
#######################################################
#                                                     #
#                        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  165 (  165),  selected  165 , name T0308TS393_4
# Molecule2: number of CA atoms  165 ( 1274),  selected  165 , name T0308
# PARAMETERS: T0308TS393_4.T0308  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    E       1      E       1          1.624
LGA    V       2      V       2          1.392
LGA    H       3      H       3          1.380
LGA    V       4      V       4          1.138
LGA    L       5      L       5          1.068
LGA    C       6      C       6          1.044
LGA    L       7      L       7          0.700
LGA    G       8      G       8          0.453
LGA    L       9      L       9          1.451
LGA    D      10      D      10          0.926
LGA    N      11      N      11          0.577
LGA    S      12      S      12          0.742
LGA    G      13      G      13          0.268
LGA    K      14      K      14          0.347
LGA    T      15      T      15          0.627
LGA    T      16      T      16          1.111
LGA    I      17      I      17          0.749
LGA    I      18      I      18          0.779
LGA    N      19      N      19          1.050
LGA    K      20      K      20          1.076
LGA    L      21      L      21          1.099
LGA    K      22      K      22          1.993
LGA    P      23      P      23          1.788
LGA    -       -      S      24           -
LGA    S      24      N      25          3.744
LGA    N      25      A      26          3.127
LGA    A      26      Q      27          2.806
LGA    Q      27      S      28          3.330
LGA    S      28      Q      29          2.715
LGA    Q      29      N      30          1.548
LGA    N      30      I      31          4.532
LGA    I      31      L      32          2.855
LGA    L      32      -       -           -
LGA    P      33      P      33          0.805
LGA    T      34      T      34          1.009
LGA    I      35      I      35          1.042
LGA    G      36      G      36          2.707
LGA    F      37      F      37          1.109
LGA    S      38      S      38          1.250
LGA    I      39      I      39          0.556
LGA    E      40      E      40          1.109
LGA    K      41      K      41          2.999
LGA    F      42      F      42          2.961
LGA    K      43      K      43          2.476
LGA    S      44      S      44          3.533
LGA    S      45      S      45          3.581
LGA    S      46      S      46          3.474
LGA    L      47      L      47          3.213
LGA    S      48      S      48          1.217
LGA    F      49      F      49          2.164
LGA    T      50      T      50          2.870
LGA    V      51      V      51          2.569
LGA    F      52      F      52          3.404
LGA    D      53      D      53          3.291
LGA    M      54      M      54          1.727
LGA    S      55      S      55          0.958
LGA    G      56      G      56          2.843
LGA    Q      57      Q      57          3.488
LGA    G      58      G      58          4.042
LGA    R      59      R      59          4.855
LGA    Y      60      Y      60          2.291
LGA    R      61      R      61          1.497
LGA    N      62      N      62          1.910
LGA    L      63      L      63          1.662
LGA    W      64      W      64          1.468
LGA    E      65      E      65          0.884
LGA    H      66      H      66          0.666
LGA    Y      67      Y      67          0.217
LGA    Y      68      Y      68          0.415
LGA    K      69      K      69          0.854
LGA    E      70      E      70          2.721
