
#######################################################
#                                                     #
#                        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_4
# Molecule2: number of CA atoms  132 ( 2145),  selected  132 , name T0302.pdb
# PARAMETERS: T0302TS393_4.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          4.484
LGA    V       3      V       3          2.912
LGA    S       4      S       4          3.373
LGA    P       5      P       5          2.903
LGA    E       6      -       -           -
LGA    E       7      E       6          3.211
LGA    A       8      E       7          3.437
LGA    V       9      A       8          1.902
LGA    K      10      V       9          0.471
LGA    W      11      K      10          1.534
LGA    G      12      W      11          3.362
LGA    E      13      G      12          3.514
LGA    S      14      E      13          3.312
LGA    F      15      S      14          4.725
LGA    D      16      -       -           -
LGA    K      17      F      15          1.087
LGA    L      18      D      16          2.903
LGA    -       -      K      17           -
LGA    -       -      L      18           -
LGA    L      19      L      19          5.131
LGA    S      20      S      20          1.477
LGA    H      21      H      21          1.597
LGA    R      22      R      22          1.911
LGA    D      23      D      23          0.665
LGA    G      24      G      24          2.113
LGA    L      25      L      25          1.713
LGA    E      26      E      26          1.125
LGA    A      27      A      27          2.028
LGA    F      28      F      28          1.065
LGA    T      29      T      29          0.805
LGA    R      30      R      30          2.326
LGA    F      31      F      31          2.077
LGA    L      32      L      32          0.274
LGA    K      33      K      33          1.626
LGA    T      34      T      34          1.882
LGA    E      35      E      35          0.823
LGA    F      36      F      36          3.506
LGA    S      37      S      37          3.308
LGA    E      38      E      38          2.724
LGA    E      39      E      39          3.038
LGA    N      40      N      40          2.038
LGA    I      41      I      41          1.277
LGA    E      42      E      42          1.757
LGA    F      43      F      43          0.943
LGA    W      44      W      44          1.044
LGA    I      45      I      45          0.711
LGA    A      46      A      46          0.706
LGA    C      47      C      47          0.924
LGA    E      48      E      48          1.013
LGA    D      49      D      49          0.635
LGA    F      50      F      50          1.064
LGA    K      51      K      51          1.092
LGA    K      52      K      52          2.381
LGA    S      53      S      53          3.129
LGA    K      54      K      54          3.562
LGA    G      55      G      55          1.488
LGA    P      56      P      56          0.999
LGA    Q      57      Q      57          0.970
LGA    Q      58      Q      58          1.022
LGA    I      59      I      59          1.140
LGA    H      60      H      60          0.958
LGA    L      61      L      61          0.830
LGA    K      62      K      62          0.628
LGA    A      63      A      63          0.393
LGA    K      64      K      64          1.338
LGA    A      65      A      65          1.135
LGA    I      66      I      66          0.431
LGA    Y      67      Y      67          0.958
LGA    E      68      E      68          2.122
LGA    K      69      K      69          1.667
LGA    F      70      F      70          0.773
LGA    -       -      I      71           -
LGA    I      71      Q      72          3.123
LGA    -       -      T      73           -
LGA    Q      72      D      74          4.281
LGA    T      73      A      75          3.965
LGA    D      74      P      76          3.465
LGA    A      75      K      77           #
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          3.017
LGA    H      84      H      84          3.198
LGA    T      85      T      85          2.297
LGA    K      86      K      86          1.901
LGA    E      87      E      87          2.098
LGA    V      88      V      88          1.595
LGA    I      89      I      89          1.443
LGA    T      90      T      90          1.712
LGA    N      91      N      91          2.425
LGA    S      92      S      92          3.002
