
#######################################################
#                                                     #
#                        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 T0302TS168_5
# Molecule2: number of CA atoms  132 ( 2145),  selected  132 , name T0302.pdb
# PARAMETERS: T0302TS168_5.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          4.216
LGA    S       4      S       4          3.672
LGA    P       5      P       5          2.997
LGA    E       6      E       6          3.411
LGA    E       7      E       7          3.445
LGA    A       8      A       8          3.124
LGA    V       9      V       9          2.329
LGA    K      10      K      10          1.717
LGA    W      11      -       -           -
LGA    G      12      W      11          4.044
LGA    E      13      G      12           #
LGA    -       -      E      13           -
LGA    -       -      S      14           -
LGA    -       -      F      15           -
LGA    S      14      D      16          5.139
LGA    F      15      K      17          4.450
LGA    D      16      L      18          2.719
LGA    K      17      L      19          3.601
LGA    L      18      S      20          2.060
LGA    L      19      -       -           -
LGA    S      20      -       -           -
LGA    H      21      H      21          3.710
LGA    R      22      R      22          2.546
LGA    D      23      D      23          2.839
LGA    G      24      G      24          2.768
LGA    L      25      L      25          2.126
LGA    E      26      E      26          1.747
LGA    A      27      A      27          2.104
LGA    F      28      F      28          1.368
LGA    T      29      T      29          0.961
LGA    R      30      R      30          1.229
LGA    F      31      F      31          0.865
LGA    L      32      L      32          0.280
LGA    K      33      K      33          0.907
LGA    T      34      T      34          0.998
LGA    E      35      E      35          1.624
LGA    F      36      F      36          2.944
LGA    S      37      S      37          2.274
LGA    E      38      E      38          2.351
LGA    E      39      E      39          3.896
LGA    N      40      N      40          1.855
LGA    I      41      I      41          1.309
LGA    E      42      E      42          2.951
LGA    F      43      F      43          1.497
LGA    W      44      W      44          1.406
LGA    I      45      I      45          2.100
LGA    A      46      A      46          2.190
LGA    C      47      C      47          1.165
LGA    E      48      E      48          1.576
LGA    D      49      D      49          2.445
LGA    F      50      F      50          2.201
LGA    K      51      K      51          0.800
LGA    K      52      K      52          2.895
LGA    S      53      S      53          1.308
LGA    K      54      K      54          1.906
LGA    G      55      G      55          3.848
LGA    P      56      P      56          1.386
LGA    Q      57      Q      57          1.341
LGA    Q      58      Q      58          1.493
LGA    I      59      I      59          1.627
LGA    H      60      H      60          2.083
LGA    L      61      L      61          1.717
LGA    K      62      K      62          1.270
LGA    A      63      A      63          1.017
LGA    K      64      K      64          1.477
LGA    A      65      A      65          1.254
LGA    I      66      I      66          1.272
LGA    Y      67      Y      67          0.940
LGA    E      68      E      68          1.418
LGA    K      69      K      69          1.161
LGA    F      70      F      70          1.648
LGA    -       -      I      71           -
LGA    I      71      Q      72          2.016
LGA    -       -      T      73           -
LGA    Q      72      D      74          4.412
LGA    T      73      A      75          3.165
LGA    D      74      P      76          2.500
LGA    A      75      K      77          4.696
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          4.470
LGA    H      84      H      84          4.771
LGA    T      85      T      85          3.664
LGA    K      86      K      86          2.425
LGA    E      87      E      87          2.881
LGA    V      88      V      88          1.748
LGA    I      89      I      89          1.070
LGA    T      90      T      90          1.605
LGA    N      91      N      91          1.744
LGA    S      92      S      92          2.088