LGA    G      71      G      71          2.173
LGA    Q      72      Q      72          1.363
LGA    A      73      A      73          0.940
LGA    I      74      I      74          2.056
LGA    I      75      I      75          1.907
LGA    F      76      F      76          1.595
LGA    V      77      V      77          0.615
LGA    I      78      I      78          0.505
LGA    D      79      D      79          4.190
LGA    S      80      S      80          0.812
LGA    S      81      S      81          1.292
LGA    D      82      D      82          1.303
LGA    R      83      R      83          1.832
LGA    L      84      L      84          2.203
LGA    R      85      R      85          1.153
LGA    M      86      M      86          1.148
LGA    V      87      V      87          1.189
LGA    V      88      V      88          0.671
LGA    A      89      A      89          1.154
LGA    K      90      K      90          1.465
LGA    E      91      E      91          1.034
LGA    E      92      E      92          0.831
LGA    L      93      L      93          1.258
LGA    D      94      D      94          1.160
LGA    T      95      T      95          0.688
LGA    L      96      L      96          0.969
LGA    L      97      L      97          1.027
LGA    N      98      N      98          0.483
LGA    H      99      H      99          0.549
LGA    P     100      P     100          0.864
LGA    D     101      D     101          0.869
LGA    I     102      I     102          1.500
LGA    K     103      K     103          6.480
LGA    H     104      H     104          1.720
LGA    R     105      R     105          3.532
LGA    R     106      R     106          1.804
LGA    I     107      I     107          0.612
LGA    P     108      P     108          1.471
LGA    I     109      I     109          1.015
LGA    L     110      L     110          0.576
LGA    F     111      F     111          1.330
LGA    F     112      F     112          1.159
LGA    A     113      A     113          0.774
LGA    N     114      N     114          1.115
LGA    K     115      K     115          2.012
LGA    M     116      M     116          2.513
LGA    D     117      D     117          1.443
LGA    L     118      L     118          2.021
LGA    R     119      R     119          2.705
LGA    D     120      D     120          3.710
LGA    A     121      A     121          1.526
LGA    V     122      V     122          0.272
LGA    T     123      T     123          2.228
LGA    S     124      S     124          2.511
LGA    V     125      V     125          2.121
LGA    K     126      K     126          1.346
LGA    V     127      V     127          1.211
LGA    S     128      S     128          1.651
LGA    Q     129      Q     129          0.929
LGA    L     130      L     130          0.611
LGA    L     131      L     131          1.893
LGA    C     132      C     132          1.030
LGA    L     133      L     133          0.867
LGA    E     134      E     134          1.577
LGA    N     135      N     135          2.016
LGA    I     136      I     136          1.505
LGA    K     137      K     137          2.057
LGA    D     138      D     138          3.272
LGA    K     139      K     139          2.308
LGA    P     140      P     140          1.197
LGA    W     141      W     141          0.720
LGA    H     142      H     142          0.888
LGA    I     143      I     143          1.975
LGA    C     144      C     144          1.184
LGA    A     145      A     145          0.755
LGA    S     146      S     146          0.662
LGA    D     147      D     147          0.776
LGA    A     148      A     148          0.614
LGA    I     149      I     149          0.817
