
#######################################################
#                                                     #
#                        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_2
# Molecule2: number of CA atoms  132 ( 2145),  selected  132 , name T0302.pdb
# PARAMETERS: T0302TS393_2.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      -       -           -
LGA    P       5      -       -           -
LGA    E       6      -       -           -
LGA    E       7      S       4          2.476
LGA    A       8      P       5          3.378
LGA    V       9      E       6          4.605
LGA    -       -      E       7           -
LGA    -       -      A       8           -
LGA    K      10      V       9          5.071
LGA    W      11      K      10           #
LGA    G      12      -       -           -
LGA    E      13      W      11          2.423
LGA    S      14      G      12           -
LGA    -       -      E      13           -
LGA    -       -      S      14           -
LGA    -       -      F      15           -
LGA    -       -      D      16           -
LGA    F      15      K      17           #
LGA    D      16      L      18          1.457
LGA    K      17      L      19          4.047
LGA    L      18      S      20          0.944
LGA    L      19      H      21           #
LGA    S      20      -       -           -
LGA    H      21      R      22          1.524
LGA    R      22      D      23          2.659
LGA    D      23      -       -           -
LGA    G      24      G      24          4.458
LGA    L      25      L      25          3.116
LGA    E      26      E      26          2.556
LGA    A      27      A      27          3.878
LGA    F      28      F      28          2.956
LGA    T      29      T      29          1.822
LGA    R      30      R      30          2.899
LGA    F      31      F      31          3.039
LGA    L      32      L      32          1.599
LGA    K      33      K      33          1.542
LGA    T      34      T      34          1.876
LGA    E      35      E      35          0.883
LGA    F      36      F      36          4.673
LGA    S      37      S      37          3.028
LGA    E      38      E      38          2.129
LGA    E      39      E      39          3.526
LGA    N      40      N      40          1.610
LGA    I      41      I      41          1.301
LGA    E      42      E      42          2.648
LGA    F      43      F      43          1.240
LGA    W      44      W      44          1.444
LGA    I      45      I      45          1.656
LGA    A      46      A      46          1.682
LGA    C      47      C      47          1.237
LGA    E      48      E      48          1.272
LGA    D      49      D      49          1.576
LGA    F      50      F      50          1.808
LGA    K      51      K      51          0.798
LGA    K      52      K      52          1.963
LGA    S      53      S      53          3.510
LGA    K      54      K      54          4.664
LGA    G      55      G      55          4.113
LGA    P      56      P      56          0.797
LGA    Q      57      Q      57          0.679
LGA    Q      58      Q      58          1.077
LGA    I      59      I      59          1.585
LGA    H      60      H      60          1.718
LGA    L      61      L      61          1.001
LGA    K      62      K      62          0.894
LGA    A      63      A      63          0.745
LGA    K      64      K      64          0.885
LGA    A      65      A      65          0.807
LGA    I      66      I      66          0.922
LGA    Y      67      Y      67          0.664
LGA    E      68      E      68          1.547
