
#######################################################
#                                                     #
#                        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  160 (  160),  selected  160 , name T0374TS393_5
# Molecule2: number of CA atoms  160 ( 2486),  selected  160 , name T0374.pdb
# PARAMETERS: T0374TS393_5.T0374.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           #
LGA    Q       2      Q       2          1.831
LGA    L       3      L       3          1.561
LGA    S       4      S       4          1.569
LGA    H       5      H       5          1.637
LGA    R       6      R       6          2.562
LGA    P       7      P       7          1.891
LGA    A       8      A       8          2.837
LGA    E       9      E       9          4.732
LGA    T      10      T      10           #
LGA    G      11      G      11          1.540
LGA    D      12      D      12          0.856
LGA    L      13      L      13          2.042
LGA    E      14      E      14          2.617
LGA    T      15      T      15          1.927
LGA    V      16      V      16          2.375
LGA    A      17      A      17          2.981
LGA    G      18      G      18          2.767
LGA    F      19      F      19          2.548
LGA    P      20      P      20          3.715
LGA    Q      21      -       -           -
LGA    D      22      Q      21          1.989
LGA    R      23      D      22          2.263
LGA    D      24      R      23          2.617
LGA    E      25      D      24          4.426
LGA    L      26      E      25          3.126
LGA    F      27      L      26          3.321
LGA    Y      28      F      27          3.897
LGA    C      29      Y      28          4.076
LGA    -       -      C      29           -
LGA    -       -      Y      30           -
LGA    Y      30      P      31           #
LGA    P      31      K      32           -
LGA    K      32      -       -           -
LGA    A      33      -       -           -
LGA    I      34      A      33           #
LGA    W      35      I      34          3.874
LGA    P      36      W      35           -
LGA    F      37      P      36           -
LGA    S      38      F      37           #
LGA    -       -      S      38           -
LGA    -       -      V      39           -
LGA    V      39      A      40          2.858
LGA    A      40      Q      41          4.956
LGA    Q      41      L      42           #
LGA    L      42      A      43          3.648
LGA    A      43      A      44          3.612
LGA    -       -      A      45           -
LGA    A      44      I      46          5.113
LGA    A      45      A      47          1.948
LGA    I      46      E      48           #
LGA    A      47      -       -           -
LGA    E      48      -       -           -
LGA    R      49      R      49           #
LGA    R      50      R      50          2.746
LGA    G      51      G      51          2.199
LGA    S      52      S      52          1.969
LGA    T      53      T      53          1.014
LGA    V      54      V      54          2.050
LGA    A      55      A      55          1.688
LGA    V      56      V      56          1.106
LGA    H      57      H      57          1.228
LGA    D      58      D      58          2.339
LGA    G      59      G      59          2.188
LGA    Q      60      Q      60          1.112
LGA    V      61      V      61          2.454
LGA    L      62      L      62          2.480
LGA    G      63      G      63          1.936
LGA    F      64      F      64          2.124
LGA    A      65      A      65          1.089
LGA    N      66      N      66          1.864
