
#######################################################
#                                                     #
#                        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 T0308TS168_2
# Molecule2: number of CA atoms  165 ( 1274),  selected  165 , name T0308
# PARAMETERS: T0308TS168_2.T0308  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    E       1      E       1          1.454
LGA    V       2      V       2          1.130
LGA    H       3      H       3          0.738
LGA    V       4      V       4          1.409
LGA    L       5      L       5          1.110
LGA    C       6      C       6          0.584
LGA    L       7      L       7          1.120
LGA    G       8      G       8          0.980
LGA    L       9      L       9          0.905
LGA    D      10      D      10          1.270
LGA    N      11      N      11          1.403
LGA    S      12      S      12          3.549
LGA    G      13      G      13          1.163
LGA    K      14      K      14          0.693
LGA    T      15      T      15          0.802
LGA    T      16      T      16          0.499
LGA    I      17      I      17          0.543
LGA    I      18      I      18          0.687
LGA    N      19      N      19          0.605
LGA    K      20      K      20          0.597
LGA    L      21      L      21          0.884
LGA    K      22      K      22          1.346
LGA    P      23      P      23          2.928
LGA    S      24      S      24          3.570
LGA    -       -      N      25           -
LGA    N      25      A      26          2.199
LGA    A      26      Q      27          2.185
LGA    Q      27      S      28          1.917
LGA    S      28      Q      29          2.244
LGA    Q      29      N      30          1.047
LGA    N      30      I      31          3.799
LGA    I      31      L      32          1.640
LGA    L      32      -       -           -
LGA    P      33      P      33          0.918
LGA    T      34      T      34          1.186
LGA    I      35      I      35          1.932
LGA    G      36      G      36          3.201
LGA    F      37      F      37          2.339
LGA    S      38      S      38          2.406
LGA    I      39      I      39          1.480
LGA    E      40      E      40          1.387
LGA    K      41      K      41          1.220
LGA    F      42      F      42          1.869
LGA    K      43      K      43          2.730
LGA    S      44      S      44          2.247
LGA    S      45      S      45          3.963
LGA    S      46      S      46          4.377
LGA    L      47      L      47          1.885
LGA    S      48      S      48          1.452
LGA    F      49      F      49          1.806
LGA    T      50      T      50          3.951
LGA    V      51      V      51          2.872
LGA    F      52      F      52          2.411
LGA    D      53      D      53          2.732
LGA    M      54      M      54          1.917
LGA    S      55      S      55          1.474
LGA    G      56      G      56          2.993
LGA    Q      57      Q      57          4.011
LGA    G      58      G      58          4.520
LGA    R      59      R      59          5.243
LGA    Y      60      Y      60          2.257
LGA    R      61      R      61          2.147
LGA    N      62      N      62          2.354
LGA    L      63      L      63          1.749
LGA    W      64      W      64          1.772
LGA    E      65      E      65          0.542
LGA    H      66      H      66          1.001
LGA    Y      67      Y      67          1.306
LGA    Y      68      Y      68          1.163
LGA    K      69      K      69          0.618
LGA    E      70      E      70          2.250
