
#######################################################
#                                                     #
#                        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 T0372TS393_3-D1
# Molecule2: number of CA atoms  126 ( 1027),  selected  126 , name T0372_D1.pdb
# PARAMETERS: T0372TS393_3-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      M       1          2.811
LGA    I      15      I       2          3.975
LGA    T      16      P       3          3.324
LGA    A      17      -       -           -
LGA    F      18      F       4          4.191
LGA    T      19      K       5          3.587
LGA    M      20      D       6           -
LGA    K      21      I       7           -
LGA    S      22      T       8           -
LGA    D      23      L       9           -
LGA    R      24      A      10           -
LGA    -       -      D      11           -
LGA    -       -      R      12           -
LGA    R      25      D      13          3.889
LGA    N      26      T      14          2.672
LGA    C      27      I      15          1.131
LGA    D      28      T      16          2.522
LGA    L      29      A      17           -
LGA    S      30      F      18           -
LGA    F      31      -       -           -
LGA    S      32      T      19           #
LGA    -       -      M      20           -
LGA    -       -      K      21           -
LGA    -       -      S      22           -
LGA    -       -      D      23           -
LGA    N      33      R      24          5.087
LGA    L      34      R      25          2.811
LGA    C      35      -       -           -
LGA    S      36      -       -           -
LGA    W      37      -       -           -
LGA    R      38      -       -           -
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      N      26           #
LGA    I      48      C      27          3.532
LGA    D      49      -       -           -
LGA    D      50      D      28           #
LGA    -       -      L      29           -
LGA    -       -      S      30           -
LGA    -       -      F      31           -
LGA    -       -      S      32           -
LGA    F      51      N      33          1.993
LGA    L      52      L      34          3.535
LGA    V      53      C      35           -
LGA    -       -      S      36           -
LGA    -       -      W      37           -
LGA    -       -      R      38           -
LGA    -       -      F      39           -
LGA    -       -      L      40           -
LGA    -       -      Y      41           -
LGA    -       -      D      42           -
LGA    F      54      T      43          3.286
LGA    K      55      Q      44          1.498
LGA    -       -      F      45           -
LGA    -       -      A      46           -
LGA    -       -      V      47           -
LGA    -       -      I      48           -
LGA    -       -      D      49           -
LGA    -       -      D      50           -
LGA    -       -      F      51           -
LGA    -       -      L      52           -
LGA    -       -      V      53           -
LGA    -       -      F      54           -
LGA    -       -      K      55           -
LGA    F      56      F      56           #
LGA    W      57      W      57           #
LGA    A      58      A      58           -
LGA    G      59      G      59           -
LGA    E      60      -       -           -
LGA    Q      61      E      60           #
LGA    -       -      Q      61           -
LGA    L      62      L      62          3.424
LGA    A      63      A      63          3.687
LGA    Y      64      Y      64          2.488
LGA    M      65      M      65          2.478
LGA    M      66      M      66          3.846
LGA    P      67      P      67          2.344
LGA    V      68      V      68          4.267
LGA    G      69      G      69           #
LGA    N      70      N      70          3.968
LGA    G      71      G      71          3.290
LGA    D      72      D      72          2.941
LGA    L      73      L      73          4.514
LGA    K      74      K      74          3.633
LGA    A      75      A      75          1.848
LGA    V      76      V      76          1.874
LGA    L      77      L      77          2.322
LGA    R      78      R      78          1.977
