATOM     94  CA  THR    94     111.777 -24.151   1.924  1.00 25.00           C
ATOM     95  CA  GLN    95     113.554 -26.324  -0.656  1.00 25.00           C
ATOM     96  CA  PRO    96     116.876 -24.496  -1.277  1.00 25.00           C
ATOM     97  CA  THR    97     120.381 -23.032  -1.497  1.00 25.00           C
ATOM     98  CA  LEU    98     119.440 -19.951  -3.532  1.00 25.00           C
ATOM     99  CA  HIS    99     118.837 -18.061  -6.744  1.00 25.00           C
ATOM    100  CA  SER   100     116.013 -15.698  -5.691  1.00 25.00           C
ATOM    101  CA  PHE   101     118.140 -14.413  -2.778  1.00 25.00           C
ATOM    102  CA  ASP   102     121.084 -13.821  -5.156  1.00 25.00           C
ATOM    103  CA  ALA   103     118.792 -11.911  -7.557  1.00 25.00           C
ATOM    104  CA  ALA   104     117.502  -9.766  -4.658  1.00 25.00           C
ATOM    105  CA  GLN   105     121.100  -9.020  -3.577  1.00 25.00           C
ATOM    106  CA  SER   106     121.997  -8.024  -7.164  1.00 25.00           C
ATOM    107  CA  ARG   107     118.946  -5.715  -7.312  1.00 25.00           C
ATOM    108  CA  VAL   108     119.966  -4.113  -3.986  1.00 25.00           C
ATOM    109  CA  TYR   109     123.521  -3.578  -5.306  1.00 25.00           C
ATOM    110  CA  GLN   110     122.124  -1.965  -8.487  1.00 25.00           C
ATOM    111  CA  LEU   111     119.912   0.341  -6.375  1.00 25.00           C
ATOM    112  CA  MET   112     122.935   1.328  -4.241  1.00 25.00           C
ATOM    113  CA  GLU   113     124.955   2.080  -7.407  1.00 25.00           C
ATOM    114  CA  GLN   114     122.088   4.232  -8.754  1.00 25.00           C
ATOM    115  CA  ASP   115     120.229   6.998  -7.007  1.00 25.00           C
ATOM    116  CA  SER   116     121.117   7.405  -3.346  1.00 25.00           C
ATOM    117  CA  TYR   117     124.873   7.736  -3.408  1.00 25.00           C
ATOM    118  CA  THR   118     125.215  10.863  -5.592  1.00 25.00           C
ATOM    119  CA  ARG   119     124.719  13.094  -2.519  1.00 25.00           C
ATOM    120  CA  PHE   120     127.393  11.115  -0.621  1.00 25.00           C
ATOM    121  CA  LEU   121     129.804  11.495  -3.572  1.00 25.00           C
ATOM    122  CA  LYS   122     129.541  15.329  -3.646  1.00 25.00           C
ATOM    123  CA  SER   123     128.187  16.512  -0.255  1.00 25.00           C
ATOM    124  CA  ASP   124     129.011  17.742   3.249  1.00 25.00           C
ATOM    125  CA  ILE   125     131.103  15.611   5.646  1.00 25.00           C
ATOM    126  CA  TYR   126     132.656  13.754   2.677  1.00 25.00           C
ATOM    127  CA  LEU   127     133.486  17.092   0.993  1.00 25.00           C
ATOM    128  CA  ASP   128     135.106  18.350   4.227  1.00 25.00           C
ATOM    129  CA  LEU   129     137.175  15.137   4.470  1.00 25.00           C
ATOM    130  CA  MET   130     138.298  15.556   0.831  1.00 25.00           C
ATOM    131  CA  GLU   131     140.588  18.364   2.076  1.00 25.00           C
ATOM    132  CA  GLY   132     142.641  19.100   5.177  1.00 25.00           C
TER
END
