
#######################################################
#                                                     #
#                        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_5
# Molecule2: number of CA atoms  165 ( 1274),  selected  165 , name T0308
# PARAMETERS: T0308TS393_5.T0308  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    E       1      E       1          1.853
LGA    V       2      V       2          0.479
LGA    H       3      H       3          0.727
LGA    V       4      V       4          1.119
LGA    L       5      L       5          1.495
LGA    C       6      C       6          1.320
LGA    L       7      L       7          1.034
LGA    G       8      G       8          0.605
LGA    L       9      L       9          0.705
LGA    D      10      D      10          0.370
LGA    N      11      N      11          0.873
LGA    S      12      S      12          1.941
LGA    G      13      G      13          1.646
LGA    K      14      K      14          1.866
LGA    T      15      T      15          0.774
LGA    T      16      T      16          1.526
LGA    I      17      I      17          1.763
LGA    I      18      I      18          1.121
LGA    N      19      N      19          0.080
LGA    K      20      K      20          0.813
LGA    L      21      L      21          1.834
LGA    K      22      K      22          1.988
LGA    P      23      P      23          2.468
LGA    S      24      S      24          4.788
LGA    N      25      N      25          4.173
LGA    -       -      A      26           -
LGA    A      26      Q      27          1.552
LGA    Q      27      S      28          1.816
LGA    S      28      Q      29          1.828
LGA    Q      29      N      30          1.442
LGA    N      30      I      31          3.661
LGA    I      31      L      32          2.247
LGA    L      32      -       -           -
LGA    P      33      P      33          1.440
LGA    T      34      T      34          0.991
LGA    I      35      I      35          1.176
LGA    G      36      G      36          1.508
LGA    F      37      F      37          1.365
LGA    S      38      S      38          1.730
LGA    I      39      I      39          1.188
LGA    E      40      E      40          1.121
LGA    K      41      K      41          2.129
LGA    F      42      F      42          1.718
LGA    K      43      K      43          1.856
LGA    S      44      S      44          3.040
LGA    S      45      S      45          5.621
LGA    S      46      S      46          4.546
LGA    L      47      L      47          2.688
LGA    S      48      S      48          1.291
LGA    F      49      F      49          2.271
LGA    T      50      T      50          2.840
LGA    V      51      V      51          2.150
LGA    F      52      F      52          1.415
LGA    D      53      D      53          1.494
LGA    M      54      M      54          1.865
LGA    S      55      S      55          1.605
LGA    G      56      G      56          2.687
LGA    -       -      Q      57           -
LGA    Q      57      G      58          1.850
LGA    G      58      R      59          3.878
LGA    R      59      Y      60          2.501
LGA    Y      60      R      61          3.052
LGA    R      61      N      62          2.067
LGA    N      62      L      63          2.171
LGA    L      63      -       -           -
LGA    W      64      W      64          1.403
LGA    E      65      E      65          1.946
LGA    H      66      H      66          1.743
LGA    Y      67      Y      67          1.100
LGA    Y      68      Y      68          2.130
LGA    K      69      K      69          0.798
LGA    E      70      E      70          2.425