LGA    G      71      G      71          1.220
LGA    Q      72      Q      72          0.632
LGA    A      73      A      73          0.990
LGA    I      74      I      74          0.335
LGA    I      75      I      75          1.359
LGA    F      76      F      76          0.998
LGA    V      77      V      77          0.163
LGA    I      78      I      78          0.283
LGA    D      79      D      79          0.611
LGA    S      80      S      80          0.612
LGA    S      81      S      81          0.693
LGA    D      82      D      82          1.549
LGA    R      83      R      83          1.681
LGA    L      84      L      84          2.042
LGA    R      85      R      85          2.115
LGA    M      86      M      86          1.978
LGA    V      87      V      87          1.918
LGA    V      88      V      88          1.401
LGA    A      89      A      89          1.422
LGA    K      90      K      90          1.680
LGA    E      91      E      91          1.418
LGA    E      92      E      92          0.829
LGA    L      93      L      93          0.762
LGA    D      94      D      94          0.958
LGA    T      95      T      95          0.818
LGA    L      96      L      96          0.192
LGA    L      97      L      97          0.458
LGA    N      98      N      98          3.587
LGA    H      99      H      99          2.100
LGA    P     100      P     100          2.453
LGA    D     101      D     101          0.925
LGA    I     102      I     102          2.052
LGA    K     103      K     103           #
LGA    H     104      H     104          3.562
LGA    R     105      R     105          2.399
LGA    R     106      R     106          0.813
LGA    I     107      I     107          0.819
LGA    P     108      P     108          0.778
LGA    I     109      I     109          1.264
LGA    L     110      L     110          1.166
LGA    F     111      F     111          0.325
LGA    F     112      F     112          1.167
LGA    A     113      A     113          1.127
LGA    N     114      N     114          0.734
LGA    K     115      K     115          1.070
LGA    M     116      M     116          1.356
LGA    D     117      D     117          1.238
LGA    L     118      L     118          1.966
LGA    R     119      R     119          2.350
LGA    D     120      D     120          3.409
LGA    A     121      A     121          2.102
LGA    V     122      V     122          3.476
LGA    T     123      T     123          3.014
LGA    S     124      S     124          1.135
LGA    V     125      V     125          1.700
LGA    K     126      K     126          1.455
LGA    V     127      V     127          0.984
LGA    S     128      S     128          1.751
LGA    Q     129      Q     129          1.894
LGA    L     130      L     130          1.140
LGA    L     131      L     131          1.705
LGA    C     132      C     132          1.691
LGA    L     133      L     133          1.503
LGA    E     134      E     134          0.929
LGA    N     135      N     135          1.915
LGA    I     136      I     136          2.454
LGA    K     137      K     137          1.738
LGA    D     138      D     138          2.822
LGA    K     139      K     139          2.317
LGA    P     140      P     140          1.196
LGA    W     141      W     141          1.385
LGA    H     142      H     142          1.711
LGA    I     143      I     143          1.500
LGA    C     144      C     144          1.388
LGA    A     145      A     145          0.429
LGA    S     146      S     146          0.524
LGA    D     147      D     147          0.307
LGA    A     148      A     148          0.597
LGA    I     149      I     149          1.396