LGA    I      93      I      93          1.581
LGA    T      94      T      94          1.100
LGA    Q      95      Q      95          1.123
LGA    P      96      P      96          2.748
LGA    T      97      T      97          1.550
LGA    L      98      L      98          3.726
LGA    H      99      H      99           #
LGA    S     100      S     100          3.783
LGA    F     101      F     101          1.708
LGA    D     102      D     102          0.941
LGA    A     103      A     103          1.010
LGA    A     104      A     104          1.212
LGA    Q     105      Q     105          1.369
LGA    S     106      S     106          1.816
LGA    R     107      R     107          1.390
LGA    V     108      V     108          1.216
LGA    Y     109      Y     109          1.487
LGA    Q     110      Q     110          2.017
LGA    L     111      L     111          1.617
LGA    M     112      M     112          1.747
LGA    E     113      E     113          2.201
LGA    Q     114      Q     114          2.219
LGA    D     115      D     115          3.160
LGA    S     116      S     116          1.341
LGA    Y     117      Y     117          1.788
LGA    T     118      T     118          2.123
LGA    R     119      R     119          2.327
LGA    F     120      F     120          2.322
LGA    L     121      L     121          1.761
LGA    K     122      K     122          1.818
LGA    S     123      S     123          3.218
LGA    D     124      D     124          1.740
LGA    I     125      I     125          2.561
LGA    Y     126      Y     126          1.652
LGA    L     127      L     127          1.655
LGA    D     128      D     128          2.802
LGA    L     129      L     129          2.417
LGA    M     130      M     130          1.230
LGA    E     131      E     131          3.464
LGA    G     132      G     132          4.149

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  132  132    5.0    118    2.43    90.68     60.014     4.667

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.500852 * X  +  -0.189044 * Y  +  -0.844636 * Z  + 122.820671
  Y_new =   0.745403 * X  +   0.401774 * Y  +  -0.531932 * Z  +  -4.009550
  Z_new =   0.439911 * X  +  -0.896013 * Y  +  -0.060316 * Z  +   0.368997 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.638010    1.503582  [ DEG:   -93.8511     86.1489 ]
  Theta =  -0.455500   -2.686093  [ DEG:   -26.0982   -153.9018 ]
  Phi   =   2.162428   -0.979165  [ DEG:   123.8980    -56.1020 ]
 
# 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: T0302TS168_5                                  
REMARK     2: T0302.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0302TS168_5.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   2.43   90.68  60.014
REMARK  ---------------------------------------------------------- 
MOLECULE T0302TS168_5
PFRMAT TS
TARGET T0302
MODEL 5
PARENT N/A
ATOM      1  CA  SER     1     148.837   4.855   4.528  1.00 25.00           C
ATOM      2  CA  MET     2     146.201   7.625   4.683  1.00 25.00           C
ATOM      3  CA  VAL     3     143.991   9.162   1.917  1.00 25.00           C
ATOM      4  CA  SER     4     144.474  11.243  -1.269  1.00 25.00           C
ATOM      5  CA  PRO     5     142.401  12.027  -4.291  1.00 25.00           C
ATOM      6  CA  GLU     6     141.236  10.306  -7.508  1.00 25.00           C
ATOM      7  CA  GLU     7     142.939   7.054  -6.413  1.00 25.00           C
ATOM      8  CA  ALA     8     141.236   7.285  -2.992  1.00 25.00           C
ATOM      9  CA  VAL     9     137.846   7.836  -4.688  1.00 25.00           C
ATOM     10  CA  LYS    10     138.450   4.794  -6.935  1.00 25.00           C
ATOM     11  CA  TRP    11     139.351   2.679  -3.873  1.00 25.00           C
ATOM     12  CA  GLY    12     136.157   3.835  -2.104  1.00 25.00           C
ATOM     13  CA  GLU    13     134.087   2.928  -5.195  1.00 25.00           C
ATOM     14  CA  SER    14     135.722  -0.533  -5.305  1.00 25.00           C
ATOM     15  CA  PHE    15     134.946  -1.044  -1.589  1.00 25.00           C
ATOM     16  CA  ASP    16     131.303  -0.025  -2.184  1.00 25.00           C
ATOM     17  CA  LYS    17     131.066  -2.489  -5.107  1.00 25.00           C
ATOM     18  CA  LEU    18     132.514  -5.272  -2.912  1.00 25.00           C
ATOM     19  CA  LEU    19     129.971  -4.463  -0.165  1.00 25.00           C