LGA    G      71      G      71          1.849
LGA    Q      72      Q      72          1.636
LGA    A      73      A      73          1.057
LGA    I      74      I      74          1.430
LGA    I      75      I      75          0.870
LGA    F      76      F      76          1.455
LGA    V      77      V      77          1.878
LGA    I      78      I      78          1.594
LGA    D      79      D      79          1.162
LGA    S      80      S      80          0.500
LGA    S      81      S      81          0.821
LGA    D      82      D      82          0.925
LGA    R      83      R      83          2.542
LGA    L      84      L      84          3.413
LGA    R      85      R      85          2.534
LGA    M      86      M      86          1.346
LGA    V      87      V      87          1.558
LGA    V      88      V      88          1.856
LGA    A      89      A      89          1.611
LGA    K      90      K      90          1.114
LGA    E      91      E      91          1.293
LGA    E      92      E      92          1.553
LGA    L      93      L      93          1.220
LGA    D      94      D      94          0.693
LGA    T      95      T      95          1.045
LGA    L      96      L      96          1.594
LGA    L      97      L      97          1.356
LGA    N      98      N      98          0.396
LGA    H      99      H      99          1.931
LGA    P     100      P     100          2.313
LGA    D     101      D     101          1.910
LGA    I     102      I     102          3.501
LGA    K     103      K     103           #
LGA    H     104      H     104          2.409
LGA    R     105      R     105          1.342
LGA    R     106      R     106          1.137
LGA    I     107      I     107          1.069
LGA    P     108      P     108          1.255
LGA    I     109      I     109          2.537
LGA    L     110      L     110          2.284
LGA    F     111      F     111          1.622
LGA    F     112      F     112          0.475
LGA    A     113      A     113          1.374
LGA    N     114      N     114          1.428
LGA    K     115      K     115          1.300
LGA    M     116      M     116          1.066
LGA    D     117      D     117          1.601
LGA    L     118      L     118          1.995
LGA    R     119      R     119          1.105
LGA    D     120      D     120          3.174
LGA    A     121      A     121          0.878
LGA    V     122      V     122          1.467
LGA    T     123      T     123          2.434
LGA    S     124      S     124          2.777
LGA    V     125      V     125          1.686
LGA    K     126      K     126          1.770
LGA    V     127      V     127          1.639
LGA    S     128      S     128          1.041
LGA    Q     129      Q     129          0.476
LGA    L     130      L     130          0.907
LGA    L     131      L     131          0.769
LGA    C     132      C     132          2.316
LGA    L     133      L     133          3.789
LGA    E     134      E     134          5.061
LGA    N     135      N     135          2.346
LGA    I     136      I     136          2.720
LGA    K     137      K     137          0.757
LGA    D     138      D     138          2.828
LGA    K     139      K     139          2.573
LGA    P     140      P     140          1.656
LGA    W     141      W     141          1.393
LGA    H     142      H     142          1.514
LGA    I     143      I     143          1.726
LGA    C     144      C     144          1.737
LGA    A     145      A     145          1.653
LGA    S     146      S     146          0.976
LGA    D     147      D     147          0.762
LGA    A     148      A     148          1.067
LGA    I     149      I     149          2.674