LGA    K     150      K     150          1.619
LGA    G     151      G     151          1.807
LGA    E     152      E     152          1.873
LGA    G     153      G     153          1.156
LGA    L     154      L     154          1.274
LGA    Q     155      Q     155          0.810
LGA    E     156      E     156          1.278
LGA    G     157      G     157          0.870
LGA    V     158      V     158          0.633
LGA    D     159      D     159          1.383
LGA    W     160      W     160          1.699
LGA    L     161      L     161          1.528
LGA    Q     162      Q     162          1.616
LGA    D     163      D     163          2.062
LGA    Q     164      Q     164          2.179
LGA    I     165      I     165          3.160

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  165  165    5.0    163    1.90    95.71     87.254     8.166

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.603127 * X  +   0.781566 * Y  +   0.159349 * Z  +   4.230465
  Y_new =   0.493685 * X  +   0.522680 * Y  +  -0.695040 * Z  +  31.686365
  Z_new =  -0.626509 * X  +  -0.340529 * Y  +  -0.701090 * Z  +  18.061232 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.689439    0.452154  [ DEG:  -154.0935     25.9065 ]
  Theta =   0.677065    2.464527  [ DEG:    38.7930    141.2070 ]
  Phi   =   2.455647   -0.685946  [ DEG:   140.6982    -39.3018 ]
 
# 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: T0308TS168_2                                  
REMARK     2: T0308                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0308TS168_2.T0308 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  165  165   5.0  163   1.90   95.71  87.254
REMARK  ---------------------------------------------------------- 
MOLECULE T0308TS168_2
PFRMAT TS
TARGET T0308
MODEL 2
PARENT N/A
ATOM      1  CA  GLU     1      -4.248  18.867  27.071  1.00 25.00           C
ATOM      2  CA  VAL     2      -1.692  20.743  24.889  1.00 25.00           C
ATOM      3  CA  HIS     3      -0.656  23.830  26.823  1.00 25.00           C
ATOM      4  CA  VAL     4       1.439  26.487  25.150  1.00 25.00           C
ATOM      5  CA  LEU     5       4.155  29.200  25.139  1.00 25.00           C
ATOM      6  CA  CYS     6       3.467  31.400  22.044  1.00 25.00           C
ATOM      7  CA  LEU     7       7.009  32.713  22.759  1.00 25.00           C
ATOM      8  CA  GLY     8       7.399  36.031  20.883  1.00 25.00           C
ATOM      9  CA  LEU     9       7.764  39.789  20.637  1.00 25.00           C
ATOM     10  CA  ASP    10       4.985  42.384  20.406  1.00 25.00           C
ATOM     11  CA  ASN    11       3.207  44.650  17.885  1.00 25.00           C
ATOM     12  CA  SER    12       3.321  43.029  14.451  1.00 25.00           C
ATOM     13  CA  GLY    13       1.863  39.998  16.305  1.00 25.00           C
ATOM     14  CA  LYS    14       1.136  36.892  18.403  1.00 25.00           C
ATOM     15  CA  THR    15      -1.888  38.146  20.391  1.00 25.00           C
ATOM     16  CA  THR    16      -3.768  38.855  17.131  1.00 25.00           C
ATOM     17  CA  ILE    17      -2.946  35.336  15.863  1.00 25.00           C
ATOM     18  CA  ILE    18      -4.207  33.830  19.152  1.00 25.00           C
ATOM     19  CA  ASN    19      -7.445  35.853  18.865  1.00 25.00           C
ATOM     20  CA  LYS    20      -7.916  34.637  15.264  1.00 25.00           C
ATOM     21  CA  LEU    21      -7.368  31.018  16.389  1.00 25.00           C
ATOM     22  CA  LYS    22      -9.943  31.472  19.186  1.00 25.00           C
ATOM     23  CA  PRO    23     -12.667  32.308  16.670  1.00 25.00           C
ATOM     24  CA  SER    24     -15.145  32.652  19.473  1.00 25.00           C
