
#######################################################
#                                                     #
#                        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  126 (  126),  selected  126 , name T0372TS168_5-D1
# Molecule2: number of CA atoms  126 ( 1027),  selected  126 , name T0372_D1.pdb
# PARAMETERS: T0372TS168_5-D1.T0372_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    I       2      -       -           -
LGA    P       3      -       -           -
LGA    F       4      -       -           -
LGA    K       5      -       -           -
LGA    D       6      -       -           -
LGA    I       7      -       -           -
LGA    T       8      -       -           -
LGA    L       9      -       -           -
LGA    A      10      -       -           -
LGA    D      11      -       -           -
LGA    R      12      -       -           -
LGA    D      13      -       -           -
LGA    T      14      -       -           -
LGA    I      15      -       -           -
LGA    T      16      -       -           -
LGA    A      17      -       -           -
LGA    F      18      -       -           -
LGA    T      19      -       -           -
LGA    M      20      -       -           -
LGA    K      21      -       -           -
LGA    S      22      -       -           -
LGA    D      23      -       -           -
LGA    R      24      -       -           -
LGA    R      25      -       -           -
LGA    N      26      -       -           -
LGA    C      27      -       -           -
LGA    D      28      -       -           -
LGA    L      29      -       -           -
LGA    S      30      -       -           -
LGA    F      31      -       -           -
LGA    S      32      -       -           -
LGA    N      33      -       -           -
LGA    L      34      -       -           -
LGA    C      35      -       -           -
LGA    S      36      M       1          4.043
LGA    W      37      I       2          2.728
LGA    R      38      P       3           #
LGA    F      39      -       -           -
LGA    L      40      -       -           -
LGA    Y      41      -       -           -
LGA    D      42      -       -           -
LGA    T      43      -       -           -
LGA    Q      44      -       -           -
LGA    F      45      -       -           -
LGA    A      46      -       -           -
LGA    V      47      -       -           -
LGA    I      48      -       -           -
LGA    D      49      -       -           -
LGA    D      50      -       -           -
LGA    F      51      F       4          4.715
LGA    L      52      K       5          3.066
LGA    V      53      D       6          3.941
LGA    F      54      I       7          2.483
LGA    -       -      T       8           -
LGA    -       -      L       9           -
LGA    -       -      A      10           -
LGA    K      55      D      11          2.984
LGA    -       -      R      12           -
LGA    -       -      D      13           -
LGA    -       -      T      14           -
LGA    -       -      I      15           -
LGA    -       -      T      16           -
LGA    -       -      A      17           -
LGA    -       -      F      18           -
LGA    -       -      T      19           -
LGA    -       -      M      20           -
LGA    -       -      K      21           -
LGA    -       -      S      22           -
LGA    -       -      D      23           -
LGA    -       -      R      24           -
LGA    -       -      R      25           -
LGA    -       -      N      26           -
LGA    -       -      C      27           -
LGA    -       -      D      28           -
LGA    -       -      L      29           -
LGA    -       -      S      30           -
LGA    F      56      F      31          3.488
LGA    W      57      S      32          2.407