LGA    F      67      F      67          1.289
LGA    Y      68      Y      68          3.734
LGA    Q      69      Q      69          3.445
LGA    W      70      W      70          3.936
LGA    Q      71      -       -           -
LGA    H      72      -       -           -
LGA    G      73      Q      71          3.741
LGA    D      74      H      72          4.683
LGA    -       -      G      73           -
LGA    -       -      D      74           -
LGA    F      75      F      75          2.597
LGA    C      76      C      76          0.973
LGA    A      77      A      77          1.789
LGA    L      78      L      78          1.629
LGA    G      79      G      79          1.889
LGA    N      80      N      80          3.089
LGA    M      81      M      81          2.645
LGA    M      82      M      82          3.485
LGA    V      83      V      83          3.174
LGA    A      84      A      84          2.301
LGA    P      85      P      85          1.664
LGA    A      86      A      86          2.467
LGA    A      87      A      87          2.399
LGA    R      88      R      88          1.470
LGA    G      89      G      89          2.021
LGA    L      90      L      90          2.371
LGA    G      91      G      91          2.064
LGA    V      92      V      92          1.186
LGA    A      93      A      93          1.351
LGA    R      94      R      94          0.971
LGA    Y      95      Y      95          0.850
LGA    L      96      L      96          1.143
LGA    I      97      I      97          1.159
LGA    G      98      G      98          1.214
LGA    V      99      V      99          1.090
LGA    M     100      M     100          1.037
LGA    E     101      E     101          1.065
LGA    N     102      N     102          1.347
LGA    L     103      L     103          1.107
LGA    A     104      A     104          0.999
LGA    R     105      R     105          1.368
LGA    E     106      E     106          1.149
LGA    Q     107      Q     107          2.234
LGA    Y     108      Y     108          3.045
LGA    K     109      K     109          3.128
LGA    A     110      A     110          2.218
LGA    R     111      R     111          2.324
LGA    L     112      L     112          1.541
LGA    M     113      M     113          0.466
LGA    K     114      K     114          2.960
LGA    I     115      I     115          3.067
LGA    S     116      S     116          2.875
LGA    C     117      C     117          2.691
LGA    F     118      F     118          3.427
LGA    N     119      N     119          2.361
LGA    A     120      A     120          1.878
LGA    N     121      N     121          1.687
LGA    A     122      A     122          0.690
LGA    A     123      A     123          0.763
LGA    G     124      G     124          0.664
LGA    L     125      L     125          0.617
LGA    L     126      L     126          0.844
LGA    L     127      L     127          1.336
LGA    Y     128      Y     128          1.302
LGA    T     129      T     129          0.698
LGA    Q     130      Q     130          1.185
LGA    L     131      L     131          1.341
LGA    G     132      G     132          0.913
LGA    Y     133      Y     133          1.266
LGA    Q     134      Q     134          1.255
LGA    P     135      P     135          1.198
LGA    R     136      R     136          2.970
LGA    A     137      A     137          2.387
LGA    I     138      I     138          2.417
LGA    A     139      A     139          2.734
LGA    E     140      E     140          1.157
LGA    R     141      R     141          2.076
LGA    H     142      H     142          2.698