LGA    K      79      K      79          0.918
LGA    L      80      L      80          1.107
LGA    I      81      I      81          2.666
LGA    E      82      E      82          2.942
LGA    D      83      D      83          2.366
LGA    A      84      A      84          2.939
LGA    D      85      D      85          4.629
LGA    K      86      K      86          4.755
LGA    -       -      E      87           -
LGA    E      87      K      88          3.495
LGA    K      88      H      89          4.481
LGA    H      89      N      90          2.387
LGA    N      90      F      91          4.932
LGA    F      91      C      92          4.180
LGA    C      92      M      93          3.555
LGA    M      93      -       -           -
LGA    L      94      L      94           #
LGA    -       -      G      95           -
LGA    -       -      V      96           -
LGA    -       -      C      97           -
LGA    -       -      S      98           -
LGA    -       -      N      99           -
LGA    -       -      M     100           -
LGA    -       -      R     101           -
LGA    -       -      A     102           -
LGA    G      95      D     103           #
LGA    V      96      L     104          4.697
LGA    -       -      E     105           -
LGA    C      97      A     106           #
LGA    S      98      I     107          4.919
LGA    N      99      L     108          4.882
LGA    M     100      P     109          3.151
LGA    R     101      -       -           -
LGA    A     102      -       -           -
LGA    D     103      E     110          1.324
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      R     111          2.339
LGA    I     113      F     112          1.584
LGA    F     114      I     113           -
LGA    T     115      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     53    3.34    50.94     23.687     1.542

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.817365 * X  +  -0.221606 * Y  +   0.531794 * Z  +  39.090908
  Y_new =  -0.184553 * X  +  -0.773705 * Y  +  -0.606070 * Z  +  47.337574
  Z_new =   0.545761 * X  +  -0.593525 * Y  +   0.591501 * Z  +   4.511612 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.787106    2.354487  [ DEG:   -45.0978    134.9022 ]
  Theta =  -0.577297   -2.564296  [ DEG:   -33.0767   -146.9233 ]
  Phi   =  -2.919527    0.222066  [ DEG:  -167.2766     12.7234 ]
 
# 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: T0372TS393_3-D1                               
REMARK     2: T0372_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS393_3-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   53   3.34   50.94  23.687
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS393_3-D1
PFRMAT TS
TARGET T0372
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      28.794  61.599 -27.133  1.00 25.00           C
ATOM      2  CA  ILE     2      31.073  61.400 -24.072  1.00 25.00           C
ATOM      3  CA  PRO     3      34.530  62.058 -25.390  1.00 25.00           C
ATOM      4  CA  PHE     4      36.742  63.428 -22.667  1.00 25.00           C
ATOM      5  CA  LYS     5      40.219  63.962 -24.121  1.00 25.00           C
ATOM      6  CA  ASP     6      42.425  65.865 -21.674  1.00 25.00           C
ATOM      7  CA  ILE     7      44.539  64.010 -19.186  1.00 25.00           C
ATOM      8  CA  THR     8      47.889  63.241 -17.459  1.00 25.00           C
ATOM      9  CA  LEU     9      46.160  60.548 -15.356  1.00 25.00           C
ATOM     10  CA  ALA    10      48.671  57.976 -13.985  1.00 25.00           C
ATOM     11  CA  ASP    11      46.869  55.559 -11.712  1.00 25.00           C
ATOM     12  CA  ARG    12      50.340  55.055 -10.176  1.00 25.00           C
ATOM     13  CA  ASP    13      50.435  58.736  -9.124  1.00 25.00           C
ATOM     14  CA  THR    14      46.969  58.397  -7.531  1.00 25.00           C
ATOM     15  CA  ILE    15      48.115  55.270  -5.643  1.00 25.00           C
ATOM     16  CA  THR    16      51.222  57.130  -4.397  1.00 25.00           C
ATOM     17  CA  ALA    17      49.035  60.047  -3.225  1.00 25.00           C
ATOM     18  CA  PHE    18      46.726  57.608  -1.384  1.00 25.00           C