LGA    K     150      K     150          0.970
LGA    G     151      G     151          0.850
LGA    E     152      E     152          1.254
LGA    G     153      G     153          1.663
LGA    L     154      L     154          1.994
LGA    Q     155      Q     155          1.043
LGA    E     156      E     156          1.346
LGA    G     157      G     157          0.790
LGA    V     158      V     158          0.474
LGA    D     159      D     159          0.866
LGA    W     160      W     160          0.961
LGA    L     161      L     161          1.138
LGA    Q     162      Q     162          1.477
LGA    D     163      D     163          2.001
LGA    Q     164      Q     164          2.241
LGA    I     165      I     165          3.152

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  165  165    5.0    164    1.93    95.12     87.682     8.073

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.341362 * X  +   0.755099 * Y  +   0.559729 * Z  +   4.260715
  Y_new =   0.635164 * X  +   0.624274 * Y  +  -0.454806 * Z  +  31.695471
  Z_new =  -0.692848 * X  +   0.200266 * Y  +  -0.692715 * Z  +  18.061399 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.860163   -0.281430  [ DEG:   163.8753    -16.1247 ]
  Theta =   0.765432    2.376161  [ DEG:    43.8560    136.1440 ]
  Phi   =   2.063945   -1.077647  [ DEG:   118.2554    -61.7446 ]
 
# 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: T0308TS393_4                                  
REMARK     2: T0308                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0308TS393_4.T0308 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  165  165   5.0  164   1.93   95.12  87.682
REMARK  ---------------------------------------------------------- 
MOLECULE T0308TS393_4
PFRMAT TS
TARGET T0308
MODEL 4
PARENT N/A
ATOM      1  CA  GLU     1      -4.002  18.758  26.976  1.00 25.00           C
ATOM      2  CA  VAL     2      -1.654  21.176  25.218  1.00 25.00           C
ATOM      3  CA  HIS     3       0.466  23.721  27.088  1.00 25.00           C
ATOM      4  CA  VAL     4       1.401  26.501  24.722  1.00 25.00           C
ATOM      5  CA  LEU     5       3.731  29.465  24.369  1.00 25.00           C
ATOM      6  CA  CYS     6       3.413  31.968  21.561  1.00 25.00           C
ATOM      7  CA  LEU     7       6.987  33.296  22.013  1.00 25.00           C
ATOM      8  CA  GLY     8       8.061  36.133  19.628  1.00 25.00           C
ATOM      9  CA  LEU     9       9.298  39.274  21.463  1.00 25.00           C
ATOM     10  CA  ASP    10       6.343  41.599  20.715  1.00 25.00           C
ATOM     11  CA  ASN    11       4.534  43.887  18.307  1.00 25.00           C
ATOM     12  CA  SER    12       4.293  40.863  16.003  1.00 25.00           C
ATOM     13  CA  GLY    13       0.912  39.076  16.202  1.00 25.00           C
ATOM     14  CA  LYS    14       0.433  36.553  19.001  1.00 25.00           C
ATOM     15  CA  THR    15      -2.567  37.489  21.191  1.00 25.00           C
ATOM     16  CA  THR    16      -4.674  38.157  18.063  1.00 25.00           C
ATOM     17  CA  ILE    17      -3.647  34.762  16.617  1.00 25.00           C
ATOM     18  CA  ILE    18      -4.604  33.046  19.905  1.00 25.00           C
ATOM     19  CA  ASN    19      -8.002  34.810  19.866  1.00 25.00           C
ATOM     20  CA  LYS    20      -8.572  33.687  16.249  1.00 25.00           C
ATOM     21  CA  LEU    21      -7.681  30.086  17.201  1.00 25.00           C
ATOM     22  CA  LYS    22     -10.126  30.233  20.145  1.00 25.00           C
ATOM     23  CA  PRO    23     -13.084  31.013  17.822  1.00 25.00           C
ATOM     24  CA  SER    24     -15.008  33.156  20.327  1.00 25.00           C