ATOM     20  CA  SER    20     132.606  -4.561   2.635  1.00 25.00           C
ATOM     21  CA  HIS    21     136.238  -3.437   2.701  1.00 25.00           C
ATOM     22  CA  ARG    22     137.023  -0.661   5.181  1.00 25.00           C
ATOM     23  CA  ASP    23     136.912   2.950   6.455  1.00 25.00           C
ATOM     24  CA  GLY    24     135.090   4.043   3.268  1.00 25.00           C
ATOM     25  CA  LEU    25     132.560   1.202   3.710  1.00 25.00           C
ATOM     26  CA  GLU    26     131.988   2.242   7.351  1.00 25.00           C
ATOM     27  CA  ALA    27     131.444   5.871   6.254  1.00 25.00           C
ATOM     28  CA  PHE    28     128.932   4.717   3.602  1.00 25.00           C
ATOM     29  CA  THR    29     127.077   2.638   6.228  1.00 25.00           C
ATOM     30  CA  ARG    30     126.960   5.662   8.576  1.00 25.00           C
ATOM     31  CA  PHE    31     125.583   7.839   5.742  1.00 25.00           C
ATOM     32  CA  LEU    32     122.906   5.207   4.987  1.00 25.00           C
ATOM     33  CA  LYS    33     121.940   5.091   8.691  1.00 25.00           C
ATOM     34  CA  THR    34     121.681   8.911   8.768  1.00 25.00           C
ATOM     35  CA  GLU    35     118.670   9.598   6.647  1.00 25.00           C
ATOM     36  CA  PHE    36     116.320   6.693   7.257  1.00 25.00           C
ATOM     37  CA  SER    37     116.961   4.357   4.290  1.00 25.00           C
ATOM     38  CA  GLU    38     119.678   1.723   4.830  1.00 25.00           C
ATOM     39  CA  GLU    39     117.098  -0.746   3.449  1.00 25.00           C
ATOM     40  CA  ASN    40     119.513  -1.742   0.649  1.00 25.00           C
ATOM     41  CA  ILE    41     122.305  -2.280   3.216  1.00 25.00           C
ATOM     42  CA  GLU    42     119.969  -4.452   5.337  1.00 25.00           C
ATOM     43  CA  PHE    43     119.039  -6.513   2.247  1.00 25.00           C
ATOM     44  CA  TRP    44     122.748  -6.980   1.412  1.00 25.00           C
ATOM     45  CA  ILE    45     123.440  -8.110   5.006  1.00 25.00           C
ATOM     46  CA  ALA    46     120.541 -10.605   4.805  1.00 25.00           C
ATOM     47  CA  CYS    47     121.905 -11.963   1.495  1.00 25.00           C
ATOM     48  CA  GLU    48     125.381 -12.350   3.057  1.00 25.00           C
ATOM     49  CA  ASP    49     123.859 -14.212   6.038  1.00 25.00           C
ATOM     50  CA  PHE    50     121.962 -16.532   3.654  1.00 25.00           C
ATOM     51  CA  LYS    51     125.192 -17.218   1.714  1.00 25.00           C
ATOM     52  CA  LYS    52     128.317 -19.487   1.708  1.00 25.00           C
ATOM     53  CA  SER    53     126.504 -21.451   4.426  1.00 25.00           C
ATOM     54  CA  LYS    54     125.834 -24.927   5.825  1.00 25.00           C
ATOM     55  CA  GLY    55     125.687 -26.996   2.662  1.00 25.00           C
ATOM     56  CA  PRO    56     122.009 -27.716   3.389  1.00 25.00           C
ATOM     57  CA  GLN    57     119.195 -27.714   5.987  1.00 25.00           C
ATOM     58  CA  GLN    58     120.896 -24.840   7.862  1.00 25.00           C
ATOM     59  CA  ILE    59     121.226 -22.871   4.595  1.00 25.00           C
ATOM     60  CA  HIS    60     117.519 -23.459   3.836  1.00 25.00           C
ATOM     61  CA  LEU    61     116.584 -22.255   7.349  1.00 25.00           C
ATOM     62  CA  LYS    62     118.725 -19.115   6.869  1.00 25.00           C
ATOM     63  CA  ALA    63     117.024 -18.440   3.505  1.00 25.00           C
ATOM     64  CA  LYS    64     113.582 -18.845   5.134  1.00 25.00           C
ATOM     65  CA  ALA    65     114.586 -16.410   7.915  1.00 25.00           C
ATOM     66  CA  ILE    66     115.788 -13.881   5.301  1.00 25.00           C
ATOM     67  CA  TYR    67     112.474 -14.226   3.411  1.00 25.00           C
ATOM     68  CA  GLU    68     110.532 -13.665   6.663  1.00 25.00           C
ATOM     69  CA  LYS    69     112.628 -10.546   7.405  1.00 25.00           C
ATOM     70  CA  PHE    70     111.950  -9.221   3.877  1.00 25.00           C
ATOM     71  CA  ILE    71     108.198  -9.830   4.342  1.00 25.00           C
ATOM     72  CA  GLN    72     105.704 -11.056   6.919  1.00 25.00           C
ATOM     73  CA  THR    73     105.250  -7.761   8.799  1.00 25.00           C
ATOM     74  CA  ASP    74     106.983  -4.454   9.745  1.00 25.00           C
ATOM     75  CA  ALA    75     107.434  -1.727   7.080  1.00 25.00           C
ATOM     76  CA  PRO    76     103.817  -2.501   6.154  1.00 25.00           C
