
#######################################################
#                                                     #
#                        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 T0372TS599_3-D1
# Molecule2: number of CA atoms  126 ( 1027),  selected  126 , name T0372_D1.pdb
# PARAMETERS: T0372TS599_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      M       1          2.918
LGA    I       2      I       2          2.883
LGA    P       3      P       3          2.985
LGA    -       -      F       4           -
LGA    F       4      K       5          3.525
LGA    K       5      D       6          2.842
LGA    D       6      I       7          2.706
LGA    -       -      T       8           -
LGA    -       -      L       9           -
LGA    -       -      A      10           -
LGA    -       -      D      11           -
LGA    -       -      R      12           -
LGA    -       -      D      13           -
LGA    I       7      T      14          5.430
LGA    T       8      I      15          1.921
LGA    L       9      T      16          2.024
LGA    A      10      -       -           -
LGA    D      11      A      17           #
LGA    R      12      F      18           -
LGA    D      13      -       -           -
LGA    T      14      T      19           #
LGA    I      15      M      20           #
LGA    T      16      K      21           -
LGA    -       -      S      22           -
LGA    -       -      D      23           -
LGA    -       -      R      24           -
LGA    A      17      R      25           #
LGA    F      18      N      26           #
LGA    T      19      -       -           -
LGA    M      20      -       -           -
LGA    K      21      C      27          1.249
LGA    S      22      D      28          2.343
LGA    D      23      L      29           -
LGA    -       -      S      30           -
LGA    -       -      F      31           -
LGA    R      24      S      32          4.789
LGA    R      25      N      33          5.031
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      L      34           #
LGA    S      36      C      35          1.526
LGA    W      37      S      36          2.095
LGA    R      38      W      37          2.155
LGA    -       -      R      38           -
LGA    F      39      F      39          1.479
LGA    L      40      L      40          2.414
LGA    Y      41      Y      41          3.180
LGA    D      42      D      42          2.233
LGA    T      43      T      43          2.676
LGA    -       -      Q      44           -
LGA    Q      44      F      45          5.168
LGA    F      45      A      46          4.627
LGA    A      46      V      47           -
LGA    V      47      I      48          6.302
LGA    I      48      -       -           -
LGA    D      49      -       -           -
LGA    D      50      D      49           #
LGA    F      51      D      50           -
LGA    L      52      F      51           #
LGA    V      53      L      52           -
LGA    F      54      V      53           #
LGA    K      55      F      54           #
LGA    -       -      K      55           -
LGA    F      56      F      56          0.805
LGA    W      57      W      57          2.565
LGA    A      58      A      58          4.092
LGA    G      59      G      59          4.333
LGA    E      60      E      60           #
LGA    Q      61      Q      61          3.371
LGA    L      62      L      62          3.743
LGA    A      63      A      63          1.766
LGA    Y      64      Y      64          2.666
LGA    M      65      M      65           -
LGA    -       -      M      66           -
LGA    M      66      P      67           #
LGA    P      67      V      68           -
LGA    V      68      G      69           -
LGA    G      69      N      70           -
LGA    N      70      G      71          4.496
LGA    G      71      D      72          2.080
LGA    D      72      L      73          1.590
LGA    -       -      K      74           -
LGA    -       -      A      75           -
LGA    L      73      V      76          4.021
LGA    K      74      L      77           #
LGA    A      75      R      78           -
LGA    V      76      K      79           -
LGA    L      77      L      80           #
LGA    R      78      I      81           -
LGA    K      79      E      82           -
LGA    L      80      D      83           -
LGA    I      81      A      84           -
LGA    E      82      D      85           -
LGA    D      83      K      86           -
LGA    A      84      E      87           -
LGA    D      85      K      88           -