LGA    D     143      D     143           -
LGA    -       -      P     144           -
LGA    P     144      D     145           #
LGA    D     145      G     146          2.656
LGA    G     146      R     147          1.775
LGA    R     147      R     148          2.834
LGA    R     148      V     149          1.456
LGA    V     149      A     150          3.931
LGA    A     150      L     151          0.471
LGA    L     151      I     152          4.638
LGA    I     152      Q     153          2.010
LGA    Q     153      M     154          4.876
LGA    M     154      D     155          2.328
LGA    D     155      K     156          2.652
LGA    K     156      P     157          2.356
LGA    P     157      -       -           -
LGA    L     158      L     158          3.776
LGA    E     159      E     159          3.651
LGA    P     160      P     160           #

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  160  160    5.0    138    2.47    81.16     59.006     5.378

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.238004 * X  +   0.606288 * Y  +   0.758794 * Z  +  16.369387
  Y_new =  -0.868290 * X  +   0.482899 * Y  +  -0.113496 * Z  +  11.881348
  Z_new =  -0.435233 * X  +  -0.631841 * Y  +   0.641365 * Z  +   9.208050 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.777918    2.363675  [ DEG:   -44.5714    135.4286 ]
  Theta =   0.450297    2.691296  [ DEG:    25.8001    154.1999 ]
  Phi   =  -1.303261    1.838332  [ DEG:   -74.6714    105.3286 ]
 
# 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: T0374TS393_5                                  
REMARK     2: T0374.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0374TS393_5.T0374.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  160  160   5.0  138   2.47   81.16  59.006
REMARK  ---------------------------------------------------------- 
MOLECULE T0374TS393_5
PFRMAT TS
TARGET T0374
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      23.008  34.098   5.619  1.00 25.00           C
ATOM      2  CA  GLN     2      21.606  31.284   7.700  1.00 25.00           C
ATOM      3  CA  LEU     3      21.508  27.773   9.234  1.00 25.00           C
ATOM      4  CA  SER     4      17.833  27.218   9.861  1.00 25.00           C
ATOM      5  CA  HIS     5      15.100  24.723  10.784  1.00 25.00           C
ATOM      6  CA  ARG     6      12.360  25.633   8.317  1.00 25.00           C
ATOM      7  CA  PRO     7       9.335  24.525  10.383  1.00 25.00           C
ATOM      8  CA  ALA     8       7.156  24.269   7.354  1.00 25.00           C
ATOM      9  CA  GLU     9       5.346  27.341   6.184  1.00 25.00           C
ATOM     10  CA  THR    10       4.043  26.983   2.646  1.00 25.00           C
ATOM     11  CA  GLY    11       5.019  25.323  -0.633  1.00 25.00           C
ATOM     12  CA  ASP    12       7.245  22.302   0.054  1.00 25.00           C
ATOM     13  CA  LEU    13       6.256  18.788   1.209  1.00 25.00           C
ATOM     14  CA  GLU    14       7.261  17.359  -2.200  1.00 25.00           C
ATOM     15  CA  THR    15      10.634  19.159  -1.988  1.00 25.00           C
ATOM     16  CA  VAL    16      11.192  17.751   1.530  1.00 25.00           C
ATOM     17  CA  ALA    17      10.359  14.229   0.279  1.00 25.00           C
ATOM     18  CA  GLY    18      12.825  14.649  -2.622  1.00 25.00           C
ATOM     19  CA  PHE    19      15.855  13.437  -0.700  1.00 25.00           C
ATOM     20  CA  PRO    20      14.111  10.056  -0.700  1.00 25.00           C
ATOM     21  CA  GLN    21      14.974   9.823  -4.362  1.00 25.00           C
ATOM     22  CA  ASP    22      17.131  10.950  -7.263  1.00 25.00           C