ATOM     77  CA  LYS    77     103.299  -0.494   2.918  1.00 25.00           C
ATOM     78  CA  GLU    78     103.180   1.638  -0.229  1.00 25.00           C
ATOM     79  CA  VAL    79     106.199  -0.243  -1.601  1.00 25.00           C
ATOM     80  CA  ASN    80     103.903  -1.934  -4.075  1.00 25.00           C
ATOM     81  CA  LEU    81     105.817  -2.887  -7.172  1.00 25.00           C
ATOM     82  CA  ASP    82     103.416  -5.342  -8.775  1.00 25.00           C
ATOM     83  CA  PHE    83     104.574  -7.837  -6.195  1.00 25.00           C
ATOM     84  CA  HIS    84     105.382 -10.547  -8.779  1.00 25.00           C
ATOM     85  CA  THR    85     109.119 -10.190  -8.020  1.00 25.00           C
ATOM     86  CA  LYS    86     108.411 -10.502  -4.269  1.00 25.00           C
ATOM     87  CA  GLU    87     106.319 -13.647  -4.900  1.00 25.00           C
ATOM     88  CA  VAL    88     109.152 -15.141  -7.001  1.00 25.00           C
ATOM     89  CA  ILE    89     111.659 -14.375  -4.209  1.00 25.00           C
ATOM     90  CA  THR    90     109.355 -16.044  -1.647  1.00 25.00           C
ATOM     91  CA  ASN    91     109.047 -19.128  -3.897  1.00 25.00           C
ATOM     92  CA  SER    92     112.857 -19.284  -4.247  1.00 25.00           C
ATOM     93  CA  ILE    93     113.241 -19.043  -0.445  1.00 25.00           C
ATOM     94  CA  THR    94     110.832 -22.005   0.003  1.00 25.00           C
ATOM     95  CA  GLN    95     112.538 -24.990  -1.703  1.00 25.00           C
ATOM     96  CA  PRO    96     116.217 -24.231  -2.301  1.00 25.00           C
ATOM     97  CA  THR    97     119.463 -22.562  -3.468  1.00 25.00           C
ATOM     98  CA  LEU    98     121.751 -19.560  -3.992  1.00 25.00           C
ATOM     99  CA  HIS    99     119.556 -18.678  -6.935  1.00 25.00           C
ATOM    100  CA  SER   100     116.505 -16.453  -6.300  1.00 25.00           C
ATOM    101  CA  PHE   101     118.102 -15.140  -3.077  1.00 25.00           C
ATOM    102  CA  ASP   102     121.347 -14.383  -4.965  1.00 25.00           C
ATOM    103  CA  ALA   103     119.371 -12.522  -7.666  1.00 25.00           C
ATOM    104  CA  ALA   104     117.560 -10.487  -4.974  1.00 25.00           C
ATOM    105  CA  GLN   105     120.914  -9.617  -3.341  1.00 25.00           C
ATOM    106  CA  SER   106     122.308  -8.516  -6.734  1.00 25.00           C
ATOM    107  CA  ARG   107     119.218  -6.330  -7.322  1.00 25.00           C
ATOM    108  CA  VAL   108     119.645  -4.752  -3.859  1.00 25.00           C
ATOM    109  CA  TYR   109     123.334  -4.048  -4.607  1.00 25.00           C
ATOM    110  CA  GLN   110     122.374  -2.433  -7.944  1.00 25.00           C
ATOM    111  CA  LEU   111     119.767  -0.260  -6.170  1.00 25.00           C
ATOM    112  CA  MET   112     122.381   0.808  -3.583  1.00 25.00           C
ATOM    113  CA  GLU   113     124.829   1.703  -6.389  1.00 25.00           C
ATOM    114  CA  GLN   114     122.113   3.762  -8.135  1.00 25.00           C
ATOM    115  CA  ASP   115     121.420   7.269  -6.695  1.00 25.00           C
ATOM    116  CA  SER   116     122.598   6.415  -3.189  1.00 25.00           C
ATOM    117  CA  TYR   117     126.156   7.768  -3.086  1.00 25.00           C
ATOM    118  CA  THR   118     124.891  11.129  -4.418  1.00 25.00           C
ATOM    119  CA  ARG   119     124.436  12.405  -0.835  1.00 25.00           C
ATOM    120  CA  PHE   120     127.993  11.288   0.041  1.00 25.00           C
ATOM    121  CA  LEU   121     129.347  13.087  -3.057  1.00 25.00           C
ATOM    122  CA  LYS   122     126.808  15.798  -4.088  1.00 25.00           C
ATOM    123  CA  SER   123     127.074  16.797  -0.420  1.00 25.00           C
ATOM    124  CA  ASP   124     129.600  16.847   2.401  1.00 25.00           C
ATOM    125  CA  ILE   125     131.946  14.505   4.319  1.00 25.00           C
ATOM    126  CA  TYR   126     133.098  12.922   1.028  1.00 25.00           C
ATOM    127  CA  LEU   127     133.755  16.398  -0.441  1.00 25.00           C
ATOM    128  CA  ASP   128     135.776  17.357   2.668  1.00 25.00           C
ATOM    129  CA  LEU   129     137.820  14.132   2.364  1.00 25.00           C
ATOM    130  CA  MET   130     138.491  14.876  -1.333  1.00 25.00           C
ATOM    131  CA  GLU   131     139.880  18.382  -1.711  1.00 25.00           C
ATOM    132  CA  GLY   132     140.963  18.900   1.909  1.00 25.00           C
TER
END