LGA    K      69      K      69          1.576
LGA    F      70      F      70          0.399
LGA    -       -      I      71           -
LGA    I      71      Q      72          2.747
LGA    -       -      T      73           -
LGA    Q      72      D      74          4.318
LGA    T      73      A      75          3.291
LGA    D      74      P      76          2.597
LGA    A      75      K      77          4.433
LGA    P      76      E      78           #
LGA    K      77      V      79           -
LGA    E      78      -       -           -
LGA    V      79      N      80           #
LGA    N      80      L      81           -
LGA    L      81      D      82           #
LGA    D      82      -       -           -
LGA    F      83      F      83          3.333
LGA    H      84      H      84          2.568
LGA    T      85      T      85          2.766
LGA    K      86      K      86          2.940
LGA    E      87      E      87          2.259
LGA    V      88      V      88          1.441
LGA    I      89      I      89          1.787
LGA    T      90      T      90          1.635
LGA    N      91      N      91          1.268
LGA    S      92      S      92          1.780
LGA    I      93      I      93          2.108
LGA    T      94      T      94          1.395
LGA    Q      95      Q      95          2.453
LGA    P      96      P      96          1.339
LGA    T      97      T      97          2.162
LGA    L      98      L      98          2.972
LGA    H      99      H      99          4.293
LGA    S     100      S     100          2.983
LGA    F     101      F     101          1.104
LGA    D     102      D     102          1.345
LGA    A     103      A     103          1.180
LGA    A     104      A     104          0.985
LGA    Q     105      Q     105          1.007
LGA    S     106      S     106          1.189
LGA    R     107      R     107          0.876
LGA    V     108      V     108          0.918
LGA    Y     109      Y     109          1.080
LGA    Q     110      Q     110          1.850
LGA    L     111      L     111          2.113
LGA    M     112      M     112          2.375
LGA    E     113      E     113          2.727
LGA    Q     114      Q     114          2.708
LGA    D     115      D     115          4.443
LGA    S     116      S     116          2.347
LGA    Y     117      Y     117          0.650
LGA    T     118      T     118          2.093
LGA    R     119      R     119          1.819
LGA    F     120      F     120          0.977
LGA    L     121      L     121          0.784
LGA    K     122      K     122          2.617
LGA    S     123      S     123          3.432
LGA    D     124      D     124          2.554
LGA    I     125      I     125          3.424
LGA    Y     126      Y     126          2.690
LGA    L     127      L     127          2.379
LGA    D     128      D     128          4.666
LGA    L     129      L     129          4.946
LGA    M     130      M     130          2.934
LGA    -       -      E     131           -
LGA    E     131      G     132          1.791
LGA    G     132      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  132  132    5.0    111    2.50    85.59     56.152     4.275

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.612171 * X  +   0.489941 * Y  +  -0.620649 * Z  + 123.076859
  Y_new =   0.262405 * X  +  -0.614555 * Y  +  -0.743952 * Z  +  -3.654548
  Z_new =  -0.745916 * X  +  -0.618287 * Y  +   0.247650 * Z  +   0.879736 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.189823    1.951769  [ DEG:   -68.1719    111.8281 ]
  Theta =   0.841909    2.299684  [ DEG:    48.2378    131.7622 ]
