
#######################################################
#                                                     #
#                        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  112 (  112),  selected  112 , name T0283TS168_3
# Molecule2: number of CA atoms  112 (  888),  selected  112 , name T0283
# PARAMETERS: T0283TS168_3.T0283  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    S       2      S       2           -
LGA    -       -      F       3           -
LGA    -       -      I       4           -
LGA    -       -      E       5           -
LGA    F       3      K       6           #
LGA    I       4      M       7          3.870
LGA    E       5      I       8          2.198
LGA    K       6      G       9          4.092
LGA    M       7      S      10          2.548
LGA    -       -      L      11           -
LGA    I       8      N      12          1.854
LGA    G       9      D      13          2.871
LGA    S      10      K      14          4.909
LGA    L      11      R      15          4.284
LGA    N      12      E      16          3.952
LGA    D      13      -       -           -
LGA    K      14      -       -           -
LGA    R      15      W      17           #
LGA    E      16      K      18           -
LGA    W      17      A      19           -
LGA    K      18      M      20           #
LGA    A      19      E      21           -
LGA    M      20      A      22           -
LGA    E      21      -       -           -
LGA    A      22      -       -           -
LGA    R      23      -       -           -
LGA    A      24      -       -           -
LGA    K      25      -       -           -
LGA    A      26      -       -           -
LGA    L      27      -       -           -
LGA    P      28      -       -           -
LGA    K      29      -       -           -
LGA    E      30      -       -           -
LGA    Y      31      R      23          3.877
LGA    H      32      A      24          4.295
LGA    H      33      -       -           -
LGA    A      34      -       -           -
LGA    Y      35      K      25          1.487
LGA    K      36      A      26          2.258
LGA    A      37      L      27          4.664
LGA    I      38      -       -           -
LGA    Q      39      -       -           -
LGA    K      40      -       -           -
LGA    Y      41      -       -           -
LGA    M      42      -       -           -
LGA    W      43      -       -           -
LGA    T      44      -       -           -
LGA    S      45      -       -           -
LGA    G      46      -       -           -
LGA    G      47      -       -           -
LGA    P      48      -       -           -
LGA    T      49      -       -           -
LGA    D      50      -       -           -
LGA    W      51      -       -           -
LGA    Q      52      -       -           -
LGA    D      53      P      28          3.160
LGA    T      54      K      29          3.463
LGA    K      55      E      30          3.861
LGA    R      56      Y      31           #
LGA    I      57      H      32           -
LGA    -       -      H      33           -
LGA    -       -      A      34           -
LGA    -       -      Y      35           -
LGA    -       -      K      36           -
LGA    -       -      A      37           -
LGA    -       -      I      38           -
LGA    -       -      Q      39           -
LGA    -       -      K      40           -
LGA    -       -      Y      41           -
LGA    -       -      M      42           -
LGA    -       -      W      43           -
LGA    -       -      T      44           -
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    -       -      G      47           -
LGA    -       -      P      48           -
LGA    -       -      T      49           -
LGA    -       -      D      50           -
LGA    -       -      W      51           -
LGA    -       -      Q      52           -
LGA    -       -      D      53           -
LGA    -       -      T      54           -
LGA    -       -      K      55           -
LGA    -       -      R      56           -
LGA    -       -      I      57           -
LGA    -       -      F      58           -
LGA    -       -      G      59           -
LGA    -       -      G      60           -
LGA    -       -      I      61           -
LGA    -       -      L      62           -