LGA    K     150      K     150          2.478
LGA    G     151      G     151          1.553
LGA    E     152      E     152          1.228
LGA    G     153      G     153          1.659
LGA    L     154      L     154          1.215
LGA    Q     155      Q     155          1.760
LGA    E     156      E     156          1.638
LGA    G     157      G     157          0.899
LGA    V     158      V     158          1.281
LGA    D     159      D     159          1.752
LGA    W     160      W     160          1.173
LGA    L     161      L     161          1.123
LGA    Q     162      Q     162          1.625
LGA    D     163      D     163          1.261
LGA    Q     164      Q     164          0.769
LGA    I     165      I     165          1.702

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  165  165    5.0    162    1.95    92.59     78.173     7.902

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.342299 * X  +   0.924296 * Y  +   0.168843 * Z  +   4.207754
  Y_new =   0.559485 * X  +   0.344874 * Y  +  -0.753683 * Z  +  31.632513
  Z_new =  -0.754856 * X  +  -0.163519 * Y  +  -0.635180 * Z  +  18.102833 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.889626    0.251966  [ DEG:  -165.5634     14.4366 ]
  Theta =   0.855435    2.286158  [ DEG:    49.0128    130.9872 ]
  Phi   =   2.119854   -1.021739  [ DEG:   121.4587    -58.5413 ]
 
# 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_5                                  
REMARK     2: T0308                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0308TS393_5.T0308 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  165  165   5.0  162   1.95   92.59  78.173
REMARK  ---------------------------------------------------------- 
MOLECULE T0308TS393_5
PFRMAT TS
TARGET T0308
MODEL 5
PARENT N/A
ATOM      1  CA  GLU     1      -3.856  17.605  27.043  1.00 25.00           C
ATOM      2  CA  VAL     2      -2.451  20.612  25.208  1.00 25.00           C
ATOM      3  CA  HIS     3      -0.180  23.448  26.125  1.00 25.00           C
ATOM      4  CA  VAL     4       1.824  26.284  24.469  1.00 25.00           C
ATOM      5  CA  LEU     5       4.365  29.019  23.747  1.00 25.00           C
ATOM      6  CA  CYS     6       3.854  32.110  21.588  1.00 25.00           C
ATOM      7  CA  LEU     7       7.310  33.506  21.970  1.00 25.00           C
ATOM      8  CA  GLY     8       7.650  36.702  19.971  1.00 25.00           C
ATOM      9  CA  LEU     9       9.062  40.228  20.475  1.00 25.00           C
ATOM     10  CA  ASP    10       5.816  42.199  20.899  1.00 25.00           C
ATOM     11  CA  ASN    11       3.540  44.096  18.422  1.00 25.00           C
ATOM     12  CA  SER    12       5.468  42.000  15.888  1.00 25.00           C
ATOM     13  CA  GLY    13       2.340  39.848  15.620  1.00 25.00           C
ATOM     14  CA  LYS    14       0.323  38.357  18.451  1.00 25.00           C
ATOM     15  CA  THR    15      -2.689  38.357  20.817  1.00 25.00           C
ATOM     16  CA  THR    16      -4.976  39.449  17.946  1.00 25.00           C
ATOM     17  CA  ILE    17      -3.583  36.645  15.739  1.00 25.00           C
ATOM     18  CA  ILE    18      -4.193  34.104  18.540  1.00 25.00           C
ATOM     19  CA  ASN    19      -7.787  35.368  18.936  1.00 25.00           C
ATOM     20  CA  LYS    20      -8.342  35.047  15.160  1.00 25.00           C
ATOM     21  CA  LEU    21      -6.969  31.473  15.238  1.00 25.00           C
ATOM     22  CA  LYS    22      -9.304  30.612  18.148  1.00 25.00           C
ATOM     23  CA  PRO    23     -12.742  31.205  16.595  1.00 25.00           C
ATOM     24  CA  SER    24     -13.697  32.414  20.057  1.00 25.00           C