ATOM     25  CA  ASN    25     -13.399  35.428  21.327  1.00 25.00           C
ATOM     26  CA  ALA    26     -14.561  37.662  18.473  1.00 25.00           C
ATOM     27  CA  GLN    27     -12.213  40.563  19.210  1.00 25.00           C
ATOM     28  CA  SER    28     -10.450  43.376  17.455  1.00 25.00           C
ATOM     29  CA  GLN    29     -10.156  44.761  21.031  1.00 25.00           C
ATOM     30  CA  ASN    30      -7.362  47.263  20.250  1.00 25.00           C
ATOM     31  CA  ILE    31      -5.445  45.179  22.854  1.00 25.00           C
ATOM     32  CA  LEU    32      -3.914  46.278  26.126  1.00 25.00           C
ATOM     33  CA  PRO    33      -0.559  44.704  25.046  1.00 25.00           C
ATOM     34  CA  THR    34       0.024  41.961  27.663  1.00 25.00           C
ATOM     35  CA  ILE    35       1.578  41.691  31.062  1.00 25.00           C
ATOM     36  CA  GLY    36       0.109  38.426  32.470  1.00 25.00           C
ATOM     37  CA  PHE    37      -1.560  36.946  29.390  1.00 25.00           C
ATOM     38  CA  SER    38      -5.058  35.728  28.523  1.00 25.00           C
ATOM     39  CA  ILE    39      -4.803  32.033  27.958  1.00 25.00           C
ATOM     40  CA  GLU    40      -7.392  30.910  25.435  1.00 25.00           C
ATOM     41  CA  LYS    41      -8.986  27.488  24.778  1.00 25.00           C
ATOM     42  CA  PHE    42     -10.206  26.111  21.428  1.00 25.00           C
ATOM     43  CA  LYS    43     -12.450  23.122  20.461  1.00 25.00           C
ATOM     44  CA  SER    44     -10.760  21.674  17.367  1.00 25.00           C
ATOM     45  CA  SER    45     -11.790  18.025  17.692  1.00 25.00           C
ATOM     46  CA  SER    46     -11.837  17.905  21.473  1.00 25.00           C
ATOM     47  CA  LEU    47      -8.028  18.102  21.287  1.00 25.00           C
ATOM     48  CA  SER    48      -7.067  21.268  23.132  1.00 25.00           C
ATOM     49  CA  PHE    49      -5.211  24.338  21.818  1.00 25.00           C
ATOM     50  CA  THR    50      -3.120  27.288  23.146  1.00 25.00           C
ATOM     51  CA  VAL    51      -1.452  30.725  23.513  1.00 25.00           C
ATOM     52  CA  PHE    52       0.608  32.608  26.114  1.00 25.00           C
ATOM     53  CA  ASP    53       1.570  35.884  24.350  1.00 25.00           C
ATOM     54  CA  MET    54       4.883  35.999  26.215  1.00 25.00           C
ATOM     55  CA  SER    55       5.310  39.782  26.372  1.00 25.00           C
ATOM     56  CA  GLY    56       8.428  41.821  25.759  1.00 25.00           C
ATOM     57  CA  GLN    57      10.360  43.080  28.732  1.00 25.00           C
ATOM     58  CA  GLY    58      12.785  40.673  30.369  1.00 25.00           C
ATOM     59  CA  ARG    59      10.481  40.008  33.356  1.00 25.00           C
ATOM     60  CA  TYR    60       7.779  38.657  31.002  1.00 25.00           C
ATOM     61  CA  ARG    61      10.352  36.369  29.323  1.00 25.00           C
ATOM     62  CA  ASN    62      11.490  35.093  32.750  1.00 25.00           C
ATOM     63  CA  LEU    63       7.852  34.403  33.729  1.00 25.00           C
ATOM     64  CA  TRP    64       7.307  32.497  30.452  1.00 25.00           C
ATOM     65  CA  GLU    65      10.464  30.427  31.102  1.00 25.00           C
ATOM     66  CA  HIS    66       9.242  29.630  34.642  1.00 25.00           C
ATOM     67  CA  TYR    67       5.840  28.554  33.253  1.00 25.00           C
ATOM     68  CA  TYR    68       7.573  26.303  30.685  1.00 25.00           C
ATOM     69  CA  LYS    69       7.427  22.984  32.466  1.00 25.00           C
ATOM     70  CA  GLU    70       4.395  21.119  31.015  1.00 25.00           C
ATOM     71  CA  GLY    71       4.811  23.042  27.720  1.00 25.00           C
