
#######################################################
#                                                     #
#                        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_1-D1
# Molecule2: number of CA atoms  126 ( 1027),  selected  126 , name T0372_D1.pdb
# PARAMETERS: T0372TS168_1-D1.T0372_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    I       2      I       2           -
LGA    P       3      P       3           -
LGA    F       4      F       4           -
LGA    K       5      K       5           -
LGA    D       6      D       6           -
LGA    I       7      I       7           -
LGA    T       8      T       8           -
LGA    L       9      L       9           -
LGA    A      10      A      10           -
LGA    D      11      D      11           -
LGA    R      12      R      12           -
LGA    D      13      D      13           -
LGA    T      14      T      14           -
LGA    I      15      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      T      16           #
LGA    D      28      A      17           #
LGA    -       -      F      18           -
LGA    -       -      T      19           -
LGA    L      29      M      20          1.364
LGA    S      30      K      21          2.374
LGA    F      31      S      22          2.286
LGA    -       -      D      23           -
LGA    S      32      R      24           #
LGA    N      33      R      25           -
LGA    L      34      N      26           -
LGA    -       -      C      27           -
LGA    C      35      D      28           #
LGA    S      36      L      29          4.827
LGA    W      37      S      30           #
LGA    R      38      F      31          3.252
LGA    F      39      S      32          3.740
LGA    L      40      N      33          3.215
LGA    -       -      L      34           -
LGA    -       -      C      35           -
LGA    Y      41      S      36          1.675
LGA    -       -      W      37           -
LGA    D      42      R      38          2.401
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    -       -      Y      41           -
LGA    T      43      D      42          2.985
LGA    Q      44      T      43          3.228
LGA    F      45      Q      44          3.823
LGA    A      46      F      45          5.128
LGA    V      47      -       -           -
LGA    I      48      -       -           -
LGA    D      49      -       -           -
LGA    D      50      -       -           -
LGA    F      51      -       -           -
LGA    L      52      A      46          4.828
LGA    V      53      V      47          3.471
LGA    -       -      I      48           -
LGA    -       -      D      49           -
LGA    -       -      D      50           -
LGA    -       -      F      51           -
LGA    -       -      L      52           -
LGA    F      54      V      53          0.934
LGA    K      55      F      54          0.792
LGA    F      56      K      55          1.658
LGA    W      57      F      56          3.200
LGA    A      58      W      57          3.676
LGA    G      59      A      58          2.975
LGA    -       -      G      59           -
LGA    -       -      E      60           -
LGA    E      60      Q      61           #
LGA    Q      61      L      62           -
LGA    L      62      -       -           -
LGA    A      63      A      63           #
LGA    -       -      Y      64           -
LGA    Y      64      M      65          2.962
LGA    M      65      M      66          2.561
LGA    -       -      P      67           -
LGA    -       -      V      68           -
LGA    -       -      G      69           -
LGA    -       -      N      70           -
LGA    -       -      G      71           -
LGA    -       -      D      72           -
LGA    M      66      L      73           #
LGA    P      67      K      74           -
LGA    -       -      A      75           -
LGA    -       -      V      76           -
LGA    V      68      L      77          3.476
LGA    G      69      R      78          2.999
LGA    -       -      K      79           -
LGA    -       -      L      80           -
LGA    -       -      I      81           -
LGA    N      70      E      82          1.318
LGA    G      71      D      83          2.484
LGA    -       -      A      84           -
LGA    D      72      D      85          0.825
LGA    -       -      K      86           -
LGA    -       -      E      87           -
LGA    L      73      K      88           #
LGA    K      74      H      89          2.740
LGA    A      75      N      90           #
LGA    V      76      F      91          2.636
