
#######################################################
#                                                     #
#                        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   95 (   95),  selected   95 , name T0306TS599_4
# Molecule2: number of CA atoms   95 (  694),  selected   95 , name T0306.pdb
# PARAMETERS: T0306TS599_4.T0306.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    K       2      -       -           -
LGA    L       3      -       -           -
LGA    A       4      -       -           -
LGA    V       5      -       -           -
LGA    V       6      -       -           -
LGA    T       7      -       -           -
LGA    G       8      -       -           -
LGA    Q       9      K       2           #
LGA    -       -      L       3           -
LGA    I      10      A       4          2.709
LGA    V      11      V       5          0.375
LGA    C      12      V       6          2.252
LGA    T      13      T       7          5.013
LGA    V      14      G       8           #
LGA    R      15      Q       9          3.616
LGA    H      16      -       -           -
LGA    H      17      -       -           -
LGA    G      18      I      10          4.593
LGA    L      19      V      11          2.464
LGA    -       -      C      12           -
LGA    A      20      T      13          3.882
LGA    H      21      V      14           -
LGA    -       -      R      15           -
LGA    -       -      H      16           -
LGA    -       -      H      17           -
LGA    -       -      G      18           -
LGA    -       -      L      19           -
LGA    -       -      A      20           -
LGA    D      22      H      21          3.885
LGA    K      23      D      22          2.555
LGA    L      24      K      23          3.586
LGA    -       -      L      24           -
LGA    L      25      L      25          3.483
LGA    M      26      M      26          3.262
LGA    V      27      V      27          2.829
LGA    E      28      E      28          1.623
LGA    M      29      M      29          1.372
LGA    I      30      I      30          2.478
LGA    D      31      D      31          3.738
LGA    -       -      P      32           -
LGA    -       -      Q      33           -
LGA    P      32      G      34          3.315
LGA    Q      33      N      35          3.697
LGA    G      34      -       -           -
LGA    N      35      P      36          4.165
LGA    P      36      D      37          3.417
LGA    D      37      G      38          3.432
LGA    G      38      Q      39          2.465
LGA    Q      39      -       -           -
LGA    C      40      C      40          3.493
LGA    A      41      A      41          4.456
LGA    V      42      V      42          2.947
LGA    A      43      A      43          2.887
LGA    I      44      I      44          4.384
LGA    D      45      -       -           -
LGA    N      46      -       -           -
LGA    I      47      -       -           -
LGA    G      48      D      45           #
LGA    -       -      N      46           -
LGA    -       -      I      47           -
LGA    -       -      G      48           -
LGA    -       -      A      49           -
LGA    -       -      G      50           -
LGA    -       -      T      51           -
LGA    -       -      G      52           -
LGA    -       -      E      53           -
LGA    -       -      W      54           -
LGA    -       -      V      55           -
LGA    -       -      L      56           -
LGA    -       -      L      57           -
LGA    -       -      V      58           -
LGA    -       -      S      59           -
LGA    -       -      G      60           -
LGA    -       -      S      61           -
LGA    -       -      S      62           -
LGA    -       -      A      63           -
LGA    -       -      R      64           -
LGA    -       -      Q      65           -
LGA    -       -      A      66           -
LGA    A      49      H      67          4.799
LGA    G      50      K      68          2.175
LGA    T      51      S      69          2.384
LGA    G      52      E      70           #
LGA    -       -      T      71           -
LGA    E      53      S      72          2.801
LGA    W      54      P      73          2.518
LGA    V      55      V      74          2.436
LGA    L      56      D      75          3.271
LGA    L      57      -       -           -
LGA    V      58      -       -           -
LGA    S      59      -       -           -
LGA    G      60      -       -           -
LGA    S      61      -       -           -
LGA    S      62      -       -           -
LGA    A      63      -       -           -
LGA    R      64      -       -           -
LGA    Q      65      -       -           -
LGA    A      66      -       -           -
LGA    H      67      -       -           -
LGA    K      68      -       -           -
LGA    S      69      -       -           -
LGA    E      70      -       -           -
LGA    T      71      -       -           -
LGA    S      72      -       -           -
LGA    P      73      -       -           -