ATOM     19  CA  THR    19      49.754  55.974   0.298  1.00 25.00           C
ATOM     20  CA  MET    20      51.049  59.415   1.366  1.00 25.00           C
ATOM     21  CA  LYS    21      53.575  62.334   1.437  1.00 25.00           C
ATOM     22  CA  SER    22      53.943  65.051   4.120  1.00 25.00           C
ATOM     23  CA  ASP    23      53.173  64.154   7.676  1.00 25.00           C
ATOM     24  CA  ARG    24      49.381  63.593   7.997  1.00 25.00           C
ATOM     25  CA  ARG    25      47.551  60.675   9.609  1.00 25.00           C
ATOM     26  CA  ASN    26      46.262  57.115   9.233  1.00 25.00           C
ATOM     27  CA  CYS    27      42.672  57.009  10.299  1.00 25.00           C
ATOM     28  CA  ASP    28      42.123  55.685  13.803  1.00 25.00           C
ATOM     29  CA  LEU    29      41.040  52.664  11.711  1.00 25.00           C
ATOM     30  CA  SER    30      38.896  50.567  14.080  1.00 25.00           C
ATOM     31  CA  PHE    31      35.250  50.151  12.881  1.00 25.00           C
ATOM     32  CA  SER    32      36.425  52.210   9.874  1.00 25.00           C
ATOM     33  CA  ASN    33      32.815  52.496   8.628  1.00 25.00           C
ATOM     34  CA  LEU    34      31.680  53.642  12.101  1.00 25.00           C
ATOM     35  CA  CYS    35      34.471  56.263  12.174  1.00 25.00           C
ATOM     36  CA  SER    36      33.424  57.512   8.708  1.00 25.00           C
ATOM     37  CA  TRP    37      29.784  57.762   9.872  1.00 25.00           C
ATOM     38  CA  ARG    38      30.882  59.732  12.967  1.00 25.00           C
ATOM     39  CA  PHE    39      29.312  57.150  15.290  1.00 25.00           C
ATOM     40  CA  LEU    40      26.648  55.140  17.122  1.00 25.00           C
ATOM     41  CA  TYR    41      25.441  57.598  19.732  1.00 25.00           C
ATOM     42  CA  ASP    42      28.647  57.716  21.801  1.00 25.00           C
ATOM     43  CA  THR    43      32.409  57.279  21.678  1.00 25.00           C
ATOM     44  CA  GLN    44      34.482  54.091  22.054  1.00 25.00           C
ATOM     45  CA  PHE    45      33.503  50.903  20.129  1.00 25.00           C
ATOM     46  CA  ALA    46      33.207  47.578  18.232  1.00 25.00           C
ATOM     47  CA  VAL    47      36.954  47.116  18.779  1.00 25.00           C
ATOM     48  CA  ILE    48      37.118  45.938  15.125  1.00 25.00           C
ATOM     49  CA  ASP    49      37.940  43.102  12.726  1.00 25.00           C
ATOM     50  CA  ASP    50      41.629  43.094  11.772  1.00 25.00           C
ATOM     51  CA  PHE    51      40.966  46.789  11.382  1.00 25.00           C
ATOM     52  CA  LEU    52      39.442  48.839   8.618  1.00 25.00           C
ATOM     53  CA  VAL    53      39.810  50.223   5.109  1.00 25.00           C
ATOM     54  CA  PHE    54      42.565  48.960   2.867  1.00 25.00           C
ATOM     55  CA  LYS    55      46.075  48.336   1.428  1.00 25.00           C
ATOM     56  CA  PHE    56      47.104  48.119  -2.264  1.00 25.00           C
ATOM     57  CA  TRP    57      48.231  48.184  -5.896  1.00 25.00           C
ATOM     58  CA  ALA    58      48.790  44.423  -6.371  1.00 25.00           C
ATOM     59  CA  GLY    59      48.251  42.564  -9.654  1.00 25.00           C
ATOM     60  CA  GLU    60      45.080  44.574 -10.047  1.00 25.00           C
ATOM     61  CA  GLN    61      41.817  45.982  -8.557  1.00 25.00           C
ATOM     62  CA  LEU    62      39.618  46.275  -5.475  1.00 25.00           C
ATOM     63  CA  ALA    63      38.803  48.155  -2.265  1.00 25.00           C
ATOM     64  CA  TYR    64      37.736  50.881   0.241  1.00 25.00           C
ATOM     65  CA  MET    65      34.502  52.848   0.681  1.00 25.00           C
ATOM     66  CA  MET    66      35.471  53.289   4.314  1.00 25.00           C
ATOM     67  CA  PRO    67      35.868  57.052   4.096  1.00 25.00           C
ATOM     68  CA  VAL    68      32.364  57.037   2.646  1.00 25.00           C
ATOM     69  CA  GLY    69      30.622  60.218   1.575  1.00 25.00           C
ATOM     70  CA  ASN    70      29.995  63.900   2.346  1.00 25.00           C
ATOM     71  CA  GLY    71      30.511  67.632   2.598  1.00 25.00           C
ATOM     72  CA  ASP    72      33.225  67.121  -0.089  1.00 25.00           C