ATOM     25  CA  ASN    25     -14.594  35.656  18.243  1.00 25.00           C
ATOM     26  CA  ALA    26     -12.561  37.274  21.085  1.00 25.00           C
ATOM     27  CA  GLN    27     -13.124  40.967  20.202  1.00 25.00           C
ATOM     28  CA  SER    28     -11.699  42.693  17.114  1.00 25.00           C
ATOM     29  CA  GLN    29      -9.732  45.389  19.020  1.00 25.00           C
ATOM     30  CA  ASN    30      -8.674  46.029  22.617  1.00 25.00           C
ATOM     31  CA  ILE    31      -5.087  47.137  21.961  1.00 25.00           C
ATOM     32  CA  LEU    32      -4.037  46.705  25.561  1.00 25.00           C
ATOM     33  CA  PRO    33      -0.627  45.113  25.523  1.00 25.00           C
ATOM     34  CA  THR    34       0.119  41.908  27.402  1.00 25.00           C
ATOM     35  CA  ILE    35       0.885  43.687  30.637  1.00 25.00           C
ATOM     36  CA  GLY    36       1.268  40.131  32.047  1.00 25.00           C
ATOM     37  CA  PHE    37      -0.604  37.547  29.915  1.00 25.00           C
ATOM     38  CA  SER    38      -4.009  36.622  28.494  1.00 25.00           C
ATOM     39  CA  ILE    39      -4.181  32.801  28.255  1.00 25.00           C
ATOM     40  CA  GLU    40      -6.612  30.378  26.599  1.00 25.00           C
ATOM     41  CA  LYS    41      -8.151  26.932  26.493  1.00 25.00           C
ATOM     42  CA  PHE    42      -8.679  26.587  22.691  1.00 25.00           C
ATOM     43  CA  LYS    43     -11.173  24.184  21.133  1.00 25.00           C
ATOM     44  CA  SER    44     -11.198  21.705  18.242  1.00 25.00           C
ATOM     45  CA  SER    45     -13.202  18.543  19.162  1.00 25.00           C
ATOM     46  CA  SER    46     -11.018  16.984  21.866  1.00 25.00           C
ATOM     47  CA  LEU    47      -7.395  18.050  22.154  1.00 25.00           C
ATOM     48  CA  SER    48      -7.251  21.709  23.131  1.00 25.00           C
ATOM     49  CA  PHE    49      -4.475  23.858  21.700  1.00 25.00           C
ATOM     50  CA  THR    50      -3.571  26.702  24.022  1.00 25.00           C
ATOM     51  CA  VAL    51      -1.595  29.955  23.791  1.00 25.00           C
ATOM     52  CA  PHE    52       0.763  31.276  26.430  1.00 25.00           C
ATOM     53  CA  ASP    53       1.120  34.956  25.349  1.00 25.00           C
ATOM     54  CA  MET    54       4.696  36.090  25.889  1.00 25.00           C
ATOM     55  CA  SER    55       5.284  39.881  25.686  1.00 25.00           C
ATOM     56  CA  GLY    56       8.959  40.990  25.489  1.00 25.00           C
ATOM     57  CA  GLN    57      10.594  42.743  28.400  1.00 25.00           C
ATOM     58  CA  GLY    58      12.068  41.224  31.594  1.00 25.00           C
ATOM     59  CA  ARG    59       8.544  40.631  32.972  1.00 25.00           C
ATOM     60  CA  TYR    60       7.662  38.542  29.885  1.00 25.00           C
ATOM     61  CA  ARG    61      10.859  36.481  30.336  1.00 25.00           C
ATOM     62  CA  ASN    62       9.997  35.905  34.022  1.00 25.00           C
ATOM     63  CA  LEU    63       6.466  34.787  33.048  1.00 25.00           C
ATOM     64  CA  TRP    64       7.920  32.371  30.456  1.00 25.00           C
ATOM     65  CA  GLU    65      10.312  30.949  33.087  1.00 25.00           C
ATOM     66  CA  HIS    66       7.393  30.478  35.522  1.00 25.00           C
ATOM     67  CA  TYR    67       5.381  28.684  32.802  1.00 25.00           C
ATOM     68  CA  TYR    68       8.365  26.397  32.068  1.00 25.00           C
ATOM     69  CA  LYS    69       7.570  22.754  32.625  1.00 25.00           C
ATOM     70  CA  GLU    70       4.901  21.002  30.589  1.00 25.00           C
ATOM     71  CA  GLY    71       4.663  22.153  26.954  1.00 25.00           C