LGA    A      58      N      33          2.587
LGA    G      59      L      34          4.690
LGA    E      60      C      35           #
LGA    -       -      S      36           -
LGA    Q      61      W      37          3.312
LGA    -       -      R      38           -
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    L      62      Y      41          2.546
LGA    -       -      D      42           -
LGA    A      63      T      43          2.734
LGA    Y      64      Q      44          3.295
LGA    M      65      F      45          2.944
LGA    M      66      A      46          1.643
LGA    P      67      V      47          4.569
LGA    -       -      I      48           -
LGA    -       -      D      49           -
LGA    -       -      D      50           -
LGA    V      68      F      51          4.217
LGA    G      69      L      52          2.157
LGA    -       -      V      53           -
LGA    -       -      F      54           -
LGA    -       -      K      55           -
LGA    -       -      F      56           -
LGA    -       -      W      57           -
LGA    -       -      A      58           -
LGA    -       -      G      59           -
LGA    -       -      E      60           -
LGA    -       -      Q      61           -
LGA    -       -      L      62           -
LGA    -       -      A      63           -
LGA    -       -      Y      64           -
LGA    -       -      M      65           -
LGA    -       -      M      66           -
LGA    -       -      P      67           -
LGA    N      70      V      68          1.584
LGA    G      71      G      69          2.386
LGA    -       -      N      70           -
LGA    -       -      G      71           -
LGA    D      72      D      72          4.533
LGA    L      73      L      73          4.145
LGA    K      74      K      74          3.832
LGA    A      75      A      75          2.712
LGA    V      76      V      76          2.189
LGA    L      77      L      77          2.041
LGA    R      78      R      78          1.446
LGA    K      79      K      79          0.290
LGA    L      80      L      80          1.144
LGA    I      81      I      81          0.589
LGA    E      82      E      82          1.764
LGA    D      83      D      83          2.681
LGA    A      84      A      84          2.817
LGA    D      85      D      85          2.804
LGA    K      86      K      86          4.533
LGA    E      87      -       -           -
LGA    K      88      -       -           -
LGA    H      89      E      87          3.005
LGA    N      90      K      88          2.029
LGA    F      91      H      89           #
LGA    C      92      N      90           #
LGA    M      93      F      91          3.023
LGA    L      94      C      92          1.641
LGA    G      95      M      93          3.626
LGA    V      96      -       -           -
LGA    C      97      -       -           -
LGA    S      98      -       -           -
LGA    N      99      -       -           -
LGA    M     100      L      94           #
LGA    R     101      G      95           -
LGA    A     102      -       -           -
LGA    D     103      -       -           -
LGA    L     104      V      96          3.673
LGA    E     105      C      97           #
LGA    A     106      S      98          1.936
LGA    I     107      N      99          2.095
LGA    L     108      M     100          2.446
LGA    -       -      R     101           -
LGA    -       -      A     102           -
LGA    P     109      D     103          1.746
LGA    E     110      L     104          2.950
LGA    R     111      E     105          2.121
LGA    -       -      A     106           -
LGA    -       -      I     107           -
LGA    F     112      L     108          3.759
LGA    I     113      P     109           -
LGA    F     114      E     110           -
LGA    T     115      R     111           -