LGA    -       -      D      63           -
LGA    -       -      L      64           -
LGA    -       -      F      65           -
LGA    -       -      E      66           -
LGA    F      58      E      67           #
LGA    G      59      G      68          4.643
LGA    G      60      A      69          4.145
LGA    I      61      A      70          1.041
LGA    L      62      E      71          2.386
LGA    D      63      G      72           #
LGA    L      64      -       -           -
LGA    F      65      -       -           -
LGA    E      66      -       -           -
LGA    E      67      -       -           -
LGA    G      68      -       -           -
LGA    A      69      -       -           -
LGA    A      70      -       -           -
LGA    E      71      -       -           -
LGA    G      72      -       -           -
LGA    K      73      -       -           -
LGA    K      74      -       -           -
LGA    V      75      K      73          4.847
LGA    T      76      -       -           -
LGA    D      77      -       -           -
LGA    L      78      -       -           -
LGA    T      79      -       -           -
LGA    G      80      -       -           -
LGA    E      81      -       -           -
LGA    D      82      -       -           -
LGA    V      83      K      74          4.393
LGA    A      84      V      75          4.681
LGA    A      85      -       -           -
LGA    F      86      -       -           -
LGA    C      87      -       -           -
LGA    D      88      T      76          4.782
LGA    -       -      D      77           -
LGA    -       -      L      78           -
LGA    -       -      T      79           -
LGA    -       -      G      80           -
LGA    E      89      E      81          3.058
LGA    L      90      D      82          5.058
LGA    M      91      V      83          3.370
LGA    K      92      A      84          2.106
LGA    D      93      A      85          2.210
LGA    T      94      F      86          3.813
LGA    K      95      C      87          3.768
LGA    T      96      D      88          4.476
LGA    W      97      E      89           #
LGA    M      98      L      90           #
LGA    D      99      M      91           #
LGA    K     100      K      92           #
LGA    -       -      D      93           -
LGA    Y     101      T      94          4.721
LGA    R     102      K      95          4.596
LGA    -       -      T      96           -
LGA    -       -      W      97           -
LGA    T     103      M      98          1.638
LGA    K     104      D      99          1.935
LGA    L     105      K     100          3.538
LGA    N     106      Y     101          3.447
LGA    D     107      R     102          2.920
LGA    S     108      T     103          4.102
LGA    I     109      K     104           -
LGA    G     110      L     105           -
LGA    R     111      N     106           -
LGA    D     112      D     107           -
LGA    -       -      S     108           -
LGA    -       -      I     109           -
LGA    -       -      G     110           -
LGA    -       -      R     111           -
LGA    -       -      D     112           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  112  112    5.0     41    3.66     4.88     20.386     1.090

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.463116 * X  +  -0.860613 * Y  +   0.211822 * Z  +  18.082741
  Y_new =  -0.723943 * X  +   0.505195 * Y  +   0.469771 * Z  +  26.084484
  Z_new =  -0.511302 * X  +   0.064212 * Y  +  -0.856999 * Z  +  -5.760262 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.066806   -0.074786  [ DEG:   175.7151     -4.2849 ]
  Theta =   0.536699    2.604893  [ DEG:    30.7506    149.2494 ]
  Phi   =  -2.139906    1.001686  [ DEG:  -122.6076     57.3924 ]
 
# 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: T0283TS168_3                                  
REMARK     2: T0283                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0283TS168_3.T0283 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  112  112   5.0   41   3.66    4.88  20.386
REMARK  ---------------------------------------------------------- 
MOLECULE T0283TS168_3
PFRMAT TS
TARGET T0283
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      34.492  17.694   8.007  1.00 25.00           C