  Phi   =   2.736637   -0.404956  [ DEG:   156.7977    -23.2023 ]
 
# 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_2                                  
REMARK     2: T0302.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0302TS393_2.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  111   2.50   85.59  56.152
REMARK  ---------------------------------------------------------- 
MOLECULE T0302TS393_2
PFRMAT TS
TARGET T0302
MODEL 2
PARENT N/A
ATOM      1  CA  SER     1     148.265   9.151  10.918  1.00 25.00           C
ATOM      2  CA  MET     2     144.692   9.419   9.767  1.00 25.00           C
ATOM      3  CA  VAL     3     143.227   9.639   6.267  1.00 25.00           C
ATOM      4  CA  SER     4     143.358  12.536   3.787  1.00 25.00           C
ATOM      5  CA  PRO     5     143.118  13.297   0.086  1.00 25.00           C
ATOM      6  CA  GLU     6     143.208  11.683  -3.386  1.00 25.00           C
ATOM      7  CA  GLU     7     144.531   8.427  -1.864  1.00 25.00           C
ATOM      8  CA  ALA     8     141.734   8.483   0.750  1.00 25.00           C
ATOM      9  CA  VAL     9     139.133   9.028  -2.008  1.00 25.00           C
ATOM     10  CA  LYS    10     140.586   6.093  -3.993  1.00 25.00           C
ATOM     11  CA  TRP    11     140.434   3.877  -0.874  1.00 25.00           C
ATOM     12  CA  GLY    12     136.786   4.892  -0.301  1.00 25.00           C
ATOM     13  CA  GLU    13     135.957   4.066  -3.947  1.00 25.00           C
ATOM     14  CA  SER    14     137.645   0.648  -3.582  1.00 25.00           C
ATOM     15  CA  PHE    15     135.640  -0.029  -0.390  1.00 25.00           C
ATOM     16  CA  ASP    16     132.400   0.934  -2.192  1.00 25.00           C
ATOM     17  CA  LYS    17     133.282  -1.413  -5.086  1.00 25.00           C
ATOM     18  CA  LEU    18     133.967  -4.251  -2.607  1.00 25.00           C
ATOM     19  CA  LEU    19     130.599  -3.607  -0.902  1.00 25.00           C
ATOM     20  CA  SER    20     132.616  -3.030   2.270  1.00 25.00           C
ATOM     21  CA  HIS    21     135.981  -3.340   3.936  1.00 25.00           C
ATOM     22  CA  ARG    22     137.418  -0.175   5.439  1.00 25.00           C
ATOM     23  CA  ASP    23     137.160   2.956   7.629  1.00 25.00           C
ATOM     24  CA  GLY    24     135.370   4.817   4.801  1.00 25.00           C
ATOM     25  CA  LEU    25     132.928   1.896   4.390  1.00 25.00           C
ATOM     26  CA  GLU    26     132.245   1.905   8.158  1.00 25.00           C
ATOM     27  CA  ALA    27     131.603   5.679   8.058  1.00 25.00           C
ATOM     28  CA  PHE    28     129.188   5.215   5.122  1.00 25.00           C
ATOM     29  CA  THR    29     127.349   2.458   7.040  1.00 25.00           C
ATOM     30  CA  ARG    30     127.081   4.735  10.106  1.00 25.00           C
ATOM     31  CA  PHE    31     125.693   7.557   7.921  1.00 25.00           C
ATOM     32  CA  LEU    32     123.121   5.155   6.411  1.00 25.00           C
ATOM     33  CA  LYS    33     122.081   4.024   9.919  1.00 25.00           C
ATOM     34  CA  THR    34     121.693   7.674  11.008  1.00 25.00           C
ATOM     35  CA  GLU    35     118.876   7.960   8.511  1.00 25.00           C
ATOM     36  CA  PHE    36     117.033   7.584   5.164  1.00 25.00           C
ATOM     37  CA  SER    37     118.856   4.710   3.344  1.00 25.00           C
ATOM     38  CA  GLU    38     119.550   1.385   5.141  1.00 25.00           C
ATOM     39  CA  GLU    39     117.092  -1.191   3.729  1.00 25.00           C
ATOM     40  CA  ASN    40     119.500  -1.943   0.847  1.00 25.00           C