LGA    K      86      H      89           -
LGA    E      87      N      90           -
LGA    K      88      F      91           -
LGA    H      89      -       -           -
LGA    N      90      -       -           -
LGA    F      91      -       -           -
LGA    C      92      -       -           -
LGA    M      93      C      92          2.032
LGA    L      94      M      93           #
LGA    G      95      L      94           -
LGA    V      96      G      95           -
LGA    -       -      V      96           -
LGA    -       -      C      97           -
LGA    -       -      S      98           -
LGA    -       -      N      99           -
LGA    -       -      M     100           -
LGA    -       -      R     101           -
LGA    -       -      A     102           -
LGA    -       -      D     103           -
LGA    -       -      L     104           -
LGA    C      97      E     105           #
LGA    -       -      A     106           -
LGA    -       -      I     107           -
LGA    S      98      L     108          2.939
LGA    N      99      P     109          4.543
LGA    M     100      E     110           #
LGA    R     101      R     111          3.141
LGA    A     102      -       -           -
LGA    D     103      -       -           -
LGA    L     104      -       -           -
LGA    E     105      F     112           #
LGA    A     106      I     113           -
LGA    I     107      F     114           -
LGA    L     108      -       -           -
LGA    P     109      -       -           -
LGA    E     110      -       -           -
LGA    R     111      -       -           -
LGA    F     112      -       -           -
LGA    I     113      -       -           -
LGA    F     114      -       -           -
LGA    T     115      -       -           -
LGA    E     116      -       -           -
LGA    D     117      -       -           -
LGA    K     290      T     115          3.480
LGA    -       -      E     116           -
LGA    -       -      D     117           -
LGA    -       -      K     290           -
LGA    -       -      Y     291           -
LGA    Y     291      M     292          3.477
LGA    M     292      A     293          1.768
LGA    A     293      C     294          2.206
LGA    C     294      L     295          1.734
LGA    L     295      K     296          2.825
LGA    -       -      D     297           -
LGA    K     296      H     298          2.509
LGA    D     297      -       -           -
LGA    H     298      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  126  126    5.0     47    3.23    36.17     22.412     1.412

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.519257 * X  +   0.753021 * Y  +   0.404144 * Z  +  12.358044
  Y_new =  -0.484326 * X  +   0.648912 * Y  +  -0.586807 * Z  +  39.634201
  Z_new =  -0.704131 * X  +   0.108966 * Y  +   0.701659 * Z  +  -4.998101 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.154067   -2.987526  [ DEG:     8.8274   -171.1726 ]
  Theta =   0.781199    2.360394  [ DEG:    44.7594    135.2406 ]
  Phi   =  -0.750606    2.390986  [ DEG:   -43.0066    136.9934 ]
 
# 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: T0372TS599_3-D1                               
REMARK     2: T0372_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0372TS599_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   47   3.23   36.17  22.412
REMARK  ---------------------------------------------------------- 
MOLECULE T0372TS599_3-D1
PFRMAT TS                                                                       
TARGET T0372                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      48.112  58.018  -8.162  1.00  0.00              
ATOM      2  CA  ILE     2      46.746  57.426  -4.598  1.00  0.00              
ATOM      3  CA  PRO     3      47.722  54.625  -2.451  1.00  0.00              
ATOM      4  CA  PHE     4      46.332  54.131   1.095  1.00  0.00              
ATOM      5  CA  LYS     5      47.987  51.646   3.263  1.00  0.00              
ATOM      6  CA  ASP     6      46.114  51.785   6.541  1.00  0.00              
ATOM      7  CA  ILE     7      45.140  55.466   6.607  1.00  0.00              
ATOM      8  CA  THR     8      45.576  56.829  10.001  1.00  0.00              
ATOM      9  CA  LEU     9      43.375  59.177  11.923  1.00  0.00              
ATOM     10  CA  ALA    10      45.133  60.899  14.795  1.00  0.00              
ATOM     11  CA  ASP    11      42.444  61.048  17.505  1.00  0.00              
ATOM     12  CA  ARG    12      42.964  58.211  19.955  1.00  0.00              
