
#######################################################
#                                                     #
#                        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  141 (  141),  selected  141 , name T0357TS168_5
# Molecule2: number of CA atoms  132 ( 2030),  selected  132 , name T0357.pdb
# PARAMETERS: T0357TS168_5.T0357.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      V       2           -
LGA    -       -      K       3           -
LGA    -       -      F       4           -
LGA    -       -      A       5           -
LGA    -       -      C       6           -
LGA    -       -      R       7           -
LGA    -       -      A       8           -
LGA    -       -      I       9           -
LGA    -       -      T      10           -
LGA    -       -      R      11           -
LGA    -       -      G      12           -
LGA    -       -      R      13           -
LGA    -       -      A      14           -
LGA    -       -      E      15           -
LGA    -       -      G      16           -
LGA    -       -      E      17           -
LGA    V       2      A      18           #
LGA    K       3      L      19          3.046
LGA    F       4      -       -           -
LGA    A       5      V      20          4.883
LGA    C       6      T      21           #
LGA    R       7      K      22           -
LGA    A       8      E      23           #
LGA    I       9      Y      24          3.373
LGA    T      10      I      25          2.176
LGA    R      11      -       -           -
LGA    G      12      -       -           -
LGA    R      13      -       -           -
LGA    A      14      -       -           -
LGA    E      15      -       -           -
LGA    G      16      -       -           -
LGA    E      17      -       -           -
LGA    A      18      -       -           -
LGA    L      19      -       -           -
LGA    V      20      -       -           -
LGA    T      21      -       -           -
LGA    K      22      -       -           -
LGA    E      23      -       -           -
LGA    Y      24      -       -           -
LGA    I      25      -       -           -
LGA    S      26      -       -           -
LGA    F      27      -       -           -
LGA    L      28      -       -           -
LGA    G      29      -       -           -
LGA    G      30      -       -           -
LGA    I      31      -       -           -
LGA    D      32      -       -           -
LGA    K      33      -       -           -
LGA    E      34      -       -           -
LGA    T      35      -       -           -
LGA    G      36      -       -           -
LGA    I      37      -       -           -
LGA    V      38      -       -           -
LGA    K      39      -       -           -
LGA    E      40      -       -           -
LGA    D      41      -       -           -
LGA    C      42      -       -           -
LGA    E      43      -       -           -
LGA    I      44      -       -           -
LGA    K      45      -       -           -
LGA    G      46      -       -           -
LGA    E      47      -       -           -
LGA    S      48      -       -           -
LGA    V      49      -       -           -
LGA    A      50      -       -           -
LGA    G      51      -       -           -
LGA    R      52      -       -           -
LGA    I      53      -       -           -
LGA    L      54      -       -           -
LGA    V      55      -       -           -
LGA    F      56      -       -           -
LGA    P      57      -       -           -
LGA    G      58      -       -           -
LGA    G      59      -       -           -
LGA    K      60      -       -           -
LGA    G      61      -       -           -
LGA    S      62      -       -           -
LGA    T      63      -       -           -
LGA    V      64      -       -           -
LGA    G      65      S      26          2.311
LGA    S      66      F      27          1.241
LGA    Y      67      L      28          3.396
LGA    V      68      G      29          2.311
LGA    L      69      G      30          3.289
LGA    L      70      I      31          2.594
LGA    N      71      D      32          3.090
LGA    L      72      K      33           -
LGA    R      73      -       -           -
LGA    K      74      E      34           #