LGA    L      77      -       -           -
LGA    R      78      C      92          3.351
LGA    K      79      M      93          2.004
LGA    L      80      -       -           -
LGA    I      81      -       -           -
LGA    E      82      -       -           -
LGA    D      83      L      94          2.817
LGA    A      84      G      95           #
LGA    D      85      V      96           -
LGA    K      86      -       -           -
LGA    E      87      -       -           -
LGA    K      88      C      97          3.552
LGA    H      89      S      98          3.513
LGA    N      90      N      99          2.515
LGA    F      91      M     100          1.782
LGA    C      92      R     101          2.094
LGA    -       -      A     102           -
LGA    -       -      D     103           -
LGA    M      93      L     104          2.673
LGA    L      94      E     105          4.177
LGA    -       -      A     106           -
LGA    -       -      I     107           -
LGA    -       -      L     108           -
LGA    -       -      P     109           -
LGA    -       -      E     110           -
LGA    G      95      R     111          2.993
LGA    V      96      F     112          2.574
LGA    -       -      I     113           -
LGA    -       -      F     114           -
LGA    -       -      T     115           -
LGA    -       -      E     116           -
LGA    -       -      D     117           -
LGA    -       -      K     290           -
LGA    -       -      Y     291           -
LGA    -       -      M     292           -
LGA    -       -      A     293           -
LGA    -       -      C     294           -
LGA    -       -      L     295           -
LGA    C      97      K     296          5.592
LGA    S      98      -       -           -
LGA    N      99      -       -           -
LGA    M     100      -       -           -
LGA    R     101      D     297           #
LGA    A     102      -       -           -
LGA    D     103      -       -           -
LGA    L     104      -       -           -
LGA    E     105      -       -           -
LGA    A     106      -       -           -
LGA    I     107      -       -           -
LGA    L     108      -       -           -
LGA    P     109      -       -           -
LGA    E     110      -       -           -
LGA    R     111      -       -           -
LGA    F     112      -       -           -
LGA    I     113      -       -           -
LGA    F     114      H     298          4.062
LGA    T     115      -       -           -
LGA    E     116      -       -           -
LGA    D     117      -       -           -
LGA    K     290      -       -           -
LGA    Y     291      -       -           -
LGA    M     292      -       -           -
LGA    A     293      -       -           -
LGA    C     294      -       -           -
LGA    L     295      -       -           -
LGA    K     296      -       -           -
LGA    D     297      -       -           -
LGA    H     298      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  126  126    5.0     44    3.09     9.09     19.984     1.377

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.399105 * X  +  -0.726845 * Y  +   0.558938 * Z  +  33.762527
  Y_new =  -0.301624 * X  +   0.679740 * Y  +   0.668563 * Z  +  61.763588
  Z_new =  -0.865874 * X  +   0.098238 * Y  +  -0.490522 * Z  +   0.970295 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.943936   -0.197657  [ DEG:   168.6751    -11.3249 ]
  Theta =   1.046895    2.094698  [ DEG:    59.9827    120.0173 ]
  Phi   =  -2.494421    0.647172  [ DEG:  -142.9198     37.0802 ]
 
# 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_1-D1                               
REMARK     2: T0372_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS168_1-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   44   3.09    9.09  19.984
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS168_1-D1
PFRMAT TS
TARGET T0372
MODEL 1
PARENT N/A
ATOM      1  CA  MET     1       5.010  47.964  -8.163  1.00 25.00           C
ATOM      2  CA  ILE     2       5.245  49.204  -4.578  1.00 25.00           C
ATOM      3  CA  PRO     3       3.452  46.708  -2.396  1.00 25.00           C
ATOM      4  CA  PHE     4       6.190  46.073   0.141  1.00 25.00           C
ATOM      5  CA  LYS     5       7.710  44.074   2.959  1.00 25.00           C
ATOM      6  CA  ASP     6       4.638  44.661   5.185  1.00 25.00           C
ATOM      7  CA  ILE     7       7.421  45.423   7.747  1.00 25.00           C
ATOM      8  CA  THR     8       6.528  49.123   8.276  1.00 25.00           C