ATOM     23  CA  ARG    23      19.238   8.011  -8.347  1.00 25.00           C
ATOM     24  CA  ASP    24      18.724   5.253  -5.726  1.00 25.00           C
ATOM     25  CA  GLU    25      22.433   5.663  -4.863  1.00 25.00           C
ATOM     26  CA  LEU    26      21.596   8.597  -2.550  1.00 25.00           C
ATOM     27  CA  PHE    27      18.888   6.503  -0.833  1.00 25.00           C
ATOM     28  CA  TYR    28      19.448   4.221   2.229  1.00 25.00           C
ATOM     29  CA  CYS    29      16.784   1.548   1.497  1.00 25.00           C
ATOM     30  CA  TYR    30      15.292   1.627  -2.032  1.00 25.00           C
ATOM     31  CA  PRO    31      14.865   0.072  -5.454  1.00 25.00           C
ATOM     32  CA  LYS    32      12.042   1.013  -7.833  1.00 25.00           C
ATOM     33  CA  ALA    33       8.305   0.187  -7.743  1.00 25.00           C
ATOM     34  CA  ILE    34       8.048   0.511  -3.968  1.00 25.00           C
ATOM     35  CA  TRP    35       8.600   0.373  -0.169  1.00 25.00           C
ATOM     36  CA  PRO    36       4.943   1.041   0.701  1.00 25.00           C
ATOM     37  CA  PHE    37       5.551   4.760   0.201  1.00 25.00           C
ATOM     38  CA  SER    38       2.404   6.241  -1.217  1.00 25.00           C
ATOM     39  CA  VAL    39       3.403   9.729  -0.205  1.00 25.00           C
ATOM     40  CA  ALA    40      -0.037   9.941   1.464  1.00 25.00           C
ATOM     41  CA  GLN    41       1.344   8.204   4.585  1.00 25.00           C
ATOM     42  CA  LEU    42       4.280  10.659   4.684  1.00 25.00           C
ATOM     43  CA  ALA    43       1.857  13.609   4.381  1.00 25.00           C
ATOM     44  CA  ALA    44      -0.262  12.193   7.239  1.00 25.00           C
ATOM     45  CA  ALA    45       2.875  11.799   9.402  1.00 25.00           C
ATOM     46  CA  ILE    46       3.881  15.416   8.645  1.00 25.00           C
ATOM     47  CA  ALA    47       0.371  16.618   9.597  1.00 25.00           C
ATOM     48  CA  GLU    48       0.561  14.649  12.876  1.00 25.00           C
ATOM     49  CA  ARG    49       1.539  16.039  16.281  1.00 25.00           C
ATOM     50  CA  ARG    50       4.308  13.441  16.037  1.00 25.00           C
ATOM     51  CA  GLY    51       7.066  15.435  14.449  1.00 25.00           C
ATOM     52  CA  SER    52       9.332  17.479  12.109  1.00 25.00           C
ATOM     53  CA  THR    53      11.340  19.305   9.406  1.00 25.00           C
ATOM     54  CA  VAL    54      12.421  20.188   5.821  1.00 25.00           C
ATOM     55  CA  ALA    55      15.534  22.286   6.233  1.00 25.00           C
ATOM     56  CA  VAL    56      16.615  25.659   4.698  1.00 25.00           C
ATOM     57  CA  HIS    57      18.495  28.865   3.752  1.00 25.00           C
ATOM     58  CA  ASP    58      17.272  31.654   1.568  1.00 25.00           C
ATOM     59  CA  GLY    59      16.145  30.005  -1.720  1.00 25.00           C
ATOM     60  CA  GLN    60      16.539  26.299  -0.966  1.00 25.00           C
ATOM     61  CA  VAL    61      14.620  23.013  -0.918  1.00 25.00           C
ATOM     62  CA  LEU    62      17.675  20.878  -0.533  1.00 25.00           C
ATOM     63  CA  GLY    63      18.063  18.859   2.645  1.00 25.00           C
ATOM     64  CA  PHE    64      15.930  16.638   4.924  1.00 25.00           C
ATOM     65  CA  ALA    65      14.830  15.257   8.313  1.00 25.00           C
ATOM     66  CA  ASN    66      11.650  13.511   9.638  1.00 25.00           C
ATOM     67  CA  PHE    67      11.159  12.605  13.308  1.00 25.00           C
ATOM     68  CA  TYR    68       9.166  10.856  16.038  1.00 25.00           C