LGA    N      75      T      35          2.511
LGA    -       -      G      36           -
LGA    -       -      I      37           -
LGA    -       -      V      38           -
LGA    -       -      K      39           -
LGA    -       -      E      40           -
LGA    -       -      D      41           -
LGA    -       -      C      42           -
LGA    -       -      E      43           -
LGA    -       -      I      44           -
LGA    -       -      K      45           -
LGA    -       -      G      46           -
LGA    -       -      E      47           -
LGA    G      76      S      48          3.107
LGA    V      77      V      49          2.456
LGA    -       -      A      50           -
LGA    -       -      G      51           -
LGA    A      78      R      52          3.759
LGA    P      79      I      53          4.676
LGA    K      80      L      54          3.722
LGA    -       -      V      55           -
LGA    A      81      F      56           #
LGA    I      82      P      57           -
LGA    I      83      G      58           -
LGA    N      84      G      59           -
LGA    K      85      K      60           -
LGA    K      86      G      61           -
LGA    T      87      -       -           -
LGA    E      88      -       -           -
LGA    T      89      -       -           -
LGA    I      90      S      62           #
LGA    -       -      T      63           -
LGA    -       -      V      64           -
LGA    I      91      G      65          3.030
LGA    A      92      S      66          2.663
LGA    V      93      Y      67          2.687
LGA    G      94      V      68          2.736
LGA    A      95      L      69          2.913
LGA    A      96      L      70          2.616
LGA    M      97      N      71          2.703
LGA    A      98      L      72          2.879
LGA    -       -      R      73           -
LGA    -       -      K      74           -
LGA    -       -      N      75           -
LGA    -       -      G      76           -
LGA    -       -      V      77           -
LGA    E      99      A      78          3.114
LGA    I     100      P      79          4.405
LGA    P     101      -       -           -
LGA    L     102      -       -           -
LGA    V     103      -       -           -
LGA    E     104      -       -           -
LGA    V     105      -       -           -
LGA    R     106      -       -           -
LGA    D     107      -       -           -
LGA    E     108      -       -           -
LGA    K     109      -       -           -
LGA    F     110      -       -           -
LGA    F     111      -       -           -
LGA    E     112      -       -           -
LGA    A     113      -       -           -
LGA    V     114      K      80          1.392
LGA    K     115      -       -           -
LGA    T     116      -       -           -
LGA    G     117      A      81          3.662
LGA    D     118      I      82          3.154
LGA    R     119      I      83          3.759
LGA    V     120      N      84           #
LGA    -       -      K      85           -
LGA    -       -      K      86           -
LGA    -       -      T      87           -
LGA    -       -      E      88           -
LGA    -       -      T      89           -
LGA    -       -      I      90           -
LGA    -       -      I      91           -
LGA    V     121      A      92          5.474
LGA    -       -      V      93           -
LGA    -       -      G      94           -
LGA    V     122      A      95          4.345
LGA    N     123      A      96          3.177
LGA    A     124      M      97          5.592
LGA    D     125      A      98           -
LGA    E     126      E      99           #
LGA    G     127      I     100          4.392
LGA    Y     128      P     101          3.859
LGA    V     129      L     102          2.560
LGA    E     130      V     103          2.819
LGA    L     131      E     104          4.138
LGA    I     132      V     105           #
LGA    -       -      R     106           -
LGA    -       -      D     107           -
LGA    -       -      E     108           -
LGA    E     133      K     109           #
LGA    -       -      F     110           -
LGA    L     134      F     111          1.242
LGA    E     135      E     112          1.084
LGA    H     136      A     113           #