ATOM     25  CA  ASN    25     -13.299  36.530  20.717  1.00 25.00           C
ATOM     26  CA  ALA    26     -13.781  37.370  17.087  1.00 25.00           C
ATOM     27  CA  GLN    27     -12.397  40.795  17.820  1.00 25.00           C
ATOM     28  CA  SER    28      -9.756  43.535  17.751  1.00 25.00           C
ATOM     29  CA  GLN    29      -8.718  44.564  21.264  1.00 25.00           C
ATOM     30  CA  ASN    30      -7.548  47.990  20.265  1.00 25.00           C
ATOM     31  CA  ILE    31      -3.806  47.335  20.865  1.00 25.00           C
ATOM     32  CA  LEU    32      -4.228  47.038  24.660  1.00 25.00           C
ATOM     33  CA  PRO    33      -0.767  45.381  24.367  1.00 25.00           C
ATOM     34  CA  THR    34       0.044  42.687  26.884  1.00 25.00           C
ATOM     35  CA  ILE    35       0.328  43.770  30.578  1.00 25.00           C
ATOM     36  CA  GLY    36      -0.094  40.067  31.481  1.00 25.00           C
ATOM     37  CA  PHE    37      -0.193  36.598  30.066  1.00 25.00           C
ATOM     38  CA  SER    38      -3.682  36.045  28.542  1.00 25.00           C
ATOM     39  CA  ILE    39      -4.136  32.275  28.736  1.00 25.00           C
ATOM     40  CA  GLU    40      -6.649  30.390  26.590  1.00 25.00           C
ATOM     41  CA  LYS    41      -7.412  26.800  27.341  1.00 25.00           C
ATOM     42  CA  PHE    42      -8.939  26.118  23.945  1.00 25.00           C
ATOM     43  CA  LYS    43     -11.308  24.056  21.752  1.00 25.00           C
ATOM     44  CA  SER    44     -11.355  21.640  18.791  1.00 25.00           C
ATOM     45  CA  SER    45     -12.164  18.235  17.160  1.00 25.00           C
ATOM     46  CA  SER    46     -11.535  16.547  20.519  1.00 25.00           C
ATOM     47  CA  LEU    47      -8.586  17.817  22.563  1.00 25.00           C
ATOM     48  CA  SER    48      -7.250  21.345  22.863  1.00 25.00           C
ATOM     49  CA  PHE    49      -4.943  24.078  21.530  1.00 25.00           C
ATOM     50  CA  THR    50      -3.546  26.614  23.976  1.00 25.00           C
ATOM     51  CA  VAL    51      -1.935  29.991  23.203  1.00 25.00           C
ATOM     52  CA  PHE    52      -0.299  32.982  24.994  1.00 25.00           C
ATOM     53  CA  ASP    53       2.655  33.358  27.417  1.00 25.00           C
ATOM     54  CA  MET    54       3.842  36.244  25.226  1.00 25.00           C
ATOM     55  CA  SER    55       4.729  39.856  26.192  1.00 25.00           C
ATOM     56  CA  GLY    56       7.869  41.949  25.718  1.00 25.00           C
ATOM     57  CA  GLN    57       9.448  43.929  28.566  1.00 25.00           C
ATOM     58  CA  GLY    58      11.625  41.590  30.577  1.00 25.00           C
ATOM     59  CA  ARG    59       9.110  40.485  33.246  1.00 25.00           C
ATOM     60  CA  TYR    60       6.892  38.923  30.544  1.00 25.00           C
ATOM     61  CA  ARG    61       9.915  37.070  29.098  1.00 25.00           C
ATOM     62  CA  ASN    62      10.821  35.777  32.587  1.00 25.00           C
ATOM     63  CA  LEU    63       7.221  34.579  33.105  1.00 25.00           C
ATOM     64  CA  TRP    64       7.303  32.789  29.721  1.00 25.00           C
ATOM     65  CA  GLU    65      10.613  31.108  30.662  1.00 25.00           C
ATOM     66  CA  HIS    66       9.119  29.983  34.004  1.00 25.00           C
ATOM     67  CA  TYR    67       6.065  28.555  32.186  1.00 25.00           C
ATOM     68  CA  TYR    68       8.358  26.676  29.760  1.00 25.00           C
ATOM     69  CA  LYS    69       7.179  23.508  31.412  1.00 25.00           C
ATOM     70  CA  GLU    70       5.003  20.839  29.830  1.00 25.00           C
ATOM     71  CA  GLY    71       5.757  22.130  26.368  1.00 25.00           C
