
#######################################################
#                                                     #
#                        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  156 (  156),  selected  156 , name T0364TS168_3
# Molecule2: number of CA atoms  153 ( 1220),  selected  153 , name T0364.pdb
# PARAMETERS: T0364TS168_3.T0364.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           #
LGA    P       2      P       2          3.248
LGA    A       3      A       3          2.464
LGA    L       4      L       4          1.309
LGA    I       5      I       5          2.003
LGA    T       6      T       6          2.879
LGA    Y       7      Y       7          1.778
LGA    R       8      R       8          2.202
LGA    T       9      T       9          2.652
LGA    T      10      T      10           #
LGA    V      11      V      11          4.423
LGA    Q      12      Q      12          2.337
LGA    E      13      E      13          1.582
LGA    D      14      D      14          1.830
LGA    W      15      W      15          3.064
LGA    V      16      V      16          3.280
LGA    -       -      D      17           -
LGA    D      17      Y      18          3.012
LGA    Y      18      N      19           #
LGA    N      19      G      20           -
LGA    G      20      -       -           -
LGA    H      21      -       -           -
LGA    L      22      H      21          4.959
LGA    -       -      L      22           -
LGA    R      23      R      23          2.113
LGA    D      24      D      24          1.411
LGA    A      25      A      25          1.888
LGA    F      26      F      26          2.694
LGA    Y      27      Y      27          2.726
LGA    L      28      L      28          2.080
LGA    L      29      L      29          1.890
LGA    I      30      I      30          2.670
LGA    F      31      F      31          2.615
LGA    S      32      S      32          1.723
LGA    Y      33      Y      33          2.061
LGA    A      34      A      34          3.128
LGA    T      35      T      35          3.101
LGA    D      36      D      36          2.058
LGA    A      37      A      37          2.788
LGA    L      38      L      38          3.845
LGA    M      39      M      39          3.327
LGA    D      40      D      40          2.269
LGA    R      41      -       -           -
LGA    I      42      R      41          1.665
LGA    G      43      I      42          2.193
LGA    L      44      G      43           -
LGA    D      45      -       -           -
LGA    A      46      -       -           -
LGA    D      47      L      44          1.898
LGA    S      48      -       -           -
LGA    R      49      -       -           -
LGA    G      50      -       -           -
LGA    Q      51      -       -           -
LGA    S      52      -       -           -
LGA    G      53      D      45           #
LGA    N      54      A      46           -
LGA    -       -      D      47           -
LGA    -       -      S      48           -
LGA    -       -      R      49           -
LGA    S      55      G      50           #
LGA    -       -      Q      51           -
LGA    -       -      S      52           -
LGA    -       -      G      53           -
LGA    -       -      N      54           -
LGA    -       -      S      55           -
LGA    L      56      L      56          1.436
LGA    F      57      F      57          2.165
LGA    T      58      T      58          1.121
LGA    L      59      L      59          0.840
LGA    E      60      E      60          2.008
LGA    A      61      A      61          3.940
LGA    H      62      -       -           -
LGA    I      63      H      62          4.833
LGA    N      64      I      63          1.049
LGA    Y      65      N      64          3.167
LGA    L      66      Y      65          1.927
LGA    H      67      L      66          2.824
LGA    E      68      H      67          3.241
LGA    -       -      E      68           -
LGA    V      69      V      69          2.936
LGA    K      70      K      70           #
LGA    L      71      L      71           #
LGA    G      72      G      72          2.976
LGA    T      73      T      73          3.939
LGA    E      74      E      74          2.822
LGA    V      75      V      75          3.302