LGA    V      74      -       -           -
LGA    D      75      -       -           -
LGA    L      76      L      76          1.256
LGA    C      77      C      77          3.105
LGA    V      78      V      78          1.818
LGA    I      79      -       -           -
LGA    G      80      -       -           -
LGA    I      81      I      79           #
LGA    V      82      G      80          2.027
LGA    D      83      I      81          2.599
LGA    E      84      -       -           -
LGA    V      85      -       -           -
LGA    V      86      -       -           -
LGA    S      87      -       -           -
LGA    G      88      -       -           -
LGA    G      89      V      82          4.733
LGA    Q      90      D      83           -
LGA    V      91      E      84           -
LGA    I      92      V      85           -
LGA    F      93      V      86           -
LGA    H      94      S      87           -
LGA    K      95      G      88           -
LGA    -       -      G      89           -
LGA    -       -      Q      90           -
LGA    -       -      V      91           -
LGA    -       -      I      92           -
LGA    -       -      F      93           -
LGA    -       -      H      94           -
LGA    -       -      K      95           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   95   95    5.0     42    3.22    42.86     24.906     1.266

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.586091 * X  +  -0.202623 * Y  +   0.784501 * Z  +  38.471378
  Y_new =  -0.097404 * X  +   0.978824 * Y  +   0.180044 * Z  +  29.069798
  Z_new =  -0.804369 * X  +   0.029109 * Y  +  -0.593416 * Z  +  65.819450 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.092579   -0.049013  [ DEG:   177.1917     -2.8083 ]
  Theta =   0.934613    2.206980  [ DEG:    53.5494    126.4506 ]
  Phi   =  -2.976905    0.164687  [ DEG:  -170.5641      9.4359 ]
 
# 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: T0306TS599_4                                  
REMARK     2: T0306.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0306TS599_4.T0306.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   95   95   5.0   42   3.22   42.86  24.906
REMARK  ---------------------------------------------------------- 
MOLECULE T0306TS599_4
PFRMAT TS                                                                       
TARGET T0306                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      55.900  30.242  57.766  1.00  0.00              
ATOM      2  CA  LYS     2      52.974  27.754  57.010  1.00  0.00              
ATOM      3  CA  LEU     3      56.199  28.022  59.315  1.00  0.00              
ATOM      4  CA  ALA     4      54.167  31.019  60.596  1.00  0.00              
ATOM      5  CA  VAL     5      51.082  29.082  61.519  1.00  0.00              
ATOM      6  CA  VAL     6      53.167  26.519  63.442  1.00  0.00              
ATOM      7  CA  THR     7      55.595  28.958  65.093  1.00  0.00              
ATOM      8  CA  GLY     8      52.724  31.156  66.263  1.00  0.00              
ATOM      9  CA  GLN     9      50.947  28.341  67.974  1.00  0.00              
ATOM     10  CA  ILE    10      47.568  27.571  66.866  1.00  0.00              
ATOM     11  CA  VAL    11      45.876  24.749  68.311  1.00  0.00              
ATOM     12  CA  CYS    12      42.720  23.597  66.655  1.00  0.00              
ATOM     13  CA  THR    13      40.267  21.295  68.330  1.00  0.00              
ATOM     14  CA  VAL    14      37.670  19.541  66.272  1.00  0.00              
ATOM     15  CA  ARG    15      35.006  17.716  67.969  1.00  0.00              
ATOM     16  CA  HIS    16      32.477  16.008  65.775  1.00  0.00              
ATOM     17  CA  HIS    17      32.091  12.737  67.696  1.00  0.00              
ATOM     18  CA  GLY    18      31.478  14.726  70.865  1.00  0.00              
ATOM     19  CA  LEU    19      28.511  16.513  69.749  1.00  0.00              
ATOM     20  CA  ALA    20      26.484  13.774  68.185  1.00  0.00              
ATOM     21  CA  HIS    21      26.655  14.833  64.549  1.00  0.00              
ATOM     22  CA  ASP    22      26.980  18.553  65.412  1.00  0.00              
ATOM     23  CA  LYS    23      30.205  20.124  64.430  1.00  0.00              
ATOM     24  CA  LEU    24      32.209  21.673  67.204  1.00  0.00              
ATOM     25  CA  LEU    25      35.283  23.710  66.344  1.00  0.00              
ATOM     26  CA  MET    26      37.564  24.900  69.150  1.00  0.00              
ATOM     27  CA  VAL    27      40.440  27.284  68.408  1.00  0.00              
ATOM     28  CA  GLU    28      43.180  27.755  71.059  1.00  0.00              
ATOM     29  CA  MET    29      45.853  30.215  70.637  1.00  0.00              
ATOM     30  CA  ILE    30      49.020  29.574  72.370  1.00  0.00              
ATOM     31  CA  ASP    31      51.839  32.028  72.106  1.00  0.00              
ATOM     32  CA  PRO    32      55.348  31.025  71.255  1.00  0.00              
ATOM     33  CA  GLN    33      56.473  30.513  74.796  1.00  0.00              