LGA    -       -      F     112           -
LGA    -       -      I     113           -
LGA    -       -      F     114           -
LGA    E     116      T     115           #
LGA    D     117      E     116           #
LGA    K     290      D     117           -
LGA    Y     291      K     290           -
LGA    M     292      Y     291           -
LGA    A     293      M     292           -
LGA    C     294      A     293           -
LGA    L     295      C     294           -
LGA    K     296      L     295           -
LGA    D     297      K     296           -
LGA    H     298      D     297           -
LGA    -       -      H     298           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  126  126    5.0     50    2.99    36.00     23.869     1.619

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.881572 * X  +  -0.438448 * Y  +   0.174909 * Z  +  46.974239
  Y_new =   0.470326 * X  +  -0.784209 * Y  +   0.404733 * Z  +  50.085888
  Z_new =  -0.040290 * X  +   0.439066 * Y  +   0.897551 * Z  +  -2.641274 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.454956   -2.686637  [ DEG:    26.0670   -153.9330 ]
  Theta =   0.040300    3.101292  [ DEG:     2.3090    177.6909 ]
  Phi   =   2.651499   -0.490093  [ DEG:   151.9197    -28.0803 ]
 
# 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: T0372TS168_5-D1                               
REMARK     2: T0372_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS168_5-D1.T0372_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  126  126   5.0   50   2.99   36.00  23.869
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS168_5-D1
PFRMAT TS
TARGET T0372
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      17.995  27.145 -13.187  1.00 25.00           C
ATOM      2  CA  ILE     2      20.210  30.226 -13.198  1.00 25.00           C
ATOM      3  CA  PRO     3      20.511  34.013 -12.593  1.00 25.00           C
ATOM      4  CA  PHE     4      22.246  36.226 -15.153  1.00 25.00           C
ATOM      5  CA  LYS     5      20.104  38.487 -17.336  1.00 25.00           C
ATOM      6  CA  ASP     6      20.856  41.703 -15.567  1.00 25.00           C
ATOM      7  CA  ILE     7      24.401  41.988 -16.865  1.00 25.00           C
ATOM      8  CA  THR     8      23.099  44.074 -19.802  1.00 25.00           C
ATOM      9  CA  LEU     9      24.945  46.735 -21.831  1.00 25.00           C
ATOM     10  CA  ALA    10      28.158  44.703 -21.155  1.00 25.00           C
ATOM     11  CA  ASP    11      31.623  43.326 -20.359  1.00 25.00           C
ATOM     12  CA  ARG    12      32.597  43.955 -24.010  1.00 25.00           C
ATOM     13  CA  ASP    13      31.820  47.683 -23.599  1.00 25.00           C
ATOM     14  CA  THR    14      33.961  47.805 -20.426  1.00 25.00           C
ATOM     15  CA  ILE    15      36.839  46.082 -22.272  1.00 25.00           C
ATOM     16  CA  THR    16      36.543  48.606 -25.139  1.00 25.00           C
ATOM     17  CA  ALA    17      36.612  51.499 -22.631  1.00 25.00           C
ATOM     18  CA  PHE    18      39.730  50.018 -20.970  1.00 25.00           C
ATOM     19  CA  THR    19      41.423  49.686 -24.389  1.00 25.00           C
ATOM     20  CA  MET    20      40.563  53.329 -25.196  1.00 25.00           C
ATOM     21  CA  LYS    21      40.183  56.452 -27.338  1.00 25.00           C
ATOM     22  CA  SER    22      42.966  59.012 -27.226  1.00 25.00           C
ATOM     23  CA  ASP    23      46.281  60.738 -26.441  1.00 25.00           C
ATOM     24  CA  ARG    24      46.513  63.018 -23.423  1.00 25.00           C
ATOM     25  CA  ARG    25      47.240  61.474 -20.005  1.00 25.00           C
ATOM     26  CA  ASN    26      49.426  60.857 -16.894  1.00 25.00           C
ATOM     27  CA  CYS    27      50.565  61.084 -13.235  1.00 25.00           C
ATOM     28  CA  ASP    28      52.812  61.912 -10.266  1.00 25.00           C