LGA    W      76      W      76          1.016
LGA    V      77      V      77          1.731
LGA    Q      78      Q      78          3.926
LGA    T      79      T      79          4.456
LGA    Q      80      Q      80          3.586
LGA    I      81      I      81          3.502
LGA    L      82      -       -           -
LGA    G      83      L      82          2.184
LGA    F      84      G      83          2.037
LGA    D      85      -       -           -
LGA    R      86      -       -           -
LGA    K      87      F      84          3.786
LGA    R      88      D      85           #
LGA    -       -      R      86           -
LGA    -       -      K      87           -
LGA    -       -      R      88           -
LGA    L      89      L      89          1.412
LGA    H      90      H      90          3.462
LGA    V      91      V      91          3.908
LGA    Y      92      Y      92          2.294
LGA    H      93      H      93          2.938
LGA    S      94      S      94          1.907
LGA    L      95      L      95          1.399
LGA    H      96      H      96          1.116
LGA    R      97      R      97          2.679
LGA    A      98      A      98          4.395
LGA    G      99      G      99          4.584
LGA    F     100      F     100           #
LGA    D     101      D     101          2.026
LGA    E     102      E     102          1.553
LGA    V     103      V     103          1.227
LGA    L     104      L     104          2.233
LGA    A     105      A     105          4.182
LGA    A     106      A     106          2.900
LGA    S     107      S     107          1.354
LGA    E     108      E     108          2.909
LGA    Q     109      Q     109           #
LGA    M     110      M     110           #
LGA    L     111      L     111          2.512
LGA    L     112      L     112          2.616
LGA    H     113      H     113          1.878
LGA    V     114      V     114          2.562
LGA    D     115      D     115          4.000
LGA    L     116      L     116          4.386
LGA    A     117      Q     120          4.116
LGA    G     118      S     121           -
LGA    P     119      -       -           -
LGA    Q     120      A     122           #
LGA    S     121      -       -           -
LGA    A     122      -       -           -
LGA    P     123      -       -           -
LGA    F     124      P     123          5.290
LGA    G     125      F     124           #
LGA    H     126      G     125           -
LGA    T     127      H     126           -
LGA    -       -      T     127           -
LGA    -       -      T     128           -
LGA    T     128      V     129          5.156
LGA    V     129      -       -           -
LGA    C     130      -       -           -
LGA    R     131      C     130          5.336
LGA    L     132      R     131          4.351
LGA    N     133      L     132          3.534
LGA    H     134      N     133          3.382
LGA    L     135      H     134          2.181
LGA    V     136      L     135          2.409
LGA    -       -      V     136           -
LGA    E     137      E     137          2.476
LGA    Q     138      Q     138          4.399
LGA    Q     139      Q     139           -
LGA    E     140      E     140           -
LGA    G     141      G     141           -
LGA    A     142      A     142           -
LGA    Q     143      Q     143           -
LGA    A     144      A     144           -
LGA    P     145      P     145           -
LGA    Q     146      Q     146           -
LGA    Y     147      Y     147           -
LGA    M     148      M     148           -
LGA    G     149      G     149           -
LGA    R     150      R     150           -
LGA    T     151      T     151           -
LGA    I     152      I     152           -
LGA    K     153      K     153           -
LGA    L     154      L     154           -
LGA    P     155      P     155           -
LGA    A     156      A     156           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  156  153    5.0     99    2.96    76.77     36.888     3.237

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.391379 * X  +   0.761132 * Y  +   0.517204 * Z  +  45.390717
  Y_new =   0.795081 * X  +  -0.003289 * Y  +   0.606494 * Z  +  11.446962