LGA    I      93      I      93          2.903
LGA    T      94      T      94          2.481
LGA    Q      95      Q      95          3.421
LGA    P      96      P      96          1.670
LGA    T      97      T      97          2.166
LGA    L      98      L      98          3.803
LGA    H      99      H      99          5.698
LGA    S     100      S     100          3.294
LGA    F     101      F     101          1.377
LGA    D     102      D     102          0.948
LGA    A     103      A     103          1.340
LGA    A     104      A     104          1.225
LGA    Q     105      Q     105          1.013
LGA    S     106      S     106          1.786
LGA    R     107      R     107          1.234
LGA    V     108      V     108          1.257
LGA    Y     109      Y     109          1.690
LGA    Q     110      Q     110          2.242
LGA    L     111      L     111          1.959
LGA    M     112      M     112          2.622
LGA    E     113      E     113          2.998
LGA    Q     114      Q     114          2.654
LGA    D     115      D     115          3.105
LGA    S     116      S     116          2.052
LGA    Y     117      Y     117          0.495
LGA    T     118      T     118          2.594
LGA    R     119      R     119          1.887
LGA    F     120      -       -           -
LGA    L     121      F     120          2.015
LGA    K     122      L     121          2.322
LGA    S     123      K     122          2.092
LGA    D     124      S     123          3.936
LGA    I     125      D     124          0.882
LGA    Y     126      I     125          2.984
LGA    L     127      Y     126           #
LGA    D     128      L     127          5.249
LGA    L     129      D     128          2.369
LGA    M     130      L     129          3.761
LGA    -       -      M     130           -
LGA    -       -      E     131           -
LGA    E     131      G     132          3.543
LGA    G     132      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  132  132    5.0    118    2.42    79.66     61.387     4.691

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.530071 * X  +   0.165412 * Y  +  -0.831663 * Z  + 122.647125
  Y_new =  -0.351772 * X  +  -0.849515 * Y  +  -0.393169 * Z  +  -3.708170
  Z_new =  -0.771545 * X  +   0.500963 * Y  +  -0.392116 * Z  +   0.324545 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.234914   -0.906678  [ DEG:   128.0512    -51.9488 ]
  Theta =   0.881266    2.260327  [ DEG:    50.4928    129.5072 ]
  Phi   =  -0.585898    2.555695  [ DEG:   -33.5695    146.4305 ]
 
# 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_4                                  
REMARK     2: T0302.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0302TS393_4.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  118   2.42   79.66  61.387
REMARK  ---------------------------------------------------------- 
MOLECULE T0302TS393_4
PFRMAT TS
TARGET T0302
MODEL 4
PARENT N/A
ATOM      1  CA  SER     1     147.274   4.168   8.571  1.00 25.00           C
ATOM      2  CA  MET     2     145.816   6.778   6.153  1.00 25.00           C
ATOM      3  CA  VAL     3     142.595   7.834   4.351  1.00 25.00           C
ATOM      4  CA  SER     4     144.109  10.773   2.358  1.00 25.00           C
ATOM      5  CA  PRO     5     143.187  13.207  -0.471  1.00 25.00           C
ATOM      6  CA  GLU     6     140.406  14.301  -2.865  1.00 25.00           C
ATOM      7  CA  GLU     7     141.819  12.013  -5.590  1.00 25.00           C
ATOM      8  CA  ALA     8     141.926   9.090  -3.118  1.00 25.00           C
ATOM      9  CA  VAL     9     138.293   9.772  -2.118  1.00 25.00           C
ATOM     10  CA  LYS    10     137.265   9.834  -5.807  1.00 25.00           C
ATOM     11  CA  TRP    11     139.072   6.510  -6.393  1.00 25.00           C
ATOM     12  CA  GLY    12     137.290   4.979  -3.369  1.00 25.00           C
ATOM     13  CA  GLU    13     133.918   6.212  -4.701  1.00 25.00           C
ATOM     14  CA  SER    14     134.688   4.693  -8.131  1.00 25.00           C
ATOM     15  CA  PHE    15     135.609   1.365  -6.476  1.00 25.00           C
ATOM     16  CA  ASP    16     132.335   1.417  -4.489  1.00 25.00           C
ATOM     17  CA  LYS    17     130.369   2.105  -7.702  1.00 25.00           C
ATOM     18  CA  LEU    18     132.142  -0.810  -9.441  1.00 25.00           C
ATOM     19  CA  LEU    19     131.310  -3.108  -6.492  1.00 25.00           C