LGA    H     137      V     114           -
LGA    H     138      K     115           -
LGA    H     139      T     116           -
LGA    H     140      G     117           -
LGA    H     141      D     118           -
LGA    -       -      R     119           -
LGA    -       -      V     120           -
LGA    -       -      V     121           -
LGA    -       -      V     122           -
LGA    -       -      N     123           -
LGA    -       -      A     124           -
LGA    -       -      D     125           -
LGA    -       -      E     126           -
LGA    -       -      G     127           -
LGA    -       -      Y     128           -
LGA    -       -      V     129           -
LGA    -       -      E     130           -
LGA    -       -      L     131           -
LGA    -       -      I     132           -
LGA    -       -      E     133           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  141  132    5.0     42    3.31     4.76     18.219     1.230

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.352851 * X  +  -0.184413 * Y  +   0.917327 * Z  +   0.090618
  Y_new =  -0.617070 * X  +  -0.782833 * Y  +   0.079981 * Z  +  -2.471306
  Z_new =   0.703364 * X  +  -0.594276 * Y  +  -0.390019 * Z  +   4.029191 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.151583    0.990010  [ DEG:  -123.2766     56.7234 ]
  Theta =  -0.780119   -2.361474  [ DEG:   -44.6975   -135.3025 ]
  Phi   =  -1.051358    2.090235  [ DEG:   -60.2384    119.7616 ]
 
# 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: T0357TS168_5                                  
REMARK     2: T0357.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0357TS168_5.T0357.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  141  132   5.0   42   3.31    4.76  18.219
REMARK  ---------------------------------------------------------- 
MOLECULE T0357TS168_5
PFRMAT TS
TARGET T0357
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      -9.151   5.395 -14.873  1.00 25.00           C
ATOM      2  CA  VAL     2      -8.690   3.315 -11.745  1.00 25.00           C
ATOM      3  CA  LYS     3      -5.749   3.178  -9.275  1.00 25.00           C
ATOM      4  CA  PHE     4      -4.810   1.589  -5.916  1.00 25.00           C
ATOM      5  CA  ALA     5      -7.034   1.074  -2.899  1.00 25.00           C
ATOM      6  CA  CYS     6      -3.978   1.498  -0.664  1.00 25.00           C
ATOM      7  CA  ARG     7      -4.479   2.529   2.988  1.00 25.00           C
ATOM      8  CA  ALA     8      -8.109   2.284   4.079  1.00 25.00           C
ATOM      9  CA  ILE     9      -8.855  -0.917   2.091  1.00 25.00           C
ATOM     10  CA  THR    10     -11.957  -2.901   1.081  1.00 25.00           C
ATOM     11  CA  ARG    11     -15.734  -3.060   1.477  1.00 25.00           C
ATOM     12  CA  GLY    12     -15.900  -1.267   4.773  1.00 25.00           C
ATOM     13  CA  ARG    13     -13.417   1.564   4.785  1.00 25.00           C
ATOM     14  CA  ALA    14     -11.105  -0.829   6.631  1.00 25.00           C
ATOM     15  CA  GLU    15      -9.823  -2.369   9.865  1.00 25.00           C
ATOM     16  CA  GLY    16      -6.539  -4.094   9.274  1.00 25.00           C
ATOM     17  CA  GLU    17      -3.497  -6.075   8.003  1.00 25.00           C
ATOM     18  CA  ALA    18      -1.061  -3.681   9.736  1.00 25.00           C
ATOM     19  CA  LEU    19       2.733  -3.805   9.110  1.00 25.00           C
ATOM     20  CA  VAL    20       2.794  -5.840  12.290  1.00 25.00           C
ATOM     21  CA  THR    21       4.421  -9.072  13.633  1.00 25.00           C
ATOM     22  CA  LYS    22       2.198 -11.472  15.635  1.00 25.00           C
ATOM     23  CA  GLU    23      -0.694 -11.074  17.984  1.00 25.00           C
ATOM     24  CA  TYR    24      -0.816  -7.244  18.321  1.00 25.00           C
ATOM     25  CA  ILE    25      -1.075  -3.497  18.914  1.00 25.00           C
ATOM     26  CA  SER    26       1.888  -1.750  20.541  1.00 25.00           C
ATOM     27  CA  PHE    27       3.981  -3.907  18.304  1.00 25.00           C
ATOM     28  CA  LEU    28       5.736  -5.886  21.013  1.00 25.00           C
ATOM     29  CA  GLY    29       7.987  -8.935  20.454  1.00 25.00           C
ATOM     30  CA  GLY    30      11.090  -7.896  18.480  1.00 25.00           C
ATOM     31  CA  ILE    31       9.667  -5.515  15.796  1.00 25.00           C