ATOM     72  CA  GLN    72       3.413  19.750  24.467  1.00 25.00           C
ATOM     73  CA  ALA    73       3.199  22.670  21.986  1.00 25.00           C
ATOM     74  CA  ILE    74       3.729  25.866  19.992  1.00 25.00           C
ATOM     75  CA  ILE    75       2.397  28.598  17.658  1.00 25.00           C
ATOM     76  CA  PHE    76       5.535  30.672  17.051  1.00 25.00           C
ATOM     77  CA  VAL    77       5.195  34.159  15.644  1.00 25.00           C
ATOM     78  CA  ILE    78       7.425  36.862  14.040  1.00 25.00           C
ATOM     79  CA  ASP    79       9.843  37.272  11.141  1.00 25.00           C
ATOM     80  CA  SER    80       7.987  39.941   9.160  1.00 25.00           C
ATOM     81  CA  SER    81       9.044  43.592   8.513  1.00 25.00           C
ATOM     82  CA  ASP    82      11.453  44.731  11.236  1.00 25.00           C
ATOM     83  CA  ARG    83      15.068  43.689  10.810  1.00 25.00           C
ATOM     84  CA  LEU    84      16.461  44.472  14.291  1.00 25.00           C
ATOM     85  CA  ARG    85      13.148  43.403  15.884  1.00 25.00           C
ATOM     86  CA  MET    86      13.214  40.135  13.888  1.00 25.00           C
ATOM     87  CA  VAL    87      16.812  39.485  15.024  1.00 25.00           C
ATOM     88  CA  VAL    88      15.805  40.123  18.663  1.00 25.00           C
ATOM     89  CA  ALA    89      12.864  37.697  18.300  1.00 25.00           C
ATOM     90  CA  LYS    90      15.201  35.046  16.824  1.00 25.00           C
ATOM     91  CA  GLU    91      17.639  35.538  19.737  1.00 25.00           C
ATOM     92  CA  GLU    92      14.763  35.162  22.238  1.00 25.00           C
ATOM     93  CA  LEU    93      13.632  31.946  20.493  1.00 25.00           C
ATOM     94  CA  ASP    94      17.209  30.583  20.636  1.00 25.00           C
ATOM     95  CA  THR    95      17.405  31.418  24.368  1.00 25.00           C
ATOM     96  CA  LEU    96      14.069  29.636  24.967  1.00 25.00           C
ATOM     97  CA  LEU    97      15.339  26.564  23.064  1.00 25.00           C
ATOM     98  CA  ASN    98      18.667  26.137  24.826  1.00 25.00           C
ATOM     99  CA  HIS    99      16.644  26.327  28.027  1.00 25.00           C
ATOM    100  CA  PRO   100      17.413  23.028  29.709  1.00 25.00           C
ATOM    101  CA  ASP   101      13.904  22.843  31.192  1.00 25.00           C
ATOM    102  CA  ILE   102      12.529  23.242  27.697  1.00 25.00           C
ATOM    103  CA  LYS   103      11.381  19.599  28.194  1.00 25.00           C
ATOM    104  CA  HIS   104      14.694  18.293  26.893  1.00 25.00           C
ATOM    105  CA  ARG   105      13.963  20.452  23.801  1.00 25.00           C
ATOM    106  CA  ARG   106      11.449  17.634  23.082  1.00 25.00           C
ATOM    107  CA  ILE   107       8.812  20.064  21.915  1.00 25.00           C
ATOM    108  CA  PRO   108       7.949  21.819  18.619  1.00 25.00           C
ATOM    109  CA  ILE   109       7.979  25.330  17.245  1.00 25.00           C
ATOM    110  CA  LEU   110       5.569  26.261  14.477  1.00 25.00           C
ATOM    111  CA  PHE   111       6.383  29.176  12.145  1.00 25.00           C
ATOM    112  CA  PHE   112       3.828  31.784  10.972  1.00 25.00           C
ATOM    113  CA  ALA   113       5.512  34.973   9.682  1.00 25.00           C
ATOM    114  CA  ASN   114       3.275  37.822  10.856  1.00 25.00           C
ATOM    115  CA  LYS   115       1.282  41.045  10.370  1.00 25.00           C
ATOM    116  CA  MET   116       2.592  40.704   6.753  1.00 25.00           C
ATOM    117  CA  ASP   117       0.946  42.628   3.893  1.00 25.00           C
ATOM    118  CA  LEU   118       4.000  44.845   3.281  1.00 25.00           C