ATOM     29  CA  LEU    29      56.087  60.890 -11.997  1.00 25.00           C
ATOM     30  CA  SER    30      58.637  58.106 -12.459  1.00 25.00           C
ATOM     31  CA  PHE    31      56.382  55.908 -10.314  1.00 25.00           C
ATOM     32  CA  SER    32      53.883  53.006 -10.238  1.00 25.00           C
ATOM     33  CA  ASN    33      52.578  54.187  -6.836  1.00 25.00           C
ATOM     34  CA  LEU    34      52.176  57.744  -8.199  1.00 25.00           C
ATOM     35  CA  CYS    35      50.267  56.393 -11.231  1.00 25.00           C
ATOM     36  CA  SER    36      47.977  54.371  -8.920  1.00 25.00           C
ATOM     37  CA  TRP    37      47.327  57.489  -6.795  1.00 25.00           C
ATOM     38  CA  ARG    38      46.488  59.494  -9.949  1.00 25.00           C
ATOM     39  CA  PHE    39      47.029  63.118 -10.857  1.00 25.00           C
ATOM     40  CA  LEU    40      48.894  65.775 -12.759  1.00 25.00           C
ATOM     41  CA  TYR    41      50.588  68.390 -14.919  1.00 25.00           C
ATOM     42  CA  ASP    42      54.143  69.530 -15.445  1.00 25.00           C
ATOM     43  CA  THR    43      54.497  68.990 -11.656  1.00 25.00           C
ATOM     44  CA  GLN    44      56.511  67.882  -8.582  1.00 25.00           C
ATOM     45  CA  PHE    45      55.532  66.761  -5.081  1.00 25.00           C
ATOM     46  CA  ALA    46      56.514  63.305  -6.414  1.00 25.00           C
ATOM     47  CA  VAL    47      55.959  59.978  -4.641  1.00 25.00           C
ATOM     48  CA  ILE    48      55.048  56.869  -2.702  1.00 25.00           C
ATOM     49  CA  ASP    49      55.320  53.048  -2.278  1.00 25.00           C
ATOM     50  CA  ASP    50      52.503  50.524  -2.612  1.00 25.00           C
ATOM     51  CA  PHE    51      51.431  54.179  -2.628  1.00 25.00           C
ATOM     52  CA  LEU    52      48.936  55.495  -0.001  1.00 25.00           C
ATOM     53  CA  VAL    53      47.713  52.956   2.563  1.00 25.00           C
ATOM     54  CA  PHE    54      49.052  52.428   6.066  1.00 25.00           C
ATOM     55  CA  LYS    55      47.050  53.943   8.905  1.00 25.00           C
ATOM     56  CA  PHE    56      45.698  51.612  11.573  1.00 25.00           C
ATOM     57  CA  TRP    57      44.204  50.068  14.685  1.00 25.00           C
ATOM     58  CA  ALA    58      43.436  47.052  12.481  1.00 25.00           C
ATOM     59  CA  GLY    59      40.477  44.813  13.179  1.00 25.00           C
ATOM     60  CA  GLU    60      41.589  41.579  11.406  1.00 25.00           C
ATOM     61  CA  GLN    61      40.623  43.423   8.239  1.00 25.00           C
ATOM     62  CA  LEU    62      41.884  42.511   4.727  1.00 25.00           C
ATOM     63  CA  ALA    63      41.715  46.089   3.327  1.00 25.00           C
ATOM     64  CA  TYR    64      42.040  49.302   1.380  1.00 25.00           C
ATOM     65  CA  MET    65      43.687  52.053  -0.718  1.00 25.00           C
ATOM     66  CA  MET    66      43.881  55.816  -0.887  1.00 25.00           C
ATOM     67  CA  PRO    67      41.234  56.104   1.805  1.00 25.00           C
ATOM     68  CA  VAL    68      37.764  57.531   1.086  1.00 25.00           C
ATOM     69  CA  GLY    69      38.516  60.270   3.664  1.00 25.00           C
ATOM     70  CA  ASN    70      34.990  60.019   5.139  1.00 25.00           C
ATOM     71  CA  GLY    71      34.716  63.547   3.735  1.00 25.00           C
ATOM     72  CA  ASP    72      34.703  63.201  -0.069  1.00 25.00           C
ATOM     73  CA  LEU    73      33.015  59.754   0.363  1.00 25.00           C
ATOM     74  CA  LYS    74      30.805  59.870  -2.761  1.00 25.00           C
ATOM     75  CA  ALA    75      33.567  61.704  -4.678  1.00 25.00           C
ATOM     76  CA  VAL    76      36.119  59.075  -3.567  1.00 25.00           C
ATOM     77  CA  LEU    77      33.770  56.276  -4.717  1.00 25.00           C