ATOM     69  CA  GLN    69       7.614   9.390  19.160  1.00 25.00           C
ATOM     70  CA  TRP    70       9.244   5.994  18.534  1.00 25.00           C
ATOM     71  CA  GLN    71       6.912   4.080  20.828  1.00 25.00           C
ATOM     72  CA  HIS    72       6.161   3.272  24.486  1.00 25.00           C
ATOM     73  CA  GLY    73       8.451   5.775  26.310  1.00 25.00           C
ATOM     74  CA  ASP    74       9.758   8.096  23.545  1.00 25.00           C
ATOM     75  CA  PHE    75      13.201   6.707  22.672  1.00 25.00           C
ATOM     76  CA  CYS    76      12.994   9.226  19.778  1.00 25.00           C
ATOM     77  CA  ALA    77      14.257  10.010  16.276  1.00 25.00           C
ATOM     78  CA  LEU    78      16.372  11.308  13.384  1.00 25.00           C
ATOM     79  CA  GLY    79      14.865   9.009  10.796  1.00 25.00           C
ATOM     80  CA  ASN    80      16.557   9.678   7.501  1.00 25.00           C
ATOM     81  CA  MET    81      18.991  12.432   8.425  1.00 25.00           C
ATOM     82  CA  MET    82      20.188  13.548   5.028  1.00 25.00           C
ATOM     83  CA  VAL    83      21.514  14.278   1.495  1.00 25.00           C
ATOM     84  CA  ALA    84      20.878  16.456  -1.601  1.00 25.00           C
ATOM     85  CA  PRO    85      23.392  15.903  -4.402  1.00 25.00           C
ATOM     86  CA  ALA    86      22.416  19.370  -5.702  1.00 25.00           C
ATOM     87  CA  ALA    87      24.227  21.013  -2.756  1.00 25.00           C
ATOM     88  CA  ARG    88      25.866  18.779  -0.108  1.00 25.00           C
ATOM     89  CA  GLY    89      28.757  19.742   2.179  1.00 25.00           C
ATOM     90  CA  LEU    90      27.353  23.235   2.474  1.00 25.00           C
ATOM     91  CA  GLY    91      27.260  22.581   6.270  1.00 25.00           C
ATOM     92  CA  VAL    92      23.690  21.312   6.021  1.00 25.00           C
ATOM     93  CA  ALA    93      23.018  17.707   7.125  1.00 25.00           C
ATOM     94  CA  ARG    94      24.974  18.309  10.363  1.00 25.00           C
ATOM     95  CA  TYR    95      22.957  21.499  11.017  1.00 25.00           C
ATOM     96  CA  LEU    96      19.692  19.581  10.436  1.00 25.00           C
ATOM     97  CA  ILE    97      20.833  16.851  12.867  1.00 25.00           C
ATOM     98  CA  GLY    98      21.692  19.510  15.487  1.00 25.00           C
ATOM     99  CA  VAL    99      18.242  21.109  15.030  1.00 25.00           C
ATOM    100  CA  MET   100      16.572  17.689  15.453  1.00 25.00           C
ATOM    101  CA  GLU   101      18.592  17.070  18.647  1.00 25.00           C
ATOM    102  CA  ASN   102      17.551  20.498  19.998  1.00 25.00           C
ATOM    103  CA  LEU   103      13.883  19.720  19.218  1.00 25.00           C
ATOM    104  CA  ALA   104      14.188  16.355  21.021  1.00 25.00           C
ATOM    105  CA  ARG   105      15.740  18.096  24.059  1.00 25.00           C
ATOM    106  CA  GLU   106      12.886  20.650  24.084  1.00 25.00           C
ATOM    107  CA  GLN   107       9.584  20.460  22.198  1.00 25.00           C
ATOM    108  CA  TYR   108       8.089  17.938  24.700  1.00 25.00           C
ATOM    109  CA  LYS   109       8.971  14.586  26.286  1.00 25.00           C
ATOM    110  CA  ALA   110      11.916  12.676  24.865  1.00 25.00           C
ATOM    111  CA  ARG   111      14.709  11.204  26.961  1.00 25.00           C
ATOM    112  CA  LEU   112      16.787  10.105  23.986  1.00 25.00           C
ATOM    113  CA  MET   113      18.116  10.759  20.506  1.00 25.00           C
ATOM    114  CA  LYS   114      19.371   9.573  17.106  1.00 25.00           C