ATOM     20  CA  SER    20     133.731  -3.610  -3.563  1.00 25.00           C
ATOM     21  CA  HIS    21     136.417  -1.458  -1.994  1.00 25.00           C
ATOM     22  CA  ARG    22     136.385  -0.965   1.784  1.00 25.00           C
ATOM     23  CA  ASP    23     136.576   1.667   4.559  1.00 25.00           C
ATOM     24  CA  GLY    24     134.758   4.191   2.326  1.00 25.00           C
ATOM     25  CA  LEU    25     132.037   1.603   1.574  1.00 25.00           C
ATOM     26  CA  GLU    26     131.638   0.898   5.317  1.00 25.00           C
ATOM     27  CA  ALA    27     131.337   4.651   6.017  1.00 25.00           C
ATOM     28  CA  PHE    28     128.679   4.973   3.278  1.00 25.00           C
ATOM     29  CA  THR    29     126.743   2.028   4.777  1.00 25.00           C
ATOM     30  CA  ARG    30     126.911   3.649   8.243  1.00 25.00           C
ATOM     31  CA  PHE    31     125.629   6.951   6.788  1.00 25.00           C
ATOM     32  CA  LEU    32     122.744   5.103   5.076  1.00 25.00           C
ATOM     33  CA  LYS    33     121.868   3.363   8.373  1.00 25.00           C
ATOM     34  CA  THR    34     121.895   6.736  10.189  1.00 25.00           C
ATOM     35  CA  GLU    35     119.498   8.098   7.534  1.00 25.00           C
ATOM     36  CA  PHE    36     116.769   6.106   5.797  1.00 25.00           C
ATOM     37  CA  SER    37     117.829   4.241   2.611  1.00 25.00           C
ATOM     38  CA  GLU    38     119.881   1.380   4.089  1.00 25.00           C
ATOM     39  CA  GLU    39     117.329  -1.475   4.076  1.00 25.00           C
ATOM     40  CA  ASN    40     118.608  -2.635   0.657  1.00 25.00           C
ATOM     41  CA  ILE    41     122.211  -2.563   1.953  1.00 25.00           C
ATOM     42  CA  GLU    42     121.176  -4.615   5.018  1.00 25.00           C
ATOM     43  CA  PHE    43     119.428  -7.161   2.752  1.00 25.00           C
ATOM     44  CA  TRP    44     122.565  -7.410   0.571  1.00 25.00           C
ATOM     45  CA  ILE    45     124.719  -7.965   3.689  1.00 25.00           C
ATOM     46  CA  ALA    46     122.328 -10.708   4.883  1.00 25.00           C
ATOM     47  CA  CYS    47     122.501 -12.388   1.445  1.00 25.00           C
ATOM     48  CA  GLU    48     126.327 -12.247   1.541  1.00 25.00           C
ATOM     49  CA  ASP    49     126.321 -13.802   5.040  1.00 25.00           C
ATOM     50  CA  PHE    50     123.992 -16.589   3.826  1.00 25.00           C
ATOM     51  CA  LYS    51     126.301 -17.253   0.842  1.00 25.00           C
ATOM     52  CA  LYS    52     129.079 -19.422   2.266  1.00 25.00           C
ATOM     53  CA  SER    53     126.355 -21.976   2.682  1.00 25.00           C
ATOM     54  CA  LYS    54     125.052 -25.251   1.354  1.00 25.00           C
ATOM     55  CA  GLY    55     124.644 -26.811   4.802  1.00 25.00           C
ATOM     56  CA  PRO    56     120.872 -27.305   4.701  1.00 25.00           C
ATOM     57  CA  GLN    57     118.746 -26.589   7.804  1.00 25.00           C
ATOM     58  CA  GLN    58     120.991 -23.616   8.688  1.00 25.00           C
ATOM     59  CA  ILE    59     120.661 -22.273   5.116  1.00 25.00           C
ATOM     60  CA  HIS    60     116.852 -22.622   5.311  1.00 25.00           C
ATOM     61  CA  LEU    61     116.828 -20.751   8.654  1.00 25.00           C
ATOM     62  CA  LYS    62     118.968 -17.961   7.136  1.00 25.00           C
ATOM     63  CA  ALA    63     116.571 -17.709   4.159  1.00 25.00           C
ATOM     64  CA  LYS    64     113.586 -17.495   6.550  1.00 25.00           C
ATOM     65  CA  ALA    65     115.342 -14.731   8.534  1.00 25.00           C
ATOM     66  CA  ILE    66     116.040 -12.813   5.293  1.00 25.00           C
ATOM     67  CA  TYR    67     112.364 -13.152   4.273  1.00 25.00           C
ATOM     68  CA  GLU    68     111.266 -11.860   7.707  1.00 25.00           C
ATOM     69  CA  LYS    69     113.646  -8.878   7.373  1.00 25.00           C
ATOM     70  CA  PHE    70     112.240  -8.115   3.894  1.00 25.00           C
ATOM     71  CA  ILE    71     108.671  -8.270   5.274  1.00 25.00           C
ATOM     72  CA  GLN    72     106.232 -10.921   6.339  1.00 25.00           C
ATOM     73  CA  THR    73     104.022  -8.208   7.933  1.00 25.00           C
ATOM     74  CA  ASP    74     106.069  -6.416  10.628  1.00 25.00           C
ATOM     75  CA  ALA    75     105.866  -3.500   8.127  1.00 25.00           C
ATOM     76  CA  PRO    76     105.640  -0.032   6.653  1.00 25.00           C