ATOM    119  CA  ARG   119       4.355  44.264  -0.461  1.00 25.00           C
ATOM    120  CA  ASP   120       8.093  43.849   0.104  1.00 25.00           C
ATOM    121  CA  ALA   121       8.283  42.212   3.499  1.00 25.00           C
ATOM    122  CA  VAL   122       9.592  38.719   3.968  1.00 25.00           C
ATOM    123  CA  THR   123       8.446  36.531   1.014  1.00 25.00           C
ATOM    124  CA  SER   124       8.759  33.297   2.910  1.00 25.00           C
ATOM    125  CA  VAL   125      11.971  31.763   1.498  1.00 25.00           C
ATOM    126  CA  LYS   126      14.008  34.699   2.876  1.00 25.00           C
ATOM    127  CA  VAL   127      12.373  34.253   6.310  1.00 25.00           C
ATOM    128  CA  SER   128      13.189  30.511   6.240  1.00 25.00           C
ATOM    129  CA  GLN   129      16.826  31.296   5.330  1.00 25.00           C
ATOM    130  CA  LEU   130      17.032  33.805   8.217  1.00 25.00           C
ATOM    131  CA  LEU   131      15.610  31.188  10.624  1.00 25.00           C
ATOM    132  CA  CYS   132      18.197  28.410  10.780  1.00 25.00           C
ATOM    133  CA  LEU   133      15.055  26.416  11.639  1.00 25.00           C
ATOM    134  CA  GLU   134      15.929  24.295   8.690  1.00 25.00           C
ATOM    135  CA  ASN   135      19.069  23.384  10.588  1.00 25.00           C
ATOM    136  CA  ILE   136      18.183  23.046  14.248  1.00 25.00           C
ATOM    137  CA  LYS   137      19.031  19.552  15.582  1.00 25.00           C
ATOM    138  CA  ASP   138      16.570  16.927  14.384  1.00 25.00           C
ATOM    139  CA  LYS   139      13.914  19.336  15.656  1.00 25.00           C
ATOM    140  CA  PRO   140      10.607  19.001  13.921  1.00 25.00           C
ATOM    141  CA  TRP   141       9.479  22.383  12.740  1.00 25.00           C
ATOM    142  CA  HIS   142       7.708  24.434  10.073  1.00 25.00           C
ATOM    143  CA  ILE   143       6.916  27.028   7.409  1.00 25.00           C
ATOM    144  CA  CYS   144       3.651  28.859   6.678  1.00 25.00           C
ATOM    145  CA  ALA   145       3.559  32.461   5.653  1.00 25.00           C
ATOM    146  CA  SER   146       0.896  34.274   7.659  1.00 25.00           C
ATOM    147  CA  ASP   147      -1.570  37.100   8.486  1.00 25.00           C
ATOM    148  CA  ALA   148      -3.679  36.833  11.693  1.00 25.00           C
ATOM    149  CA  ILE   149      -5.187  40.152  10.610  1.00 25.00           C
ATOM    150  CA  LYS   150      -6.454  38.255   7.570  1.00 25.00           C
ATOM    151  CA  GLY   151      -7.117  34.647   8.460  1.00 25.00           C
ATOM    152  CA  GLU   152      -5.472  33.498   5.239  1.00 25.00           C
ATOM    153  CA  GLY   153      -2.647  30.954   5.340  1.00 25.00           C
ATOM    154  CA  LEU   154      -2.825  29.059   8.619  1.00 25.00           C
ATOM    155  CA  GLN   155      -5.030  25.928   8.584  1.00 25.00           C
ATOM    156  CA  GLU   156      -2.001  23.775   7.655  1.00 25.00           C
ATOM    157  CA  GLY   157       0.014  25.332  10.516  1.00 25.00           C
ATOM    158  CA  VAL   158      -2.853  24.623  12.954  1.00 25.00           C
ATOM    159  CA  ASP   159      -3.011  20.990  11.749  1.00 25.00           C
ATOM    160  CA  TRP   160       0.772  20.641  12.232  1.00 25.00           C
ATOM    161  CA  LEU   161       0.477  22.072  15.772  1.00 25.00           C
ATOM    162  CA  GLN   162      -2.342  19.604  16.563  1.00 25.00           C
ATOM    163  CA  ASP   163      -0.207  16.707  15.251  1.00 25.00           C
ATOM    164  CA  GLN   164       2.732  17.860  17.419  1.00 25.00           C
ATOM    165  CA  ILE   165       2.667  15.621  20.476  1.00 25.00           C
TER
END