ATOM     72  CA  GLN    72       3.356  20.493  23.753  1.00 25.00           C
ATOM     73  CA  ALA    73       4.123  23.052  21.010  1.00 25.00           C
ATOM     74  CA  ILE    74       6.266  26.009  19.930  1.00 25.00           C
ATOM     75  CA  ILE    75       3.509  28.111  18.325  1.00 25.00           C
ATOM     76  CA  PHE    76       5.724  30.936  16.903  1.00 25.00           C
ATOM     77  CA  VAL    77       4.171  34.422  17.077  1.00 25.00           C
ATOM     78  CA  ILE    78       6.759  36.239  14.930  1.00 25.00           C
ATOM     79  CA  ASP    79       7.443  38.976  12.378  1.00 25.00           C
ATOM     80  CA  SER    80       7.562  39.549   8.620  1.00 25.00           C
ATOM     81  CA  SER    81       8.273  43.255   8.643  1.00 25.00           C
ATOM     82  CA  ASP    82      10.642  44.125  11.431  1.00 25.00           C
ATOM     83  CA  ARG    83      14.484  44.036  11.696  1.00 25.00           C
ATOM     84  CA  LEU    84      15.146  44.514  15.438  1.00 25.00           C
ATOM     85  CA  ARG    85      11.955  42.569  16.276  1.00 25.00           C
ATOM     86  CA  MET    86      13.032  39.741  13.929  1.00 25.00           C
ATOM     87  CA  VAL    87      16.480  39.641  15.592  1.00 25.00           C
ATOM     88  CA  VAL    88      14.836  39.478  19.047  1.00 25.00           C
ATOM     89  CA  ALA    89      12.590  36.608  17.870  1.00 25.00           C
ATOM     90  CA  LYS    90      15.645  34.743  16.509  1.00 25.00           C
ATOM     91  CA  GLU    91      17.462  35.234  19.845  1.00 25.00           C
ATOM     92  CA  GLU    92      14.407  33.903  21.733  1.00 25.00           C
ATOM     93  CA  LEU    93      14.283  30.848  19.428  1.00 25.00           C
ATOM     94  CA  ASP    94      18.012  30.214  20.027  1.00 25.00           C
ATOM     95  CA  THR    95      17.472  30.464  23.809  1.00 25.00           C
ATOM     96  CA  LEU    96      14.562  27.985  23.582  1.00 25.00           C
ATOM     97  CA  LEU    97      16.744  25.570  21.565  1.00 25.00           C
ATOM     98  CA  ASN    98      19.161  25.755  24.439  1.00 25.00           C
ATOM     99  CA  HIS    99      16.887  24.722  27.304  1.00 25.00           C
ATOM    100  CA  PRO   100      15.538  22.323  29.950  1.00 25.00           C
ATOM    101  CA  ASP   101      12.495  23.395  31.832  1.00 25.00           C
ATOM    102  CA  ILE   102      10.639  23.557  28.544  1.00 25.00           C
ATOM    103  CA  LYS   103      11.064  19.801  28.616  1.00 25.00           C
ATOM    104  CA  HIS   104      14.209  17.925  27.476  1.00 25.00           C
ATOM    105  CA  ARG   105      12.835  18.094  23.945  1.00 25.00           C
ATOM    106  CA  ARG   106      10.009  16.725  21.798  1.00 25.00           C
ATOM    107  CA  ILE   107       8.579  19.997  20.654  1.00 25.00           C
ATOM    108  CA  PRO   108       7.410  21.514  17.423  1.00 25.00           C
ATOM    109  CA  ILE   109       6.281  24.369  15.181  1.00 25.00           C
ATOM    110  CA  LEU   110       4.836  27.029  12.882  1.00 25.00           C
ATOM    111  CA  PHE   111       7.195  29.923  12.100  1.00 25.00           C
ATOM    112  CA  PHE   112       4.011  31.899  12.098  1.00 25.00           C
ATOM    113  CA  ALA   113       5.051  35.051  10.259  1.00 25.00           C
ATOM    114  CA  ASN   114       2.791  38.132  10.650  1.00 25.00           C
ATOM    115  CA  LYS   115       2.245  40.399   7.589  1.00 25.00           C
ATOM    116  CA  MET   116       2.364  38.222   4.474  1.00 25.00           C
ATOM    117  CA  ASP   117      -0.131  40.501   2.735  1.00 25.00           C
ATOM    118  CA  LEU   118       2.190  43.469   2.948  1.00 25.00           C