ATOM     72  CA  GLN    72       3.909  20.945  24.677  1.00 25.00           C
ATOM     73  CA  ALA    73       3.385  23.252  21.662  1.00 25.00           C
ATOM     74  CA  ILE    74       5.749  26.156  20.958  1.00 25.00           C
ATOM     75  CA  ILE    75       5.322  28.674  18.177  1.00 25.00           C
ATOM     76  CA  PHE    76       7.675  31.683  17.678  1.00 25.00           C
ATOM     77  CA  VAL    77       5.710  34.489  16.039  1.00 25.00           C
ATOM     78  CA  ILE    78       7.722  36.900  13.886  1.00 25.00           C
ATOM     79  CA  ASP    79       7.425  40.365  12.222  1.00 25.00           C
ATOM     80  CA  SER    80       7.758  39.781   8.471  1.00 25.00           C
ATOM     81  CA  SER    81       8.010  43.553   8.256  1.00 25.00           C
ATOM     82  CA  ASP    82      10.151  45.284  10.860  1.00 25.00           C
ATOM     83  CA  ARG    83      13.674  43.930  10.500  1.00 25.00           C
ATOM     84  CA  LEU    84      15.085  44.771  13.959  1.00 25.00           C
ATOM     85  CA  ARG    85      11.982  43.257  15.619  1.00 25.00           C
ATOM     86  CA  MET    86      12.371  40.085  13.510  1.00 25.00           C
ATOM     87  CA  VAL    87      16.061  39.842  14.509  1.00 25.00           C
ATOM     88  CA  VAL    88      15.112  40.242  18.198  1.00 25.00           C
ATOM     89  CA  ALA    89      12.475  37.488  17.844  1.00 25.00           C
ATOM     90  CA  LYS    90      15.061  35.188  16.204  1.00 25.00           C
ATOM     91  CA  GLU    91      17.522  35.883  19.054  1.00 25.00           C
ATOM     92  CA  GLU    92      14.803  35.085  21.631  1.00 25.00           C
ATOM     93  CA  LEU    93      14.008  31.810  19.812  1.00 25.00           C
ATOM     94  CA  ASP    94      17.726  30.888  19.794  1.00 25.00           C
ATOM     95  CA  THR    95      17.951  31.627  23.546  1.00 25.00           C
ATOM     96  CA  LEU    96      14.878  29.434  24.188  1.00 25.00           C
ATOM     97  CA  LEU    97      16.441  26.600  22.140  1.00 25.00           C
ATOM     98  CA  ASN    98      17.373  23.183  23.465  1.00 25.00           C
ATOM     99  CA  HIS    99      16.903  24.700  26.932  1.00 25.00           C
ATOM    100  CA  PRO   100      16.358  21.716  29.182  1.00 25.00           C
ATOM    101  CA  ASP   101      13.549  23.507  31.115  1.00 25.00           C
ATOM    102  CA  ILE   102      11.945  23.788  27.692  1.00 25.00           C
ATOM    103  CA  LYS   103      10.298  20.471  28.712  1.00 25.00           C
ATOM    104  CA  HIS   104      12.807  17.853  27.433  1.00 25.00           C
ATOM    105  CA  ARG   105      13.418  19.488  24.091  1.00 25.00           C
ATOM    106  CA  ARG   106      11.012  17.141  22.251  1.00 25.00           C
ATOM    107  CA  ILE   107       8.477  19.930  22.388  1.00 25.00           C
ATOM    108  CA  PRO   108       7.192  21.046  19.006  1.00 25.00           C
ATOM    109  CA  ILE   109       6.816  23.898  16.492  1.00 25.00           C
ATOM    110  CA  LEU   110       4.768  25.819  13.878  1.00 25.00           C
ATOM    111  CA  PHE   111       6.635  29.092  13.190  1.00 25.00           C
ATOM    112  CA  PHE   112       3.651  31.362  12.526  1.00 25.00           C
ATOM    113  CA  ALA   113       5.483  33.938  10.381  1.00 25.00           C
ATOM    114  CA  ASN   114       3.513  37.215  10.918  1.00 25.00           C
ATOM    115  CA  LYS   115       2.055  40.574   9.833  1.00 25.00           C
ATOM    116  CA  MET   116       2.658  39.710   6.158  1.00 25.00           C
ATOM    117  CA  ASP   117       1.063  42.335   3.916  1.00 25.00           C
ATOM    118  CA  LEU   118       3.833  44.846   3.218  1.00 25.00           C