ATOM     32  CA  ASP    32       8.872  -2.553  18.061  1.00 25.00           C
ATOM     33  CA  LYS    33       7.482  -0.005  15.599  1.00 25.00           C
ATOM     34  CA  GLU    34       8.809  -0.361  12.074  1.00 25.00           C
ATOM     35  CA  THR    35       9.487   0.308   8.376  1.00 25.00           C
ATOM     36  CA  GLY    36       8.142   3.340   6.545  1.00 25.00           C
ATOM     37  CA  ILE    37       4.533   3.811   5.380  1.00 25.00           C
ATOM     38  CA  VAL    38       1.266   4.805   7.161  1.00 25.00           C
ATOM     39  CA  LYS    39      -0.787   2.639   9.577  1.00 25.00           C
ATOM     40  CA  GLU    40      -1.647   4.772  12.620  1.00 25.00           C
ATOM     41  CA  ASP    41      -4.569   6.905  13.916  1.00 25.00           C
ATOM     42  CA  CYS    42      -3.925   9.032  10.828  1.00 25.00           C
ATOM     43  CA  GLU    43      -1.151  11.051  12.487  1.00 25.00           C
ATOM     44  CA  ILE    44       0.699  11.050   9.196  1.00 25.00           C
ATOM     45  CA  LYS    45       2.704  13.973  10.460  1.00 25.00           C
ATOM     46  CA  GLY    46       4.894  13.884   7.368  1.00 25.00           C
ATOM     47  CA  GLU    47       7.561  12.096   5.390  1.00 25.00           C
ATOM     48  CA  SER    48       7.052   8.388   4.515  1.00 25.00           C
ATOM     49  CA  VAL    49       6.250   7.750   8.213  1.00 25.00           C
ATOM     50  CA  ALA    50       5.555   5.125  10.878  1.00 25.00           C
ATOM     51  CA  GLY    51       4.277   1.632   9.956  1.00 25.00           C
ATOM     52  CA  ARG    52       4.948  -0.349   6.771  1.00 25.00           C
ATOM     53  CA  ILE    53       1.247  -0.128   6.058  1.00 25.00           C
ATOM     54  CA  LEU    54      -2.481  -1.100   6.149  1.00 25.00           C
ATOM     55  CA  VAL    55      -6.256  -0.786   6.421  1.00 25.00           C
ATOM     56  CA  PHE    56      -5.488   0.929   9.733  1.00 25.00           C
ATOM     57  CA  PRO    57      -4.835  -0.779  13.126  1.00 25.00           C
ATOM     58  CA  GLY    58      -4.500  -4.454  14.077  1.00 25.00           C
ATOM     59  CA  GLY    59      -2.821  -7.633  12.887  1.00 25.00           C
ATOM     60  CA  LYS    60      -6.293  -8.956  12.140  1.00 25.00           C
ATOM     61  CA  GLY    61      -9.331  -6.775  12.768  1.00 25.00           C
ATOM     62  CA  SER    62     -12.018  -9.029  11.354  1.00 25.00           C
ATOM     63  CA  THR    63      -9.866 -11.222   9.097  1.00 25.00           C
ATOM     64  CA  VAL    64      -8.950  -8.025   7.310  1.00 25.00           C
ATOM     65  CA  GLY    65      -9.358  -5.221   4.732  1.00 25.00           C
ATOM     66  CA  SER    66      -5.809  -5.856   3.443  1.00 25.00           C
ATOM     67  CA  TYR    67      -6.560  -9.600   3.144  1.00 25.00           C
ATOM     68  CA  VAL    68      -9.777  -8.825   1.214  1.00 25.00           C
ATOM     69  CA  LEU    69      -7.836  -6.512  -1.141  1.00 25.00           C
ATOM     70  CA  LEU    70      -5.221  -9.250  -1.716  1.00 25.00           C
ATOM     71  CA  ASN    71      -7.998 -11.773  -2.485  1.00 25.00           C
ATOM     72  CA  LEU    72      -9.575  -9.319  -4.966  1.00 25.00           C
ATOM     73  CA  ARG    73      -6.178  -8.809  -6.659  1.00 25.00           C
ATOM     74  CA  LYS    74      -5.707 -12.601  -6.914  1.00 25.00           C
ATOM     75  CA  ASN    75      -3.349 -14.509  -9.289  1.00 25.00           C
ATOM     76  CA  GLY    76      -2.149 -11.181 -10.649  1.00 25.00           C
ATOM     77  CA  VAL    77      -1.004  -9.012  -7.692  1.00 25.00           C
ATOM     78  CA  ALA    78       1.300  -5.941  -7.496  1.00 25.00           C
ATOM     79  CA  PRO    79      -0.154  -3.662  -4.865  1.00 25.00           C
ATOM     80  CA  LYS    80      -3.075  -2.316  -2.782  1.00 25.00           C
ATOM     81  CA  ALA    81      -2.692  -2.439   0.968  1.00 25.00           C
ATOM     82  CA  ILE    82      -0.158  -4.401   2.985  1.00 25.00           C
ATOM     83  CA  ILE    83       0.543  -6.893   5.795  1.00 25.00           C
ATOM     84  CA  ASN    84       2.595  -9.205   8.066  1.00 25.00           C
ATOM     85  CA  LYS    85       4.599 -11.628   5.878  1.00 25.00           C
ATOM     86  CA  LYS    86       3.867 -15.361   6.032  1.00 25.00           C