ATOM    119  CA  ARG   119       4.597  45.406   0.744  1.00 25.00           C
ATOM    120  CA  ASP   120       8.127  43.999   0.620  1.00 25.00           C
ATOM    121  CA  ALA   121       7.324  41.840   3.631  1.00 25.00           C
ATOM    122  CA  VAL   122      10.610  39.959   3.867  1.00 25.00           C
ATOM    123  CA  THR   123       8.693  37.436   1.684  1.00 25.00           C
ATOM    124  CA  SER   124       9.497  34.181   3.478  1.00 25.00           C
ATOM    125  CA  VAL   125      12.210  31.762   2.271  1.00 25.00           C
ATOM    126  CA  LYS   126      14.912  34.357   3.062  1.00 25.00           C
ATOM    127  CA  VAL   127      13.441  34.856   6.564  1.00 25.00           C
ATOM    128  CA  SER   128      13.431  31.067   7.125  1.00 25.00           C
ATOM    129  CA  GLN   129      17.085  30.865   5.999  1.00 25.00           C
ATOM    130  CA  LEU   130      18.007  33.704   8.398  1.00 25.00           C
ATOM    131  CA  LEU   131      16.213  31.900  11.261  1.00 25.00           C
ATOM    132  CA  CYS   132      19.627  30.534  12.274  1.00 25.00           C
ATOM    133  CA  LEU   133      17.541  28.215  14.419  1.00 25.00           C
ATOM    134  CA  GLU   134      20.169  25.639  13.351  1.00 25.00           C
ATOM    135  CA  ASN   135      19.023  23.931  10.152  1.00 25.00           C
ATOM    136  CA  ILE   136      16.345  21.998  12.018  1.00 25.00           C
ATOM    137  CA  LYS   137      18.006  19.241  13.926  1.00 25.00           C
ATOM    138  CA  ASP   138      15.485  16.596  14.934  1.00 25.00           C
ATOM    139  CA  LYS   139      12.882  19.320  14.955  1.00 25.00           C
ATOM    140  CA  PRO   140       9.489  18.608  13.246  1.00 25.00           C
ATOM    141  CA  TRP   141       9.612  22.189  12.062  1.00 25.00           C
ATOM    142  CA  HIS   142       8.156  24.789   9.791  1.00 25.00           C
ATOM    143  CA  ILE   143       7.034  27.744   7.595  1.00 25.00           C
ATOM    144  CA  CYS   144       3.244  27.791   8.051  1.00 25.00           C
ATOM    145  CA  ALA   145       3.038  31.129   6.153  1.00 25.00           C
ATOM    146  CA  SER   146       0.526  33.656   7.355  1.00 25.00           C
ATOM    147  CA  ASP   147      -1.551  36.771   7.679  1.00 25.00           C
ATOM    148  CA  ALA   148      -3.704  38.024  10.607  1.00 25.00           C
ATOM    149  CA  ILE   149      -5.034  40.734   8.277  1.00 25.00           C
ATOM    150  CA  LYS   150      -6.147  38.311   5.564  1.00 25.00           C
ATOM    151  CA  GLY   151      -6.710  35.238   7.707  1.00 25.00           C
ATOM    152  CA  GLU   152      -5.088  32.915   5.162  1.00 25.00           C
ATOM    153  CA  GLY   153      -3.539  30.371   7.458  1.00 25.00           C
ATOM    154  CA  LEU   154      -2.382  29.256  10.845  1.00 25.00           C
ATOM    155  CA  GLN   155      -5.105  26.565  10.975  1.00 25.00           C
ATOM    156  CA  GLU   156      -2.902  24.203   8.917  1.00 25.00           C
ATOM    157  CA  GLY   157       0.039  24.843  11.285  1.00 25.00           C
ATOM    158  CA  VAL   158      -2.200  24.111  14.304  1.00 25.00           C
ATOM    159  CA  ASP   159      -3.379  20.853  12.672  1.00 25.00           C
ATOM    160  CA  TRP   160       0.254  19.845  12.003  1.00 25.00           C
ATOM    161  CA  LEU   161       1.156  20.581  15.651  1.00 25.00           C
ATOM    162  CA  GLN   162      -1.806  18.463  16.836  1.00 25.00           C
ATOM    163  CA  ASP   163      -0.694  15.590  14.560  1.00 25.00           C
ATOM    164  CA  GLN   164       2.867  15.835  15.948  1.00 25.00           C
ATOM    165  CA  ILE   165       1.556  15.633  19.502  1.00 25.00           C
TER
END