ATOM     78  CA  ARG    78      33.334  58.000  -8.108  1.00 25.00           C
ATOM     79  CA  LYS    79      37.134  58.323  -8.460  1.00 25.00           C
ATOM     80  CA  LEU    80      37.551  54.608  -7.626  1.00 25.00           C
ATOM     81  CA  ILE    81      34.908  53.699 -10.243  1.00 25.00           C
ATOM     82  CA  GLU    82      36.709  55.851 -12.848  1.00 25.00           C
ATOM     83  CA  ASP    83      40.028  54.136 -12.006  1.00 25.00           C
ATOM     84  CA  ALA    84      38.374  50.701 -12.373  1.00 25.00           C
ATOM     85  CA  ASP    85      36.930  51.732 -15.767  1.00 25.00           C
ATOM     86  CA  LYS    86      40.385  52.931 -16.901  1.00 25.00           C
ATOM     87  CA  GLU    87      43.126  51.314 -14.785  1.00 25.00           C
ATOM     88  CA  LYS    88      44.940  48.222 -16.110  1.00 25.00           C
ATOM     89  CA  HIS    89      42.162  46.165 -14.524  1.00 25.00           C
ATOM     90  CA  ASN    90      39.208  45.340 -12.275  1.00 25.00           C
ATOM     91  CA  PHE    91      41.386  46.433  -9.393  1.00 25.00           C
ATOM     92  CA  CYS    92      37.970  46.711  -7.844  1.00 25.00           C
ATOM     93  CA  MET    93      34.452  46.988  -6.302  1.00 25.00           C
ATOM     94  CA  LEU    94      32.173  47.077  -3.311  1.00 25.00           C
ATOM     95  CA  GLY    95      28.490  47.993  -3.125  1.00 25.00           C
ATOM     96  CA  VAL    96      27.256  44.503  -2.187  1.00 25.00           C
ATOM     97  CA  CYS    97      24.053  45.025  -4.038  1.00 25.00           C
ATOM     98  CA  SER    98      21.022  45.342  -1.804  1.00 25.00           C
ATOM     99  CA  ASN    99      22.013  44.934   1.873  1.00 25.00           C
ATOM    100  CA  MET   100      25.085  47.154   1.315  1.00 25.00           C
ATOM    101  CA  ARG   101      22.892  49.809  -0.360  1.00 25.00           C
ATOM    102  CA  ALA   102      20.448  49.686   2.586  1.00 25.00           C
ATOM    103  CA  ASP   103      23.355  50.092   5.046  1.00 25.00           C
ATOM    104  CA  LEU   104      24.656  53.092   3.053  1.00 25.00           C
ATOM    105  CA  GLU   105      21.162  54.663   3.092  1.00 25.00           C
ATOM    106  CA  ALA   106      20.942  54.136   6.879  1.00 25.00           C
ATOM    107  CA  ILE   107      24.377  55.767   7.331  1.00 25.00           C
ATOM    108  CA  LEU   108      24.505  58.245   4.478  1.00 25.00           C
ATOM    109  CA  PRO   109      21.975  60.346   2.505  1.00 25.00           C
ATOM    110  CA  GLU   110      21.392  58.007  -0.423  1.00 25.00           C
ATOM    111  CA  ARG   111      21.562  55.110  -2.883  1.00 25.00           C
ATOM    112  CA  PHE   112      24.674  55.730  -4.880  1.00 25.00           C
ATOM    113  CA  ILE   113      27.987  54.363  -3.754  1.00 25.00           C
ATOM    114  CA  PHE   114      29.047  52.610  -0.551  1.00 25.00           C
ATOM    115  CA  THR   115      29.315  50.313   2.464  1.00 25.00           C
ATOM    116  CA  GLU   116      30.337  46.854   3.707  1.00 25.00           C
ATOM    117  CA  ASP   117      27.493  46.445   6.112  1.00 25.00           C
ATOM    290  CA  LYS   290      59.668  33.669   1.135  1.00 25.00           C
ATOM    291  CA  TYR   291      57.293  35.795  -0.989  1.00 25.00           C
ATOM    292  CA  MET   292      57.983  33.573  -4.030  1.00 25.00           C
ATOM    293  CA  ALA   293      57.278  30.446  -1.936  1.00 25.00           C
ATOM    294  CA  CYS   294      53.991  31.981  -0.707  1.00 25.00           C
ATOM    295  CA  LEU   295      52.997  32.801  -4.313  1.00 25.00           C
ATOM    296  CA  LYS   296      52.463  30.006  -6.784  1.00 25.00           C
ATOM    297  CA  ASP   297      55.954  30.852  -7.965  1.00 25.00           C
ATOM    298  CA  HIS   298      59.031  31.365 -10.105  1.00 25.00           C
TER
END