ATOM     73  CA  LEU    73      34.943  63.788  -0.642  1.00 25.00           C
ATOM     74  CA  LYS    74      32.270  63.376  -3.352  1.00 25.00           C
ATOM     75  CA  ALA    75      34.984  63.298  -6.052  1.00 25.00           C
ATOM     76  CA  VAL    76      36.910  60.643  -4.073  1.00 25.00           C
ATOM     77  CA  LEU    77      33.721  58.550  -3.731  1.00 25.00           C
ATOM     78  CA  ARG    78      33.098  58.838  -7.499  1.00 25.00           C
ATOM     79  CA  LYS    79      36.698  57.738  -8.203  1.00 25.00           C
ATOM     80  CA  LEU    80      36.266  54.739  -5.861  1.00 25.00           C
ATOM     81  CA  ILE    81      33.010  53.787  -7.640  1.00 25.00           C
ATOM     82  CA  GLU    82      34.768  54.023 -11.034  1.00 25.00           C
ATOM     83  CA  ASP    83      37.608  51.800  -9.747  1.00 25.00           C
ATOM     84  CA  ALA    84      35.059  49.242  -8.470  1.00 25.00           C
ATOM     85  CA  ASP    85      33.299  49.261 -11.871  1.00 25.00           C
ATOM     86  CA  LYS    86      36.654  48.717 -13.637  1.00 25.00           C
ATOM     87  CA  GLU    87      35.314  45.162 -13.073  1.00 25.00           C
ATOM     88  CA  LYS    88      32.190  42.927 -12.889  1.00 25.00           C
ATOM     89  CA  HIS    89      31.888  44.170  -9.341  1.00 25.00           C
ATOM     90  CA  ASN    90      34.525  44.326  -6.564  1.00 25.00           C
ATOM     91  CA  PHE    91      34.548  45.358  -2.938  1.00 25.00           C
ATOM     92  CA  CYS    92      31.036  46.527  -3.738  1.00 25.00           C
ATOM     93  CA  MET    93      30.286  50.273  -3.748  1.00 25.00           C
ATOM     94  CA  LEU    94      29.096  53.616  -2.293  1.00 25.00           C
ATOM     95  CA  GLY    95      27.806  57.209  -1.987  1.00 25.00           C
ATOM     96  CA  VAL    96      26.290  58.118  -5.360  1.00 25.00           C
ATOM     97  CA  CYS    97      24.733  61.142  -7.098  1.00 25.00           C
ATOM     98  CA  SER    98      21.593  62.262  -9.044  1.00 25.00           C
ATOM     99  CA  ASN    99      20.858  59.106 -11.085  1.00 25.00           C
ATOM    100  CA  MET   100      22.284  56.928  -8.276  1.00 25.00           C
ATOM    101  CA  ARG   101      20.106  58.763  -5.715  1.00 25.00           C
ATOM    102  CA  ALA   102      17.019  58.225  -7.917  1.00 25.00           C
ATOM    103  CA  ASP   103      17.853  54.500  -8.217  1.00 25.00           C
ATOM    104  CA  LEU   104      18.232  54.254  -4.414  1.00 25.00           C
ATOM    105  CA  GLU   105      14.850  55.988  -3.939  1.00 25.00           C
ATOM    106  CA  ALA   106      13.228  53.554  -6.411  1.00 25.00           C
ATOM    107  CA  ILE   107      14.757  50.587  -4.531  1.00 25.00           C
ATOM    108  CA  LEU   108      17.646  49.557  -6.808  1.00 25.00           C
ATOM    109  CA  PRO   109      15.781  49.749 -10.138  1.00 25.00           C
ATOM    110  CA  GLU   110      18.373  48.448 -12.599  1.00 25.00           C
ATOM    111  CA  ARG   111      20.962  51.209 -12.974  1.00 25.00           C
ATOM    112  CA  PHE   112      23.801  51.862 -10.575  1.00 25.00           C
ATOM    113  CA  ILE   113      22.749  52.121  -6.975  1.00 25.00           C
ATOM    114  CA  PHE   114      23.780  53.965  -3.754  1.00 25.00           C
ATOM    115  CA  THR   115      22.661  56.700  -1.428  1.00 25.00           C
ATOM    116  CA  GLU   116      20.987  59.916  -0.289  1.00 25.00           C
ATOM    117  CA  ASP   117      17.711  61.143  -1.818  1.00 25.00           C
ATOM    290  CA  LYS   290      40.396  29.088  15.784  1.00 25.00           C
ATOM    291  CA  TYR   291      42.712  28.919  12.739  1.00 25.00           C
ATOM    292  CA  MET   292      43.172  25.154  13.266  1.00 25.00           C
ATOM    293  CA  ALA   293      39.377  24.698  13.498  1.00 25.00           C
ATOM    294  CA  CYS   294      38.915  26.688  10.260  1.00 25.00           C
ATOM    295  CA  LEU   295      41.551  24.519   8.522  1.00 25.00           C
ATOM    296  CA  LYS   296      38.747  23.357   6.210  1.00 25.00           C
ATOM    297  CA  ASP   297      41.602  21.014   5.203  1.00 25.00           C
ATOM    298  CA  HIS   298      45.046  22.414   4.233  1.00 25.00           C
TER
END