ATOM      2  CA  SER     2      33.107  15.181  10.509  1.00 25.00           C
ATOM      3  CA  PHE     3      32.319  12.240  12.846  1.00 25.00           C
ATOM      4  CA  ILE     4      30.608   9.967  10.282  1.00 25.00           C
ATOM      5  CA  GLU     5      27.271  10.363  12.122  1.00 25.00           C
ATOM      6  CA  LYS     6      27.701  14.168  12.133  1.00 25.00           C
ATOM      7  CA  MET     7      28.449  14.120   8.378  1.00 25.00           C
ATOM      8  CA  ILE     8      25.319  12.001   7.757  1.00 25.00           C
ATOM      9  CA  GLY     9      23.221  14.454   9.816  1.00 25.00           C
ATOM     10  CA  SER    10      24.639  17.392   7.808  1.00 25.00           C
ATOM     11  CA  LEU    11      23.807  15.587   4.534  1.00 25.00           C
ATOM     12  CA  ASN    12      20.237  14.946   5.766  1.00 25.00           C
ATOM     13  CA  ASP    13      19.870  18.643   6.699  1.00 25.00           C
ATOM     14  CA  LYS    14      21.128  19.669   3.231  1.00 25.00           C
ATOM     15  CA  ARG    15      18.619  17.287   1.589  1.00 25.00           C
ATOM     16  CA  GLU    16      15.793  18.757   3.716  1.00 25.00           C
ATOM     17  CA  TRP    17      16.844  22.298   2.705  1.00 25.00           C
ATOM     18  CA  LYS    18      16.865  21.268  -0.983  1.00 25.00           C
ATOM     19  CA  ALA    19      13.368  19.753  -0.605  1.00 25.00           C
ATOM     20  CA  MET    20      12.122  22.980   1.039  1.00 25.00           C
ATOM     21  CA  GLU    21      13.612  25.043  -1.822  1.00 25.00           C
ATOM     22  CA  ALA    22      11.901  22.769  -4.386  1.00 25.00           C
ATOM     23  CA  ARG    23       8.565  23.166  -2.547  1.00 25.00           C
ATOM     24  CA  ALA    24       8.996  26.971  -2.535  1.00 25.00           C
ATOM     25  CA  LYS    25       9.743  26.923  -6.291  1.00 25.00           C
ATOM     26  CA  ALA    26       6.613  24.804  -6.911  1.00 25.00           C
ATOM     27  CA  LEU    27       9.185  22.458  -8.579  1.00 25.00           C
ATOM     28  CA  PRO    28      12.027  19.875  -8.726  1.00 25.00           C
ATOM     29  CA  LYS    29      14.926  19.558  -6.238  1.00 25.00           C
ATOM     30  CA  GLU    30      16.233  22.582  -8.191  1.00 25.00           C
ATOM     31  CA  TYR    31      19.728  22.056  -6.714  1.00 25.00           C
ATOM     32  CA  HIS    32      19.613  18.357  -7.696  1.00 25.00           C
ATOM     33  CA  HIS    33      18.565  19.308 -11.255  1.00 25.00           C
ATOM     34  CA  ALA    34      21.450  21.818 -11.459  1.00 25.00           C
ATOM     35  CA  TYR    35      23.902  19.136 -10.252  1.00 25.00           C
ATOM     36  CA  LYS    36      22.572  16.698 -12.889  1.00 25.00           C
ATOM     37  CA  ALA    37      22.988  19.368 -15.603  1.00 25.00           C
ATOM     38  CA  ILE    38      26.581  20.019 -14.445  1.00 25.00           C
ATOM     39  CA  GLN    39      27.323  16.265 -14.556  1.00 25.00           C
ATOM     40  CA  LYS    40      25.879  16.058 -18.098  1.00 25.00           C
ATOM     41  CA  TYR    41      28.045  19.027 -19.180  1.00 25.00           C
ATOM     42  CA  MET    42      31.143  17.343 -17.685  1.00 25.00           C
ATOM     43  CA  TRP    43      30.308  14.100 -19.545  1.00 25.00           C
ATOM     44  CA  THR    44      29.906  16.052 -22.816  1.00 25.00           C
ATOM     45  CA  SER    45      26.193  16.587 -23.294  1.00 25.00           C
ATOM     46  CA  GLY    46      25.867  20.336 -23.889  1.00 25.00           C
ATOM     47  CA  GLY    47      27.629  23.603 -22.951  1.00 25.00           C
ATOM     48  CA  PRO    48      27.235  27.113 -21.552  1.00 25.00           C
ATOM     49  CA  THR    49      28.456  27.923 -18.002  1.00 25.00           C
ATOM     50  CA  ASP    50      28.999  29.918 -14.792  1.00 25.00           C
ATOM     51  CA  TRP    51      25.468  30.079 -13.398  1.00 25.00           C
ATOM     52  CA  GLN    52      24.069  30.372 -16.950  1.00 25.00           C
ATOM     53  CA  ASP    53      23.704  26.565 -17.147  1.00 25.00           C
ATOM     54  CA  THR    54      21.880  26.541 -13.781  1.00 25.00           C
ATOM     55  CA  LYS    55      19.528  29.305 -15.007  1.00 25.00           C
ATOM     56  CA  ARG    56      18.819  27.316 -18.202  1.00 25.00           C
ATOM     57  CA  ILE    57      18.066  24.191 -16.120  1.00 25.00           C