ATOM     87  CA  THR    87       2.313 -14.589   9.435  1.00 25.00           C
ATOM     88  CA  GLU    88      -0.845 -16.195  10.970  1.00 25.00           C
ATOM     89  CA  THR    89      -2.685 -12.915  11.641  1.00 25.00           C
ATOM     90  CA  ILE    90      -5.118 -14.297   9.027  1.00 25.00           C
ATOM     91  CA  ILE    91      -5.170 -10.906   7.247  1.00 25.00           C
ATOM     92  CA  ALA    92      -1.341 -10.822   7.242  1.00 25.00           C
ATOM     93  CA  VAL    93      -1.241 -14.363   5.785  1.00 25.00           C
ATOM     94  CA  GLY    94      -3.726 -13.338   3.058  1.00 25.00           C
ATOM     95  CA  ALA    95      -1.586 -10.274   2.224  1.00 25.00           C
ATOM     96  CA  ALA    96       1.535 -12.484   2.003  1.00 25.00           C
ATOM     97  CA  MET    97      -0.312 -14.901  -0.324  1.00 25.00           C
ATOM     98  CA  ALA    98      -1.413 -11.972  -2.532  1.00 25.00           C
ATOM     99  CA  GLU    99      -0.091  -8.389  -2.361  1.00 25.00           C
ATOM    100  CA  ILE   100       2.464  -5.873  -1.096  1.00 25.00           C
ATOM    101  CA  PRO   101       3.973  -7.364   2.060  1.00 25.00           C
ATOM    102  CA  LEU   102       4.757  -6.412   5.627  1.00 25.00           C
ATOM    103  CA  VAL   103       7.763  -7.629   7.530  1.00 25.00           C
ATOM    104  CA  GLU   104       9.526 -10.865   6.411  1.00 25.00           C
ATOM    105  CA  VAL   105      11.104 -13.730   4.553  1.00 25.00           C
ATOM    106  CA  ARG   106       8.062 -13.780   2.277  1.00 25.00           C
ATOM    107  CA  ASP   107       9.688 -16.774   0.552  1.00 25.00           C
ATOM    108  CA  GLU   108       8.923 -15.439  -2.853  1.00 25.00           C
ATOM    109  CA  LYS   109      10.436 -12.086  -1.991  1.00 25.00           C
ATOM    110  CA  PHE   110       6.914 -10.586  -2.077  1.00 25.00           C
ATOM    111  CA  PHE   111       8.303  -7.197  -0.955  1.00 25.00           C
ATOM    112  CA  GLU   112      10.976  -7.359  -3.695  1.00 25.00           C
ATOM    113  CA  ALA   113       8.291  -8.175  -6.300  1.00 25.00           C
ATOM    114  CA  VAL   114       6.183  -5.214  -5.092  1.00 25.00           C
ATOM    115  CA  LYS   115       9.233  -2.911  -5.342  1.00 25.00           C
ATOM    116  CA  THR   116      10.080   0.628  -6.371  1.00 25.00           C
ATOM    117  CA  GLY   117       6.690   1.470  -4.789  1.00 25.00           C
ATOM    118  CA  ASP   118       3.902  -0.862  -3.705  1.00 25.00           C
ATOM    119  CA  ARG   119       0.883   0.248  -1.677  1.00 25.00           C
ATOM    120  CA  VAL   120       2.902  -0.739   1.324  1.00 25.00           C
ATOM    121  CA  VAL   121       6.130  -2.083   2.695  1.00 25.00           C
ATOM    122  CA  VAL   122       9.146  -3.201   4.722  1.00 25.00           C
ATOM    123  CA  ASN   123      11.573  -4.901   7.101  1.00 25.00           C
ATOM    124  CA  ALA   124      13.303  -6.154   3.941  1.00 25.00           C
ATOM    125  CA  ASP   125      15.195  -3.298   2.424  1.00 25.00           C
ATOM    126  CA  GLU   126      14.058  -1.180  -0.512  1.00 25.00           C
ATOM    127  CA  GLY   127      10.223  -1.313  -0.325  1.00 25.00           C
ATOM    128  CA  TYR   128      10.280   1.289   2.509  1.00 25.00           C
ATOM    129  CA  VAL   129       7.010   2.695   1.170  1.00 25.00           C
ATOM    130  CA  GLU   130       3.770   4.334   0.050  1.00 25.00           C
ATOM    131  CA  LEU   131       0.378   4.412   1.700  1.00 25.00           C
ATOM    132  CA  ILE   132      -1.203   5.983  -1.372  1.00 25.00           C
ATOM    133  CA  GLU   133      -3.689   8.591  -2.586  1.00 25.00           C
ATOM    134  CA  LEU   134      -3.655  11.628  -4.855  1.00 25.00           C
ATOM    135  CA  GLU   135      -5.318  14.483  -6.718  1.00 25.00           C
ATOM    136  CA  HIS   136      -4.578  18.257  -6.820  1.00 25.00           C
ATOM    137  CA  HIS   137      -7.279  20.511  -5.376  1.00 25.00           C
ATOM    138  CA  HIS   138      -9.232  22.262  -2.607  1.00 25.00           C
ATOM    139  CA  HIS   139      -7.070  25.342  -3.002  1.00 25.00           C
ATOM    140  CA  HIS   140      -5.049  28.277  -4.408  1.00 25.00           C
ATOM    141  CA  HIS   141      -6.117  27.511  -7.932  1.00 25.00           C
TER
END