ATOM     77  CA  LYS    77     103.888  -1.066   3.373  1.00 25.00           C
ATOM     78  CA  GLU    78     103.014   1.075   0.312  1.00 25.00           C
ATOM     79  CA  VAL    79     105.808  -0.240  -1.811  1.00 25.00           C
ATOM     80  CA  ASN    80     102.994  -1.323  -4.200  1.00 25.00           C
ATOM     81  CA  LEU    81     105.488  -3.715  -5.788  1.00 25.00           C
ATOM     82  CA  ASP    82     103.134  -5.794  -7.935  1.00 25.00           C
ATOM     83  CA  PHE    83     105.933  -8.185  -8.629  1.00 25.00           C
ATOM     84  CA  HIS    84     107.115 -11.455 -10.235  1.00 25.00           C
ATOM     85  CA  THR    85     110.533 -11.077  -8.550  1.00 25.00           C
ATOM     86  CA  LYS    86     108.828 -10.470  -5.174  1.00 25.00           C
ATOM     87  CA  GLU    87     106.667 -13.591  -5.677  1.00 25.00           C
ATOM     88  CA  VAL    88     109.787 -15.645  -6.524  1.00 25.00           C
ATOM     89  CA  ILE    89     111.529 -14.343  -3.372  1.00 25.00           C
ATOM     90  CA  THR    90     108.469 -15.273  -1.265  1.00 25.00           C
ATOM     91  CA  ASN    91     108.453 -18.785  -2.794  1.00 25.00           C
ATOM     92  CA  SER    92     112.184 -19.167  -2.014  1.00 25.00           C
ATOM     93  CA  ILE    93     111.569 -18.055   1.598  1.00 25.00           C
ATOM     94  CA  THR    94     110.184 -21.560   1.951  1.00 25.00           C
ATOM     95  CA  GLN    95     112.053 -24.831   1.252  1.00 25.00           C
ATOM     96  CA  PRO    96     115.109 -23.132  -0.290  1.00 25.00           C
ATOM     97  CA  THR    97     118.378 -23.672  -2.271  1.00 25.00           C
ATOM     98  CA  LEU    98     120.188 -20.455  -3.229  1.00 25.00           C
ATOM     99  CA  HIS    99     118.661 -18.630  -6.199  1.00 25.00           C
ATOM    100  CA  SER   100     115.901 -16.215  -5.099  1.00 25.00           C
ATOM    101  CA  PHE   101     118.201 -14.780  -2.395  1.00 25.00           C
ATOM    102  CA  ASP   102     120.990 -14.316  -4.978  1.00 25.00           C
ATOM    103  CA  ALA   103     118.549 -12.533  -7.329  1.00 25.00           C
ATOM    104  CA  ALA   104     117.435 -10.238  -4.472  1.00 25.00           C
ATOM    105  CA  GLN   105     121.090  -9.438  -3.657  1.00 25.00           C
ATOM    106  CA  SER   106     121.763  -8.632  -7.340  1.00 25.00           C
ATOM    107  CA  ARG   107     118.702  -6.332  -7.420  1.00 25.00           C
ATOM    108  CA  VAL   108     119.920  -4.559  -4.252  1.00 25.00           C
ATOM    109  CA  TYR   109     123.385  -4.095  -5.816  1.00 25.00           C
ATOM    110  CA  GLN   110     121.790  -2.651  -8.984  1.00 25.00           C
ATOM    111  CA  LEU   111     119.706  -0.237  -6.864  1.00 25.00           C
ATOM    112  CA  MET   112     122.853   0.859  -4.975  1.00 25.00           C
ATOM    113  CA  GLU   113     124.671   1.443  -8.295  1.00 25.00           C
ATOM    114  CA  GLN   114     121.720   3.523  -9.574  1.00 25.00           C
ATOM    115  CA  ASP   115     120.046   6.352  -7.702  1.00 25.00           C
ATOM    116  CA  SER   116     121.552   6.282  -4.193  1.00 25.00           C
ATOM    117  CA  TYR   117     125.340   6.307  -4.085  1.00 25.00           C
ATOM    118  CA  THR   118     126.935   9.280  -5.898  1.00 25.00           C
ATOM    119  CA  ARG   119     124.038  11.533  -4.806  1.00 25.00           C
ATOM    120  CA  PHE   120     124.449  10.351  -1.186  1.00 25.00           C
ATOM    121  CA  LEU   121     128.205  11.081  -1.349  1.00 25.00           C
ATOM    122  CA  LYS   122     128.465  13.825  -3.995  1.00 25.00           C
ATOM    123  CA  SER   123     126.622  16.780  -2.350  1.00 25.00           C
ATOM    124  CA  ASP   124     128.447  17.758   0.882  1.00 25.00           C
ATOM    125  CA  ILE   125     128.992  15.444   3.886  1.00 25.00           C
ATOM    126  CA  TYR   126     131.814  13.647   2.022  1.00 25.00           C
ATOM    127  CA  LEU   127     133.437  17.014   1.185  1.00 25.00           C
ATOM    128  CA  ASP   128     133.198  18.070   4.859  1.00 25.00           C
ATOM    129  CA  LEU   129     134.805  14.766   5.939  1.00 25.00           C
ATOM    130  CA  MET   130     137.633  15.286   3.409  1.00 25.00           C
ATOM    131  CA  GLU   131     137.819  19.090   3.201  1.00 25.00           C
ATOM    132  CA  GLY   132     140.696  18.775   5.737  1.00 25.00           C
TER
END