  Z_new =   0.463323 * X  +   0.648589 * Y  +  -0.603875 * Z  +   5.807746 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.320508   -0.821084  [ DEG:   132.9554    -47.0447 ]
  Theta =  -0.481741   -2.659852  [ DEG:   -27.6017   -152.3983 ]
  Phi   =   2.028225   -1.113367  [ DEG:   116.2088    -63.7912 ]
 
# 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: T0364TS168_3                                  
REMARK     2: T0364.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0364TS168_3.T0364.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  156  153   5.0   99   2.96   76.77  36.888
REMARK  ---------------------------------------------------------- 
MOLECULE T0364TS168_3
PFRMAT TS
TARGET T0364
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      27.487   9.837  10.778  1.00 25.00           C
ATOM      2  CA  PRO     2      30.303  12.060  11.982  1.00 25.00           C
ATOM      3  CA  ALA     3      33.980  12.614  11.154  1.00 25.00           C
ATOM      4  CA  LEU     4      36.478  11.912   8.339  1.00 25.00           C
ATOM      5  CA  ILE     5      36.971  12.465   4.613  1.00 25.00           C
ATOM      6  CA  THR     6      38.187  11.976   1.003  1.00 25.00           C
ATOM      7  CA  TYR     7      39.621   9.171  -1.153  1.00 25.00           C
ATOM      8  CA  ARG     8      41.016   6.286  -3.197  1.00 25.00           C
ATOM      9  CA  THR     9      42.715   2.954  -3.552  1.00 25.00           C
ATOM     10  CA  THR    10      44.954   1.018  -5.882  1.00 25.00           C
ATOM     11  CA  VAL    11      46.680  -2.269  -5.045  1.00 25.00           C
ATOM     12  CA  GLN    12      44.247  -4.681  -6.700  1.00 25.00           C
ATOM     13  CA  GLU    13      45.459  -7.584  -8.752  1.00 25.00           C
ATOM     14  CA  ASP    14      48.950  -6.289  -7.860  1.00 25.00           C
ATOM     15  CA  TRP    15      48.529  -7.553  -4.270  1.00 25.00           C
ATOM     16  CA  VAL    16      48.047 -11.306  -3.581  1.00 25.00           C
ATOM     17  CA  ASP    17      51.029 -13.264  -4.974  1.00 25.00           C
ATOM     18  CA  TYR    18      52.186 -16.915  -4.609  1.00 25.00           C
ATOM     19  CA  ASN    19      51.369 -18.191  -1.150  1.00 25.00           C
ATOM     20  CA  GLY    20      53.402 -16.225   1.476  1.00 25.00           C
ATOM     21  CA  HIS    21      50.788 -13.564   2.370  1.00 25.00           C
ATOM     22  CA  LEU    22      48.301 -10.784   2.013  1.00 25.00           C
ATOM     23  CA  ARG    23      50.901  -8.830  -0.040  1.00 25.00           C
ATOM     24  CA  ASP    24      51.335  -6.572   2.989  1.00 25.00           C
ATOM     25  CA  ALA    25      53.860  -4.035   1.626  1.00 25.00           C
ATOM     26  CA  PHE    26      51.545  -3.283  -1.331  1.00 25.00           C
ATOM     27  CA  TYR    27      48.603  -2.779   1.069  1.00 25.00           C
ATOM     28  CA  LEU    28      50.719  -0.404   3.202  1.00 25.00           C
ATOM     29  CA  LEU    29      51.704   1.569   0.071  1.00 25.00           C
ATOM     30  CA  ILE    30      48.025   1.812  -0.965  1.00 25.00           C
ATOM     31  CA  PHE    31      47.096   3.056   2.535  1.00 25.00           C
ATOM     32  CA  SER    32      49.877   5.685   2.366  1.00 25.00           C
ATOM     33  CA  TYR    33      48.619   6.829  -1.066  1.00 25.00           C
ATOM     34  CA  ALA    34      45.054   7.106   0.305  1.00 25.00           C
ATOM     35  CA  THR    35      46.328   9.168   3.270  1.00 25.00           C
ATOM     36  CA  ASP    36      48.230  11.477   0.879  1.00 25.00           C
ATOM     37  CA  ALA    37      45.074  11.915  -1.246  1.00 25.00           C
ATOM     38  CA  LEU    38      43.047  12.756   1.893  1.00 25.00           C
ATOM     39  CA  MET    39      45.686  15.328   2.937  1.00 25.00           C
ATOM     40  CA  ASP    40      45.575  16.896  -0.554  1.00 25.00           C
ATOM     41  CA  ARG    41      41.753  17.082  -0.376  1.00 25.00           C
ATOM     42  CA  ILE    42      41.970  18.751   3.064  1.00 25.00           C
ATOM     43  CA  GLY    43      44.918  19.855   5.201  1.00 25.00           C
ATOM     44  CA  LEU    44      46.785  17.566   7.505  1.00 25.00           C
ATOM     45  CA  ASP    45      50.118  17.121   5.767  1.00 25.00           C
ATOM     46  CA  ALA    46      50.958  19.951   3.325  1.00 25.00           C