ATOM     41  CA  ILE    41     122.376  -2.395   3.336  1.00 25.00           C
ATOM     42  CA  GLU    42     120.226  -4.774   5.428  1.00 25.00           C
ATOM     43  CA  PHE    43     119.351  -6.785   2.288  1.00 25.00           C
ATOM     44  CA  TRP    44     123.061  -6.996   1.362  1.00 25.00           C
ATOM     45  CA  ILE    45     123.902  -8.200   4.898  1.00 25.00           C
ATOM     46  CA  ALA    46     121.155 -10.860   4.672  1.00 25.00           C
ATOM     47  CA  CYS    47     122.524 -12.021   1.288  1.00 25.00           C
ATOM     48  CA  GLU    48     126.051 -12.247   2.765  1.00 25.00           C
ATOM     49  CA  ASP    49     124.712 -14.296   5.711  1.00 25.00           C
ATOM     50  CA  PHE    50     122.906 -16.647   3.286  1.00 25.00           C
ATOM     51  CA  LYS    51     126.127 -17.070   1.258  1.00 25.00           C
ATOM     52  CA  LYS    52     129.101 -19.093   2.586  1.00 25.00           C
ATOM     53  CA  SER    53     127.089 -22.291   2.401  1.00 25.00           C
ATOM     54  CA  LYS    54     126.667 -24.900  -0.342  1.00 25.00           C
ATOM     55  CA  GLY    55     125.129 -27.270   2.240  1.00 25.00           C
ATOM     56  CA  PRO    56     121.624 -27.364   3.702  1.00 25.00           C
ATOM     57  CA  GLN    57     118.804 -27.167   6.286  1.00 25.00           C
ATOM     58  CA  GLN    58     120.713 -24.454   8.199  1.00 25.00           C
ATOM     59  CA  ILE    59     121.216 -22.484   4.953  1.00 25.00           C
ATOM     60  CA  HIS    60     117.478 -22.774   4.169  1.00 25.00           C
ATOM     61  CA  LEU    61     116.619 -21.534   7.689  1.00 25.00           C
ATOM     62  CA  LYS    62     119.001 -18.567   7.252  1.00 25.00           C
ATOM     63  CA  ALA    63     117.378 -17.729   3.886  1.00 25.00           C
ATOM     64  CA  LYS    64     113.906 -17.879   5.494  1.00 25.00           C
ATOM     65  CA  ALA    65     115.080 -15.557   8.305  1.00 25.00           C
ATOM     66  CA  ILE    66     116.490 -13.105   5.722  1.00 25.00           C
ATOM     67  CA  TYR    67     113.172 -13.171   3.811  1.00 25.00           C
ATOM     68  CA  GLU    68     111.260 -12.492   7.059  1.00 25.00           C
ATOM     69  CA  LYS    69     113.588  -9.554   7.844  1.00 25.00           C
ATOM     70  CA  PHE    70     113.038  -8.145   4.325  1.00 25.00           C
ATOM     71  CA  ILE    71     109.246  -8.464   4.764  1.00 25.00           C
ATOM     72  CA  GLN    72     106.580 -10.809   6.228  1.00 25.00           C
ATOM     73  CA  THR    73     104.693  -7.972   7.950  1.00 25.00           C
ATOM     74  CA  ASP    74     106.710  -5.557  10.082  1.00 25.00           C
ATOM     75  CA  ALA    75     107.497  -2.422   8.166  1.00 25.00           C
ATOM     76  CA  PRO    76     103.820  -1.782   7.661  1.00 25.00           C
ATOM     77  CA  LYS    77     103.687  -1.272   3.891  1.00 25.00           C
ATOM     78  CA  GLU    78     102.645   0.993   1.017  1.00 25.00           C
ATOM     79  CA  VAL    79     106.146   0.451  -0.234  1.00 25.00           C
ATOM     80  CA  ASN    80     104.998   0.475  -3.905  1.00 25.00           C
ATOM     81  CA  LEU    81     105.864  -3.067  -5.079  1.00 25.00           C
ATOM     82  CA  ASP    82     105.631  -4.630  -8.587  1.00 25.00           C
ATOM     83  CA  PHE    83     105.576  -8.063  -7.017  1.00 25.00           C
ATOM     84  CA  HIS    84     107.617 -10.424  -9.237  1.00 25.00           C
ATOM     85  CA  THR    85     110.472 -10.396  -6.685  1.00 25.00           C
ATOM     86  CA  LYS    86     107.998 -11.190  -3.872  1.00 25.00           C