ATOM     34  CA  GLY    34      53.600  28.347  75.879  1.00  0.00              
ATOM     35  CA  ASN    35      51.700  31.002  77.848  1.00  0.00              
ATOM     36  CA  PRO    36      47.959  30.978  77.502  1.00  0.00              
ATOM     37  CA  ASP    37      47.018  34.272  75.956  1.00  0.00              
ATOM     38  CA  GLY    38      43.347  34.539  77.022  1.00  0.00              
ATOM     39  CA  GLN    39      41.921  34.125  73.501  1.00  0.00              
ATOM     40  CA  CYS    40      39.663  31.193  72.941  1.00  0.00              
ATOM     41  CA  ALA    41      37.710  30.858  69.790  1.00  0.00              
ATOM     42  CA  VAL    42      34.607  28.679  69.867  1.00  0.00              
ATOM     43  CA  ALA    43      32.737  27.764  66.717  1.00  0.00              
ATOM     44  CA  ILE    44      29.412  26.071  67.010  1.00  0.00              
ATOM     45  CA  ASP    45      27.808  24.688  63.994  1.00  0.00              
ATOM     46  CA  ASN    46      24.679  22.691  64.256  1.00  0.00              
ATOM     47  CA  ILE    47      25.071  20.500  61.171  1.00  0.00              
ATOM     48  CA  GLY    48      28.351  21.610  59.777  1.00  0.00              
ATOM     49  CA  ALA    49      29.079  24.685  57.890  1.00  0.00              
ATOM     50  CA  GLY    50      28.050  28.171  58.133  1.00  0.00              
ATOM     51  CA  THR    51      25.012  30.349  57.846  1.00  0.00              
ATOM     52  CA  GLY    52      23.167  29.622  61.108  1.00  0.00              
ATOM     53  CA  GLU    53      26.352  28.911  62.944  1.00  0.00              
ATOM     54  CA  TRP    54      27.111  30.514  66.275  1.00  0.00              
ATOM     55  CA  VAL    55      30.519  32.017  66.761  1.00  0.00              
ATOM     56  CA  LEU    56      31.850  32.779  70.186  1.00  0.00              
ATOM     57  CA  LEU    57      34.880  34.984  70.569  1.00  0.00              
ATOM     58  CA  VAL    58      36.592  35.266  73.942  1.00  0.00              
ATOM     59  CA  SER    59      39.488  37.657  74.549  1.00  0.00              
ATOM     60  CA  GLY    60      41.387  39.747  71.975  1.00  0.00              
ATOM     61  CA  SER    61      40.021  43.128  72.874  1.00  0.00              
ATOM     62  CA  SER    62      37.461  43.705  70.084  1.00  0.00              
ATOM     63  CA  ALA    63      36.086  40.261  70.441  1.00  0.00              
ATOM     64  CA  ARG    64      35.611  40.364  74.255  1.00  0.00              
ATOM     65  CA  GLN    65      33.770  43.673  73.962  1.00  0.00              
ATOM     66  CA  ALA    66      31.371  42.596  71.212  1.00  0.00              
ATOM     67  CA  HIS    67      29.859  39.340  72.569  1.00  0.00              
ATOM     68  CA  LYS    68      29.352  41.015  75.997  1.00  0.00              
ATOM     69  CA  SER    69      27.525  44.227  74.947  1.00  0.00              
ATOM     70  CA  GLU    70      24.930  42.649  72.601  1.00  0.00              
ATOM     71  CA  THR    71      26.311  43.795  69.251  1.00  0.00              
ATOM     72  CA  SER    72      26.545  40.923  66.788  1.00  0.00              
ATOM     73  CA  PRO    73      29.858  40.082  65.033  1.00  0.00              
ATOM     74  CA  VAL    74      30.703  36.538  65.874  1.00  0.00              
ATOM     75  CA  ASP    75      34.279  35.546  65.546  1.00  0.00              
ATOM     76  CA  LEU    76      34.383  31.721  65.087  1.00  0.00              
ATOM     77  CA  CYS    77      37.574  29.791  64.840  1.00  0.00              
ATOM     78  CA  VAL    78      37.679  26.574  62.671  1.00  0.00              
ATOM     79  CA  ILE    79      40.492  24.311  63.161  1.00  0.00              
ATOM     80  CA  GLY    80      39.784  21.244  61.120  1.00  0.00              
ATOM     81  CA  ILE    81      38.731  23.337  58.094  1.00  0.00              
ATOM     82  CA  VAL    82      41.832  25.505  58.230  1.00  0.00              
ATOM     83  CA  ASP    83      44.069  22.406  58.461  1.00  0.00              
ATOM     84  CA  GLU    84      42.268  20.696  55.647  1.00  0.00              
ATOM     85  CA  VAL    85      42.949  23.354  53.214  1.00  0.00              
ATOM     86  CA  VAL    86      46.139  25.025  53.831  1.00  0.00              
ATOM     87  CA  SER    87      47.716  27.043  51.230  1.00  0.00              
ATOM     88  CA  GLY    88      50.762  28.792  52.253  1.00  0.00              
ATOM     89  CA  GLY    89      49.302  29.703  55.647  1.00  0.00              
ATOM     90  CA  GLN    90      46.267  30.977  54.035  1.00  0.00              
ATOM     91  CA  VAL    91      43.402  29.121  55.133  1.00  0.00              
ATOM     92  CA  ILE    92      40.911  28.169  52.695  1.00  0.00              
ATOM     93  CA  PHE    93      37.576  27.530  53.749  1.00  0.00              
ATOM     94  CA  HIS    94      33.966  26.612  55.231  1.00  0.00              
ATOM     95  CA  LYS    95      32.279  28.351  58.301  1.00  0.00              
TER                                                                             
END