ATOM    119  CA  ARG   119       5.931  44.515   0.098  1.00 25.00           C
ATOM    120  CA  ASP   120       9.109  42.870   1.250  1.00 25.00           C
ATOM    121  CA  ALA   121       8.129  39.862   3.449  1.00 25.00           C
ATOM    122  CA  VAL   122       8.435  36.500   1.790  1.00 25.00           C
ATOM    123  CA  THR   123       7.798  32.768   1.476  1.00 25.00           C
ATOM    124  CA  SER   124       9.434  32.516   4.918  1.00 25.00           C
ATOM    125  CA  VAL   125      12.548  31.772   2.815  1.00 25.00           C
ATOM    126  CA  LYS   126      14.102  35.101   3.894  1.00 25.00           C
ATOM    127  CA  VAL   127      13.359  34.287   7.562  1.00 25.00           C
ATOM    128  CA  SER   128      14.972  30.838   7.149  1.00 25.00           C
ATOM    129  CA  GLN   129      18.065  32.448   5.565  1.00 25.00           C
ATOM    130  CA  LEU   130      18.288  34.935   8.469  1.00 25.00           C
ATOM    131  CA  LEU   131      18.029  32.059  10.984  1.00 25.00           C
ATOM    132  CA  CYS   132      19.243  29.059   9.119  1.00 25.00           C
ATOM    133  CA  LEU   133      16.293  26.886  10.047  1.00 25.00           C
ATOM    134  CA  GLU   134      17.947  23.615   9.122  1.00 25.00           C
ATOM    135  CA  ASN   135      20.933  24.789  11.222  1.00 25.00           C
ATOM    136  CA  ILE   136      18.812  24.026  14.271  1.00 25.00           C
ATOM    137  CA  LYS   137      18.214  20.332  13.590  1.00 25.00           C
ATOM    138  CA  ASP   138      15.735  17.794  14.803  1.00 25.00           C
ATOM    139  CA  LYS   139      13.505  20.538  16.073  1.00 25.00           C
ATOM    140  CA  PRO   140      10.380  19.633  14.105  1.00 25.00           C
ATOM    141  CA  TRP   141       9.814  22.968  12.371  1.00 25.00           C
ATOM    142  CA  HIS   142       8.030  25.297   9.934  1.00 25.00           C
ATOM    143  CA  ILE   143       5.874  27.908   8.331  1.00 25.00           C
ATOM    144  CA  CYS   144       2.526  29.463   7.449  1.00 25.00           C
ATOM    145  CA  ALA   145       3.060  33.015   6.087  1.00 25.00           C
ATOM    146  CA  SER   146      -0.162  34.294   7.756  1.00 25.00           C
ATOM    147  CA  ASP   147      -1.903  37.661   8.069  1.00 25.00           C
ATOM    148  CA  ALA   148      -3.988  37.516  11.242  1.00 25.00           C
ATOM    149  CA  ILE   149      -6.348  39.761   9.335  1.00 25.00           C
ATOM    150  CA  LYS   150      -6.910  37.714   6.189  1.00 25.00           C
ATOM    151  CA  GLY   151      -6.562  34.123   7.390  1.00 25.00           C
ATOM    152  CA  GLU   152      -4.675  32.731   4.412  1.00 25.00           C
ATOM    153  CA  GLY   153      -2.859  30.070   6.416  1.00 25.00           C
ATOM    154  CA  LEU   154      -2.215  29.295  10.130  1.00 25.00           C
ATOM    155  CA  GLN   155      -4.616  26.353   9.634  1.00 25.00           C
ATOM    156  CA  GLU   156      -1.688  24.103   8.620  1.00 25.00           C
ATOM    157  CA  GLY   157       0.259  25.191  11.733  1.00 25.00           C
ATOM    158  CA  VAL   158      -2.782  24.427  13.931  1.00 25.00           C
ATOM    159  CA  ASP   159      -3.109  20.967  12.320  1.00 25.00           C
ATOM    160  CA  TRP   160       0.609  20.297  12.946  1.00 25.00           C
ATOM    161  CA  LEU   161       0.208  21.353  16.605  1.00 25.00           C
ATOM    162  CA  GLN   162      -2.808  19.021  16.973  1.00 25.00           C
ATOM    163  CA  ASP   163      -0.796  16.139  15.451  1.00 25.00           C
ATOM    164  CA  GLN   164       2.084  16.836  17.878  1.00 25.00           C
ATOM    165  CA  ILE   165       1.134  16.510  21.613  1.00 25.00           C
TER
END