ATOM      9  CA  LEU     9       9.371  50.246   5.964  1.00 25.00           C
ATOM     10  CA  ALA    10      11.049  53.075   7.832  1.00 25.00           C
ATOM     11  CA  ASP    11      13.068  56.067   9.049  1.00 25.00           C
ATOM     12  CA  ARG    12      12.171  55.715  12.756  1.00 25.00           C
ATOM     13  CA  ASP    13      12.939  51.966  12.610  1.00 25.00           C
ATOM     14  CA  THR    14      16.315  52.696  10.956  1.00 25.00           C
ATOM     15  CA  ILE    15      17.120  55.267  13.677  1.00 25.00           C
ATOM     16  CA  THR    16      16.210  52.720  16.388  1.00 25.00           C
ATOM     17  CA  ALA    17      18.467  50.109  14.726  1.00 25.00           C
ATOM     18  CA  PHE    18      21.338  52.640  14.594  1.00 25.00           C
ATOM     19  CA  THR    19      20.830  53.446  18.303  1.00 25.00           C
ATOM     20  CA  MET    20      20.880  49.712  19.148  1.00 25.00           C
ATOM     21  CA  LYS    21      22.281  48.856  22.607  1.00 25.00           C
ATOM     22  CA  SER    22      25.759  48.991  24.128  1.00 25.00           C
ATOM     23  CA  ASP    23      28.704  50.659  25.943  1.00 25.00           C
ATOM     24  CA  ARG    24      31.616  51.396  23.587  1.00 25.00           C
ATOM     25  CA  ARG    25      32.602  53.460  20.551  1.00 25.00           C
ATOM     26  CA  ASN    26      34.016  55.324  17.613  1.00 25.00           C
ATOM     27  CA  CYS    27      36.475  54.393  14.914  1.00 25.00           C
ATOM     28  CA  ASP    28      39.559  56.590  15.292  1.00 25.00           C
ATOM     29  CA  LEU    29      38.428  60.140  14.519  1.00 25.00           C
ATOM     30  CA  SER    30      35.760  61.648  12.348  1.00 25.00           C
ATOM     31  CA  PHE    31      33.252  59.667  10.207  1.00 25.00           C
ATOM     32  CA  SER    32      33.690  57.504   7.077  1.00 25.00           C
ATOM     33  CA  ASN    33      37.421  58.361   6.977  1.00 25.00           C
ATOM     34  CA  LEU    34      37.760  57.430  10.676  1.00 25.00           C
ATOM     35  CA  CYS    35      35.984  54.100  10.026  1.00 25.00           C
ATOM     36  CA  SER    36      38.334  53.391   7.086  1.00 25.00           C
ATOM     37  CA  TRP    37      41.367  54.172   9.291  1.00 25.00           C
ATOM     38  CA  ARG    38      40.035  51.813  12.000  1.00 25.00           C
ATOM     39  CA  PHE    39      43.329  49.860  12.099  1.00 25.00           C
ATOM     40  CA  LEU    40      44.168  46.124  11.731  1.00 25.00           C
ATOM     41  CA  TYR    41      46.187  43.147  10.584  1.00 25.00           C
ATOM     42  CA  ASP    42      47.732  42.266   7.159  1.00 25.00           C
ATOM     43  CA  THR    43      47.839  41.872   3.345  1.00 25.00           C
ATOM     44  CA  GLN    44      47.283  45.521   3.991  1.00 25.00           C
ATOM     45  CA  PHE    45      46.208  49.085   4.965  1.00 25.00           C
ATOM     46  CA  ALA    46      45.394  52.287   6.847  1.00 25.00           C
ATOM     47  CA  VAL    47      46.633  54.979   9.232  1.00 25.00           C
ATOM     48  CA  ILE    48      48.748  57.501  11.023  1.00 25.00           C
ATOM     49  CA  ASP    49      47.022  60.645  12.236  1.00 25.00           C
ATOM     50  CA  ASP    50      43.862  58.586  11.562  1.00 25.00           C
ATOM     51  CA  PHE    51      43.428  58.587   7.766  1.00 25.00           C
ATOM     52  CA  LEU    52      41.796  57.480   4.445  1.00 25.00           C
ATOM     53  CA  VAL    53      40.156  58.654   1.211  1.00 25.00           C
ATOM     54  CA  PHE    54      39.504  54.925   0.826  1.00 25.00           C
ATOM     55  CA  LYS    55      39.489  51.393   2.180  1.00 25.00           C
ATOM     56  CA  PHE    56      39.142  49.700  -1.224  1.00 25.00           C
ATOM     57  CA  TRP    57      38.580  46.125  -2.348  1.00 25.00           C
ATOM     58  CA  ALA    58      37.202  42.881  -0.871  1.00 25.00           C
ATOM     59  CA  GLY    59      35.275  39.670   0.027  1.00 25.00           C
ATOM     60  CA  GLU    60      32.737  39.393   2.894  1.00 25.00           C
ATOM     61  CA  GLN    61      32.246  42.319   5.291  1.00 25.00           C
ATOM     62  CA  LEU    62      32.294  46.088   6.033  1.00 25.00           C
ATOM     63  CA  ALA    63      33.496  49.054   3.977  1.00 25.00           C
ATOM     64  CA  TYR    64      34.073  52.795   4.427  1.00 25.00           C
ATOM     65  CA  MET    65      34.313  54.853   1.271  1.00 25.00           C
ATOM     66  CA  MET    66      33.387  57.960  -0.640  1.00 25.00           C
ATOM     67  CA  PRO    67      36.190  56.804  -2.916  1.00 25.00           C