ATOM     58  CA  PHE    58      15.687  26.212 -13.902  1.00 25.00           C
ATOM     59  CA  GLY    59      13.915  27.582 -17.009  1.00 25.00           C
ATOM     60  CA  GLY    60      13.560  24.032 -18.402  1.00 25.00           C
ATOM     61  CA  ILE    61      12.104  22.842 -15.066  1.00 25.00           C
ATOM     62  CA  LEU    62       9.615  25.753 -15.085  1.00 25.00           C
ATOM     63  CA  ASP    63       8.584  24.880 -18.669  1.00 25.00           C
ATOM     64  CA  LEU    64       8.081  21.221 -17.659  1.00 25.00           C
ATOM     65  CA  PHE    65       5.936  22.312 -14.680  1.00 25.00           C
ATOM     66  CA  GLU    66       3.834  24.540 -16.978  1.00 25.00           C
ATOM     67  CA  GLU    67       3.359  21.622 -19.414  1.00 25.00           C
ATOM     68  CA  GLY    68       2.276  19.354 -16.523  1.00 25.00           C
ATOM     69  CA  ALA    69      -0.223  22.007 -15.346  1.00 25.00           C
ATOM     70  CA  ALA    70      -1.622  22.301 -18.900  1.00 25.00           C
ATOM     71  CA  GLU    71      -0.199  25.212 -20.802  1.00 25.00           C
ATOM     72  CA  GLY    72       2.189  27.698 -22.317  1.00 25.00           C
ATOM     73  CA  LYS    73       5.930  28.401 -22.277  1.00 25.00           C
ATOM     74  CA  LYS    74       7.369  30.901 -19.795  1.00 25.00           C
ATOM     75  CA  VAL    75       8.330  32.337 -16.461  1.00 25.00           C
ATOM     76  CA  THR    76       5.246  34.561 -16.006  1.00 25.00           C
ATOM     77  CA  ASP    77       7.459  37.412 -14.726  1.00 25.00           C
ATOM     78  CA  LEU    78       9.772  37.007 -17.752  1.00 25.00           C
ATOM     79  CA  THR    79      12.775  37.556 -20.091  1.00 25.00           C
ATOM     80  CA  GLY    80      16.381  36.304 -20.403  1.00 25.00           C
ATOM     81  CA  GLU    81      19.053  38.635 -18.957  1.00 25.00           C
ATOM     82  CA  ASP    82      16.377  40.494 -16.943  1.00 25.00           C
ATOM     83  CA  VAL    83      15.035  37.164 -15.608  1.00 25.00           C
ATOM     84  CA  ALA    84      18.577  36.109 -14.605  1.00 25.00           C
ATOM     85  CA  ALA    85      19.090  39.453 -12.808  1.00 25.00           C
ATOM     86  CA  PHE    86      15.770  38.993 -10.955  1.00 25.00           C
ATOM     87  CA  CYS    87      16.811  35.458  -9.916  1.00 25.00           C
ATOM     88  CA  ASP    88      20.170  36.792  -8.649  1.00 25.00           C
ATOM     89  CA  GLU    89      18.363  39.511  -6.648  1.00 25.00           C
ATOM     90  CA  LEU    90      16.032  36.880  -5.129  1.00 25.00           C
ATOM     91  CA  MET    91      19.048  34.722  -4.178  1.00 25.00           C
ATOM     92  CA  LYS    92      20.733  37.750  -2.546  1.00 25.00           C
ATOM     93  CA  ASP    93      17.531  38.504  -0.585  1.00 25.00           C
ATOM     94  CA  THR    94      17.360  34.861   0.584  1.00 25.00           C
ATOM     95  CA  LYS    95      21.021  35.020   1.696  1.00 25.00           C
ATOM     96  CA  THR    96      20.321  38.256   3.622  1.00 25.00           C
ATOM     97  CA  TRP    97      17.303  36.620   5.321  1.00 25.00           C
ATOM     98  CA  MET    98      19.452  33.600   6.286  1.00 25.00           C
ATOM     99  CA  ASP    99      22.124  35.931   7.732  1.00 25.00           C
ATOM    100  CA  LYS   100      19.448  37.790   9.745  1.00 25.00           C
ATOM    101  CA  TYR   101      18.105  34.460  11.080  1.00 25.00           C
ATOM    102  CA  ARG   102      21.648  33.406  12.083  1.00 25.00           C
ATOM    103  CA  THR   103      22.161  36.749  13.880  1.00 25.00           C
ATOM    104  CA  LYS   104      18.841  36.289  15.733  1.00 25.00           C
ATOM    105  CA  LEU   105      19.881  32.753  16.773  1.00 25.00           C
ATOM    106  CA  ASN   106      23.240  34.088  18.039  1.00 25.00           C
ATOM    107  CA  ASP   107      21.433  36.808  20.041  1.00 25.00           C
ATOM    108  CA  SER   108      19.102  34.175  21.559  1.00 25.00           C
ATOM    109  CA  ILE   109      22.120  32.017  22.511  1.00 25.00           C
ATOM    110  CA  GLY   110      19.461  29.538  23.768  1.00 25.00           C
ATOM    111  CA  ARG   111      17.915  26.095  23.910  1.00 25.00           C
ATOM    112  CA  ASP   112      18.455  22.858  22.060  1.00 25.00           C
TER
END