ATOM     13  CA  ASP    13      39.338  57.539  20.613  1.00  0.00              
ATOM     14  CA  THR    14      38.449  57.359  16.940  1.00  0.00              
ATOM     15  CA  ILE    15      41.238  55.002  16.042  1.00  0.00              
ATOM     16  CA  THR    16      40.439  52.645  18.763  1.00  0.00              
ATOM     17  CA  ALA    17      36.772  52.498  17.956  1.00  0.00              
ATOM     18  CA  PHE    18      37.378  51.838  14.304  1.00  0.00              
ATOM     19  CA  THR    19      39.862  49.037  14.953  1.00  0.00              
ATOM     20  CA  MET    20      37.614  47.324  17.438  1.00  0.00              
ATOM     21  CA  LYS    21      34.586  47.336  15.240  1.00  0.00              
ATOM     22  CA  SER    22      36.381  45.835  12.286  1.00  0.00              
ATOM     23  CA  ASP    23      38.017  43.007  14.176  1.00  0.00              
ATOM     24  CA  ARG    24      41.516  43.929  13.364  1.00  0.00              
ATOM     25  CA  ARG    25      44.567  42.558  15.091  1.00  0.00              
ATOM     26  CA  ASN    26      47.040  45.315  15.783  1.00  0.00              
ATOM     27  CA  CYS    27      50.100  44.444  13.875  1.00  0.00              
ATOM     28  CA  ASP    28      52.177  47.543  14.166  1.00  0.00              
ATOM     29  CA  LEU    29      49.632  50.231  14.729  1.00  0.00              
ATOM     30  CA  SER    30      50.608  53.005  16.998  1.00  0.00              
ATOM     31  CA  PHE    31      47.407  54.096  18.793  1.00  0.00              
ATOM     32  CA  SER    32      47.354  57.412  17.101  1.00  0.00              
ATOM     33  CA  ASN    33      47.521  56.015  13.647  1.00  0.00              
ATOM     34  CA  LEU    34      45.305  52.877  13.576  1.00  0.00              
ATOM     35  CA  CYS    35      46.666  49.975  11.714  1.00  0.00              
ATOM     36  CA  SER    36      44.753  46.748  11.101  1.00  0.00              
ATOM     37  CA  TRP    37      46.571  43.497  10.337  1.00  0.00              
ATOM     38  CA  ARG    38      44.876  40.331   9.322  1.00  0.00              
ATOM     39  CA  PHE    39      47.161  38.536   7.052  1.00  0.00              
ATOM     40  CA  LEU    40      45.677  39.563   3.743  1.00  0.00              
ATOM     41  CA  TYR    41      44.593  43.057   4.549  1.00  0.00              
ATOM     42  CA  ASP    42      46.038  45.179   1.927  1.00  0.00              
ATOM     43  CA  THR    43      44.453  48.476   1.309  1.00  0.00              
ATOM     44  CA  GLN    44      44.853  50.063  -2.103  1.00  0.00              
ATOM     45  CA  PHE    45      43.528  53.465  -2.808  1.00  0.00              
ATOM     46  CA  ALA    46      43.337  54.766  -6.381  1.00  0.00              
ATOM     47  CA  VAL    47      42.432  58.287  -7.191  1.00  0.00              
ATOM     48  CA  ILE    48      41.381  59.076 -10.734  1.00  0.00              
ATOM     49  CA  ASP    49      40.345  62.580 -11.745  1.00  0.00              
ATOM     50  CA  ASP    50      37.181  62.748  -9.728  1.00  0.00              
ATOM     51  CA  PHE    51      36.580  59.068  -9.200  1.00  0.00              
ATOM     52  CA  LEU    52      37.688  57.237  -6.077  1.00  0.00              
ATOM     53  CA  VAL    53      38.638  53.543  -6.196  1.00  0.00              
ATOM     54  CA  PHE    54      39.142  51.675  -3.014  1.00  0.00              
ATOM     55  CA  LYS    55      40.515  48.156  -3.004  1.00  0.00              
ATOM     56  CA  PHE    56      40.392  46.120   0.187  1.00  0.00              
ATOM     57  CA  TRP    57      42.030  42.729   0.358  1.00  0.00              
ATOM     58  CA  ALA    58      40.828  40.319   2.986  1.00  0.00              
ATOM     59  CA  GLY    59      39.828  36.764   2.246  1.00  0.00              
ATOM     60  CA  GLU    60      36.994  37.505  -0.051  1.00  0.00              
ATOM     61  CA  GLN    61      38.068  40.542  -1.839  1.00  0.00              
ATOM     62  CA  LEU    62      36.195  43.760  -1.335  1.00  0.00              
ATOM     63  CA  ALA    63      36.106  46.442  -4.037  1.00  0.00              
ATOM     64  CA  TYR    64      34.735  49.854  -3.334  1.00  0.00              
ATOM     65  CA  MET    65      33.996  52.267  -6.066  1.00  0.00              
ATOM     66  CA  MET    66      33.303  55.800  -5.190  1.00  0.00              
ATOM     67  CA  PRO    67      32.089  58.333  -7.634  1.00  0.00              
ATOM     68  CA  VAL    68      33.940  61.617  -7.042  1.00  0.00              
ATOM     69  CA  GLY    69      31.888  64.677  -6.178  1.00  0.00              
ATOM     70  CA  ASN    70      33.764  66.546  -3.499  1.00  0.00              