ATOM     68  CA  VAL    68      35.690  55.916  -6.546  1.00 25.00           C
ATOM     69  CA  GLY    69      34.312  55.778 -10.132  1.00 25.00           C
ATOM     70  CA  ASN    70      37.290  55.669 -12.550  1.00 25.00           C
ATOM     71  CA  GLY    71      39.798  52.819 -12.313  1.00 25.00           C
ATOM     72  CA  ASP    72      37.492  50.479 -14.286  1.00 25.00           C
ATOM     73  CA  LEU    73      35.148  50.235 -11.293  1.00 25.00           C
ATOM     74  CA  LYS    74      36.130  46.810  -9.888  1.00 25.00           C
ATOM     75  CA  ALA    75      37.161  48.436  -6.578  1.00 25.00           C
ATOM     76  CA  VAL    76      33.815  50.291  -6.418  1.00 25.00           C
ATOM     77  CA  LEU    77      31.940  47.017  -7.071  1.00 25.00           C
ATOM     78  CA  ARG    78      33.931  45.293  -4.290  1.00 25.00           C
ATOM     79  CA  LYS    79      33.109  48.162  -1.890  1.00 25.00           C
ATOM     80  CA  LEU    80      29.397  47.884  -2.790  1.00 25.00           C
ATOM     81  CA  ILE    81      29.503  44.108  -2.163  1.00 25.00           C
ATOM     82  CA  GLU    82      31.172  44.693   1.233  1.00 25.00           C
ATOM     83  CA  ASP    83      28.480  47.262   2.141  1.00 25.00           C
ATOM     84  CA  ALA    84      25.740  44.779   1.142  1.00 25.00           C
ATOM     85  CA  ASP    85      27.378  42.068   3.295  1.00 25.00           C
ATOM     86  CA  LYS    86      27.543  44.487   6.259  1.00 25.00           C
ATOM     87  CA  GLU    87      25.299  45.582   9.091  1.00 25.00           C
ATOM     88  CA  LYS    88      23.675  48.380   6.996  1.00 25.00           C
ATOM     89  CA  HIS    89      24.018  51.395   4.714  1.00 25.00           C
ATOM     90  CA  ASN    90      22.011  53.569   7.111  1.00 25.00           C
ATOM     91  CA  PHE    91      24.368  56.495   6.248  1.00 25.00           C
ATOM     92  CA  CYS    92      23.437  55.991   2.587  1.00 25.00           C
ATOM     93  CA  MET    93      22.528  55.084  -0.975  1.00 25.00           C
ATOM     94  CA  LEU    94      24.183  55.829  -4.302  1.00 25.00           C
ATOM     95  CA  GLY    95      24.378  55.499  -8.075  1.00 25.00           C
ATOM     96  CA  VAL    96      21.971  52.632  -7.539  1.00 25.00           C
ATOM     97  CA  CYS    97      19.464  50.345  -9.278  1.00 25.00           C
ATOM     98  CA  SER    98      17.636  50.689 -12.565  1.00 25.00           C
ATOM     99  CA  ASN    99      16.469  54.224 -13.462  1.00 25.00           C
ATOM    100  CA  MET   100      19.212  55.719 -11.246  1.00 25.00           C
ATOM    101  CA  ARG   101      21.827  53.490 -12.937  1.00 25.00           C
ATOM    102  CA  ALA   102      20.576  54.595 -16.383  1.00 25.00           C
ATOM    103  CA  ASP   103      20.796  58.265 -15.313  1.00 25.00           C
ATOM    104  CA  LEU   104      24.370  57.710 -14.056  1.00 25.00           C
ATOM    105  CA  GLU   105      25.310  56.057 -17.381  1.00 25.00           C
ATOM    106  CA  ALA   106      23.809  59.012 -19.301  1.00 25.00           C
ATOM    107  CA  ILE   107      25.792  61.464 -17.128  1.00 25.00           C
ATOM    108  CA  LEU   108      29.194  60.022 -18.215  1.00 25.00           C
ATOM    109  CA  PRO   109      28.350  59.525 -21.877  1.00 25.00           C
ATOM    110  CA  GLU   110      26.934  56.104 -22.903  1.00 25.00           C
ATOM    111  CA  ARG   111      29.684  54.587 -20.685  1.00 25.00           C
ATOM    112  CA  PHE   112      30.186  52.995 -17.304  1.00 25.00           C
ATOM    113  CA  ILE   113      28.455  52.008 -14.031  1.00 25.00           C
ATOM    114  CA  PHE   114      27.575  50.488 -10.695  1.00 25.00           C
ATOM    115  CA  THR   115      26.174  48.782  -7.618  1.00 25.00           C
ATOM    116  CA  GLU   116      26.017  45.039  -8.366  1.00 25.00           C
ATOM    117  CA  ASP   117      22.497  44.389  -9.743  1.00 25.00           C
ATOM    290  CA  LYS   290      30.252  82.432  -2.137  1.00 25.00           C
ATOM    291  CA  TYR   291      30.717  79.468   0.245  1.00 25.00           C
ATOM    292  CA  MET   292      30.592  81.835   3.253  1.00 25.00           C
ATOM    293  CA  ALA   293      27.381  83.425   1.902  1.00 25.00           C
ATOM    294  CA  CYS   294      25.829  79.954   1.438  1.00 25.00           C
ATOM    295  CA  LEU   295      26.789  79.018   5.025  1.00 25.00           C
ATOM    296  CA  LYS   296      23.097  79.787   5.711  1.00 25.00           C
ATOM    297  CA  ASP   297      24.265  80.100   9.248  1.00 25.00           C
ATOM    298  CA  HIS   298      24.777  83.775  10.050  1.00 25.00           C
TER
END