ATOM     47  CA  ASP    47      51.667  23.713   3.225  1.00 25.00           C
ATOM     48  CA  SER    48      48.497  24.390   5.264  1.00 25.00           C
ATOM     49  CA  ARG    49      49.557  21.754   7.833  1.00 25.00           C
ATOM     50  CA  GLY    50      53.028  23.355   8.079  1.00 25.00           C
ATOM     51  CA  GLN    51      51.431  26.797   8.602  1.00 25.00           C
ATOM     52  CA  SER    52      54.637  28.567   7.513  1.00 25.00           C
ATOM     53  CA  GLY    53      56.435  25.894   5.384  1.00 25.00           C
ATOM     54  CA  ASN    54      58.138  23.056   7.276  1.00 25.00           C
ATOM     55  CA  SER    55      56.783  20.205   5.149  1.00 25.00           C
ATOM     56  CA  LEU    56      55.662  16.617   4.726  1.00 25.00           C
ATOM     57  CA  PHE    57      56.891  13.033   5.191  1.00 25.00           C
ATOM     58  CA  THR    58      57.250   9.808   7.149  1.00 25.00           C
ATOM     59  CA  LEU    59      58.358   9.454  10.789  1.00 25.00           C
ATOM     60  CA  GLU    60      55.471   7.302  12.155  1.00 25.00           C
ATOM     61  CA  ALA    61      54.048   6.250   8.748  1.00 25.00           C
ATOM     62  CA  HIS    62      53.096   3.097  10.672  1.00 25.00           C
ATOM     63  CA  ILE    63      50.531   0.804   8.960  1.00 25.00           C
ATOM     64  CA  ASN    64      48.714  -1.363  11.504  1.00 25.00           C
ATOM     65  CA  TYR    65      46.490  -3.549   9.316  1.00 25.00           C
ATOM     66  CA  LEU    66      43.765  -6.063  10.033  1.00 25.00           C
ATOM     67  CA  HIS    67      40.387  -6.854   8.576  1.00 25.00           C
ATOM     68  CA  GLU    68      39.170  -7.037   4.991  1.00 25.00           C
ATOM     69  CA  VAL    69      39.094  -5.168   1.717  1.00 25.00           C
ATOM     70  CA  LYS    70      35.687  -6.565   0.618  1.00 25.00           C
ATOM     71  CA  LEU    71      36.520  -5.849  -3.059  1.00 25.00           C
ATOM     72  CA  GLY    72      37.266  -2.932  -5.385  1.00 25.00           C
ATOM     73  CA  THR    73      34.934  -1.033  -3.009  1.00 25.00           C
ATOM     74  CA  GLU    74      38.136   0.197  -1.350  1.00 25.00           C
ATOM     75  CA  VAL    75      40.928   1.346   0.918  1.00 25.00           C
ATOM     76  CA  TRP    76      39.105   4.704   1.415  1.00 25.00           C
ATOM     77  CA  VAL    77      41.163   7.158   3.456  1.00 25.00           C
ATOM     78  CA  GLN    78      42.023   9.831   6.030  1.00 25.00           C
ATOM     79  CA  THR    79      41.568  13.646   6.336  1.00 25.00           C
ATOM     80  CA  GLN    80      42.313  14.234  10.027  1.00 25.00           C
ATOM     81  CA  ILE    81      44.180  17.045  11.744  1.00 25.00           C
ATOM     82  CA  LEU    82      44.983  16.091  15.323  1.00 25.00           C
ATOM     83  CA  GLY    83      47.132  13.711  17.347  1.00 25.00           C
ATOM     84  CA  PHE    84      48.633  16.427  19.507  1.00 25.00           C
ATOM     85  CA  ASP    85      50.862  15.283  22.383  1.00 25.00           C
ATOM     86  CA  ARG    86      54.170  14.660  20.669  1.00 25.00           C
ATOM     87  CA  LYS    87      53.516  17.344  17.984  1.00 25.00           C
ATOM     88  CA  ARG    88      52.601  15.034  15.121  1.00 25.00           C
ATOM     89  CA  LEU    89      50.915  16.192  11.869  1.00 25.00           C
ATOM     90  CA  HIS    90      48.063  13.632  12.167  1.00 25.00           C
ATOM     91  CA  VAL    91      46.760  12.037   9.007  1.00 25.00           C
ATOM     92  CA  TYR    92      45.123   8.943  10.565  1.00 25.00           C
ATOM     93  CA  HIS    93      41.606   7.582  10.542  1.00 25.00           C
ATOM     94  CA  SER    94      42.014   4.868   7.933  1.00 25.00           C
ATOM     95  CA  LEU    95      39.640   2.630   5.945  1.00 25.00           C
ATOM     96  CA  HIS    96      36.105   1.531   4.942  1.00 25.00           C
ATOM     97  CA  ARG    97      33.759  -1.494   5.058  1.00 25.00           C
ATOM     98  CA  ALA    98      30.448  -3.304   5.563  1.00 25.00           C
ATOM     99  CA  GLY    99      27.807  -4.007   8.232  1.00 25.00           C
ATOM    100  CA  PHE   100      28.294  -1.695  11.285  1.00 25.00           C
ATOM    101  CA  ASP   101      31.932  -0.759  10.586  1.00 25.00           C