ATOM     71  CA  GLY    71      31.397  66.410  -0.601  1.00  0.00              
ATOM     72  CA  ASP    72      30.172  62.863  -0.830  1.00  0.00              
ATOM     73  CA  LEU    73      32.853  60.286  -1.434  1.00  0.00              
ATOM     74  CA  LYS    74      34.015  59.745   2.122  1.00  0.00              
ATOM     75  CA  ALA    75      30.535  59.202   3.501  1.00  0.00              
ATOM     76  CA  VAL    76      29.623  56.709   0.859  1.00  0.00              
ATOM     77  CA  LEU    77      32.802  54.676   1.430  1.00  0.00              
ATOM     78  CA  ARG    78      32.314  54.608   5.154  1.00  0.00              
ATOM     79  CA  LYS    79      28.736  53.365   4.929  1.00  0.00              
ATOM     80  CA  LEU    80      29.700  50.604   2.560  1.00  0.00              
ATOM     81  CA  ILE    81      32.544  49.536   4.901  1.00  0.00              
ATOM     82  CA  GLU    82      30.356  49.462   7.959  1.00  0.00              
ATOM     83  CA  ASP    83      27.665  47.442   6.253  1.00  0.00              
ATOM     84  CA  ALA    84      30.109  44.935   4.847  1.00  0.00              
ATOM     85  CA  ASP    85      31.836  44.439   8.038  1.00  0.00              
ATOM     86  CA  LYS    86      28.698  43.839  10.049  1.00  0.00              
ATOM     87  CA  GLU    87      27.240  41.235   7.896  1.00  0.00              
ATOM     88  CA  LYS    88      30.473  39.387   7.177  1.00  0.00              
ATOM     89  CA  HIS    89      30.066  39.768   3.456  1.00  0.00              
ATOM     90  CA  ASN    90      32.501  40.156   0.682  1.00  0.00              
ATOM     91  CA  PHE    91      31.289  42.925  -1.315  1.00  0.00              
ATOM     92  CA  CYS    92      31.236  45.104  -4.335  1.00  0.00              
ATOM     93  CA  MET    93      30.204  48.586  -3.512  1.00  0.00              
ATOM     94  CA  LEU    94      29.219  51.076  -6.226  1.00  0.00              
ATOM     95  CA  GLY    95      28.499  54.689  -5.595  1.00  0.00              
ATOM     96  CA  VAL    96      25.557  55.780  -7.687  1.00  0.00              
ATOM     97  CA  CYS    97      23.936  59.154  -7.229  1.00  0.00              
ATOM     98  CA  SER    98      20.211  59.162  -6.712  1.00  0.00              
ATOM     99  CA  ASN    99      19.332  60.421 -10.205  1.00  0.00              
ATOM    100  CA  MET   100      21.443  57.914 -11.887  1.00  0.00              
ATOM    101  CA  ARG   101      20.102  55.132  -9.774  1.00  0.00              
ATOM    102  CA  ALA   102      16.648  56.058 -10.783  1.00  0.00              
ATOM    103  CA  ASP   103      17.459  55.802 -14.382  1.00  0.00              
ATOM    104  CA  LEU   104      18.748  52.392 -13.834  1.00  0.00              
ATOM    105  CA  GLU   105      15.648  51.451 -12.016  1.00  0.00              
ATOM    106  CA  ALA   106      13.641  52.520 -14.993  1.00  0.00              
ATOM    107  CA  ILE   107      15.653  50.369 -17.421  1.00  0.00              
ATOM    108  CA  LEU   108      15.429  47.204 -15.395  1.00  0.00              
ATOM    109  CA  PRO   109      11.771  47.485 -14.636  1.00  0.00              
ATOM    110  CA  GLU   110      10.318  47.706 -18.141  1.00  0.00              
ATOM    111  CA  ARG   111      12.099  44.756 -19.603  1.00  0.00              
ATOM    112  CA  PHE   112      11.542  42.426 -16.695  1.00  0.00              
ATOM    113  CA  ILE   113      10.081  38.974 -17.131  1.00  0.00              
ATOM    114  CA  PHE   114       8.940  37.333 -13.892  1.00  0.00              
ATOM    115  CA  THR   115       8.813  33.623 -13.395  1.00  0.00              
ATOM    116  CA  GLU   116       7.288  32.261 -10.191  1.00  0.00              
ATOM    117  CA  ASP   117       8.605  29.108  -8.710  1.00  0.00              
ATOM    290  CA  LYS   290      25.758  42.624   0.972  1.00  0.00              
ATOM    291  CA  TYR   291      27.191  43.803  -2.358  1.00  0.00              
ATOM    292  CA  MET   292      25.985  47.223  -3.437  1.00  0.00              
ATOM    293  CA  ALA   293      25.683  47.795  -7.162  1.00  0.00              
ATOM    294  CA  CYS   294      26.109  50.912  -9.174  1.00  0.00              
ATOM    295  CA  LEU   295      24.662  50.692 -12.657  1.00  0.00              
ATOM    296  CA  LYS   296      26.938  52.888 -14.685  1.00  0.00              
ATOM    297  CA  ASP   297      25.142  52.552 -17.989  1.00  0.00              
ATOM    298  CA  HIS   298      24.311  48.880 -17.553  1.00  0.00              
TER                                                                             
END