ATOM    115  CA  ILE   115      21.131   9.687  13.767  1.00 25.00           C
ATOM    116  CA  SER   116      20.300   6.700  11.481  1.00 25.00           C
ATOM    117  CA  CYS   117      21.026   5.787   7.874  1.00 25.00           C
ATOM    118  CA  PHE   118      23.926   3.763   9.376  1.00 25.00           C
ATOM    119  CA  ASN   119      26.917   1.612   8.280  1.00 25.00           C
ATOM    120  CA  ALA   120      27.076   0.806   4.599  1.00 25.00           C
ATOM    121  CA  ASN   121      27.296   4.529   3.725  1.00 25.00           C
ATOM    122  CA  ALA   122      29.797   5.999   6.135  1.00 25.00           C
ATOM    123  CA  ALA   123      28.925   9.727   6.212  1.00 25.00           C
ATOM    124  CA  GLY   124      25.913   9.002   8.463  1.00 25.00           C
ATOM    125  CA  LEU   125      28.133   6.946  10.812  1.00 25.00           C
ATOM    126  CA  LEU   126      30.676   9.806  10.953  1.00 25.00           C
ATOM    127  CA  LEU   127      27.875  12.288  11.763  1.00 25.00           C
ATOM    128  CA  TYR   128      26.606   9.987  14.549  1.00 25.00           C
ATOM    129  CA  THR   129      30.149   9.724  15.978  1.00 25.00           C
ATOM    130  CA  GLN   130      30.489  13.538  15.903  1.00 25.00           C
ATOM    131  CA  LEU   131      27.546  14.584  18.045  1.00 25.00           C
ATOM    132  CA  GLY   132      28.697  12.077  20.688  1.00 25.00           C
ATOM    133  CA  TYR   133      25.807   9.757  19.700  1.00 25.00           C
ATOM    134  CA  GLN   134      26.796   6.123  20.391  1.00 25.00           C
ATOM    135  CA  PRO   135      25.953   2.783  18.768  1.00 25.00           C
ATOM    136  CA  ARG   136      24.794  -0.604  17.436  1.00 25.00           C
ATOM    137  CA  ALA   137      21.341  -2.329  17.520  1.00 25.00           C
ATOM    138  CA  ILE   138      21.158  -4.485  14.371  1.00 25.00           C
ATOM    139  CA  ALA   139      17.759  -4.091  12.669  1.00 25.00           C
ATOM    140  CA  GLU   140      19.002  -6.033   9.643  1.00 25.00           C
ATOM    141  CA  ARG   141      15.571  -5.654   8.047  1.00 25.00           C
ATOM    142  CA  HIS   142      15.776  -8.067   5.152  1.00 25.00           C
ATOM    143  CA  ASP   143      13.932 -10.981   3.654  1.00 25.00           C
ATOM    144  CA  PRO   144      14.863 -10.369  -0.033  1.00 25.00           C
ATOM    145  CA  ASP   145      18.537  -9.933  -0.711  1.00 25.00           C
ATOM    146  CA  GLY   146      20.377  -6.617  -0.972  1.00 25.00           C
ATOM    147  CA  ARG   147      22.863  -6.820   1.919  1.00 25.00           C
ATOM    148  CA  ARG   148      22.801  -3.881   4.224  1.00 25.00           C
ATOM    149  CA  VAL   149      22.483  -0.744   6.308  1.00 25.00           C
ATOM    150  CA  ALA   150      21.513  -0.894   9.960  1.00 25.00           C
ATOM    151  CA  LEU   151      19.406   1.695  11.848  1.00 25.00           C
ATOM    152  CA  ILE   152      20.852   3.175  15.026  1.00 25.00           C
ATOM    153  CA  GLN   153      18.387   4.740  17.465  1.00 25.00           C
ATOM    154  CA  MET   154      20.866   4.914  20.272  1.00 25.00           C
ATOM    155  CA  ASP   155      21.708   7.749  22.588  1.00 25.00           C
ATOM    156  CA  LYS   156      22.293   8.818  26.189  1.00 25.00           C
ATOM    157  CA  PRO   157      24.496  11.066  28.320  1.00 25.00           C
ATOM    158  CA  LEU   158      21.899  13.691  29.277  1.00 25.00           C
ATOM    159  CA  GLU   159      22.729  16.232  31.904  1.00 25.00           C
ATOM    160  CA  PRO   160      23.748  19.843  31.352  1.00 25.00           C
TER
END