ATOM    102  CA  GLU   102      34.940  -2.963   9.750  1.00 25.00           C
ATOM    103  CA  VAL   103      38.207  -1.167   8.993  1.00 25.00           C
ATOM    104  CA  LEU   104      41.286  -2.084   6.957  1.00 25.00           C
ATOM    105  CA  ALA   105      44.047  -0.148   5.261  1.00 25.00           C
ATOM    106  CA  ALA   106      45.505   1.305   8.407  1.00 25.00           C
ATOM    107  CA  SER   107      47.062   4.020  10.653  1.00 25.00           C
ATOM    108  CA  GLU   108      49.621   6.660  11.449  1.00 25.00           C
ATOM    109  CA  GLN   109      49.136   7.107   7.706  1.00 25.00           C
ATOM    110  CA  MET   110      51.305  10.182   7.058  1.00 25.00           C
ATOM    111  CA  LEU   111      52.618  11.672  10.223  1.00 25.00           C
ATOM    112  CA  LEU   112      55.379  14.221   9.823  1.00 25.00           C
ATOM    113  CA  HIS   113      55.863  17.972   9.798  1.00 25.00           C
ATOM    114  CA  VAL   114      59.450  17.507   8.521  1.00 25.00           C
ATOM    115  CA  ASP   115      62.398  19.890   8.616  1.00 25.00           C
ATOM    116  CA  LEU   116      64.598  20.942   5.697  1.00 25.00           C
ATOM    117  CA  ALA   117      67.218  22.990   7.429  1.00 25.00           C
ATOM    118  CA  GLY   118      68.072  25.668   9.920  1.00 25.00           C
ATOM    119  CA  PRO   119      67.066  26.310  13.530  1.00 25.00           C
ATOM    120  CA  GLN   120      65.240  24.895  16.549  1.00 25.00           C
ATOM    121  CA  SER   121      62.229  27.151  15.923  1.00 25.00           C
ATOM    122  CA  ALA   122      60.584  24.912  18.439  1.00 25.00           C
ATOM    123  CA  PRO   123      56.816  24.803  18.874  1.00 25.00           C
ATOM    124  CA  PHE   124      54.488  23.483  16.118  1.00 25.00           C
ATOM    125  CA  GLY   125      52.506  26.679  16.931  1.00 25.00           C
ATOM    126  CA  HIS   126      51.106  24.698  19.859  1.00 25.00           C
ATOM    127  CA  THR   127      48.139  26.943  20.768  1.00 25.00           C
ATOM    128  CA  THR   128      47.810  28.029  17.110  1.00 25.00           C
ATOM    129  CA  VAL   129      47.871  24.367  15.991  1.00 25.00           C
ATOM    130  CA  CYS   130      45.159  23.514  18.558  1.00 25.00           C
ATOM    131  CA  ARG   131      43.019  26.432  17.304  1.00 25.00           C
ATOM    132  CA  LEU   132      43.454  25.231  13.693  1.00 25.00           C
ATOM    133  CA  ASN   133      42.422  21.690  14.720  1.00 25.00           C
ATOM    134  CA  HIS   134      39.325  23.080  16.493  1.00 25.00           C
ATOM    135  CA  LEU   135      38.412  25.100  13.369  1.00 25.00           C
ATOM    136  CA  VAL   136      38.805  21.968  11.201  1.00 25.00           C
ATOM    137  CA  GLU   137      36.561  19.996  13.596  1.00 25.00           C
ATOM    138  CA  GLN   138      33.927  22.773  13.453  1.00 25.00           C
ATOM    139  CA  GLN   139      34.066  22.740   9.627  1.00 25.00           C
ATOM    140  CA  GLU   140      31.357  25.404   9.540  1.00 25.00           C
ATOM    141  CA  GLY   141      31.160  28.690  11.386  1.00 25.00           C
ATOM    142  CA  ALA   142      30.648  31.607   9.012  1.00 25.00           C
ATOM    143  CA  GLN   143      27.077  30.834   7.962  1.00 25.00           C
ATOM    144  CA  ALA   144      27.113  29.458   4.431  1.00 25.00           C
ATOM    145  CA  PRO   145      27.592  31.829   1.507  1.00 25.00           C
ATOM    146  CA  GLN   146      26.723  28.995  -0.947  1.00 25.00           C
ATOM    147  CA  TYR   147      26.979  30.163  -4.558  1.00 25.00           C
ATOM    148  CA  MET   148      29.095  33.274  -3.931  1.00 25.00           C
ATOM    149  CA  GLY   149      31.460  31.892  -6.541  1.00 25.00           C
ATOM    150  CA  ARG   150      33.634  31.803  -9.695  1.00 25.00           C
ATOM    151  CA  THR   151      34.956  28.309  -8.977  1.00 25.00           C
ATOM    152  CA  ILE   152      36.708  25.732 -11.141  1.00 25.00           C
ATOM    153  CA  LYS   153      40.326  25.142 -11.884  1.00 25.00           C
ATOM    154  CA  LEU   154      42.482  22.288 -10.627  1.00 25.00           C
ATOM    155  CA  PRO   155      45.076  21.350 -13.192  1.00 25.00           C
ATOM    156  CA  ALA   156      47.897  19.157 -11.900  1.00 25.00           C
TER
END