ATOM     87  CA  GLU    87     106.560 -14.088  -5.921  1.00 25.00           C
ATOM     88  CA  VAL    88     110.092 -15.433  -6.543  1.00 25.00           C
ATOM     89  CA  ILE    89     110.862 -15.214  -2.798  1.00 25.00           C
ATOM     90  CA  THR    90     107.622 -17.091  -1.997  1.00 25.00           C
ATOM     91  CA  ASN    91     108.536 -19.804  -4.541  1.00 25.00           C
ATOM     92  CA  SER    92     112.017 -20.130  -2.978  1.00 25.00           C
ATOM     93  CA  ILE    93     110.452 -20.449   0.503  1.00 25.00           C
ATOM     94  CA  THR    94     110.252 -24.300   0.331  1.00 25.00           C
ATOM     95  CA  GLN    95     113.510 -26.232  -0.281  1.00 25.00           C
ATOM     96  CA  PRO    96     115.653 -23.183  -0.679  1.00 25.00           C
ATOM     97  CA  THR    97     118.374 -23.021  -3.394  1.00 25.00           C
ATOM     98  CA  LEU    98     120.741 -20.165  -2.562  1.00 25.00           C
ATOM     99  CA  HIS    99     119.384 -17.757  -5.177  1.00 25.00           C
ATOM    100  CA  SER   100     116.475 -15.354  -4.518  1.00 25.00           C
ATOM    101  CA  PHE   101     118.470 -13.669  -1.718  1.00 25.00           C
ATOM    102  CA  ASP   102     121.483 -13.299  -4.053  1.00 25.00           C
ATOM    103  CA  ALA   103     119.239 -11.758  -6.745  1.00 25.00           C
ATOM    104  CA  ALA   104     117.802  -9.304  -4.179  1.00 25.00           C
ATOM    105  CA  GLN   105     121.343  -8.342  -3.081  1.00 25.00           C
ATOM    106  CA  SER   106     122.346  -7.773  -6.733  1.00 25.00           C
ATOM    107  CA  ARG   107     119.255  -5.577  -7.267  1.00 25.00           C
ATOM    108  CA  VAL   108     120.122  -3.552  -4.133  1.00 25.00           C
ATOM    109  CA  TYR   109     123.710  -3.095  -5.392  1.00 25.00           C
ATOM    110  CA  GLN   110     122.395  -1.921  -8.791  1.00 25.00           C
ATOM    111  CA  LEU   111     120.061   0.570  -7.056  1.00 25.00           C
ATOM    112  CA  MET   112     122.985   1.888  -4.963  1.00 25.00           C
ATOM    113  CA  GLU   113     125.100   2.295  -8.129  1.00 25.00           C
ATOM    114  CA  GLN   114     122.239   4.192  -9.827  1.00 25.00           C
ATOM    115  CA  ASP   115     121.537   7.537  -8.293  1.00 25.00           C
ATOM    116  CA  SER   116     121.838   6.774  -4.597  1.00 25.00           C
ATOM    117  CA  TYR   117     125.668   6.782  -4.523  1.00 25.00           C
ATOM    118  CA  THR   118     126.314   9.669  -6.954  1.00 25.00           C
ATOM    119  CA  ARG   119     124.322  12.042  -4.704  1.00 25.00           C
ATOM    120  CA  PHE   120     126.342  10.891  -1.661  1.00 25.00           C
ATOM    121  CA  LEU   121     129.607  11.478  -3.576  1.00 25.00           C
ATOM    122  CA  LYS   122     128.546  14.827  -5.080  1.00 25.00           C
ATOM    123  CA  SER   123     126.931  15.886  -1.735  1.00 25.00           C
ATOM    124  CA  ASP   124     128.735  16.684   1.527  1.00 25.00           C
ATOM    125  CA  ILE   125     131.347  15.499   4.064  1.00 25.00           C
ATOM    126  CA  TYR   126     133.402  13.915   1.247  1.00 25.00           C
ATOM    127  CA  LEU   127     133.219  17.177  -0.752  1.00 25.00           C
ATOM    128  CA  ASP   128     134.369  19.153   2.319  1.00 25.00           C
ATOM    129  CA  LEU   129     137.295  16.731   2.812  1.00 25.00           C
ATOM    130  CA  MET   130     138.270  17.122  -0.871  1.00 25.00           C
ATOM    131  CA  GLU   131     139.343  20.728  -0.295  1.00 25.00           C
ATOM    132  CA  GLY   132     141.479  19.817   2.660  1.00 25.00           C
TER
END
