
#######################################################
#                                                     #
#                        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   40 (  160),  selected   40 , name T0348TS550_5
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS550_5.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D       2           -
LGA    -       -      A       3           -
LGA    -       -      K       4           -
LGA    -       -      F       5           -
LGA    -       -      L       6           -
LGA    -       -      E       7           -
LGA    I       8      I       8          3.295
LGA    L       9      L       9          2.003
LGA    V      10      V      10          3.143
LGA    C      11      C      11          2.097
LGA    P      12      -       -           -
LGA    L      13      -       -           -
LGA    C      14      P      12          1.597
LGA    K      15      L      13          1.589
LGA    G      16      C      14          2.138
LGA    P      17      K      15          2.203
LGA    L      18      G      16          2.530
LGA    V      19      P      17          4.327
LGA    F      20      -       -           -
LGA    D      21      -       -           -
LGA    K      22      -       -           -
LGA    S      23      L      18           #
LGA    K      24      V      19          1.846
LGA    D      25      F      20          3.908
LGA    E      26      D      21          3.764
LGA    -       -      K      22           -
LGA    -       -      S      23           -
LGA    -       -      K      24           -
LGA    -       -      D      25           -
LGA    -       -      E      26           -
LGA    L      27      L      27          2.068
LGA    I      28      I      28          1.219
LGA    C      29      C      29          0.955
LGA    -       -      K      30           -
LGA    -       -      G      31           -
LGA    K      30      D      32          2.330
LGA    G      31      R      33          2.412
LGA    D      32      L      34          4.549
LGA    R      33      -       -           -
LGA    L      34      -       -           -
LGA    A      35      A      35          2.633
LGA    F      36      F      36          1.621
LGA    -       -      P      37           -
LGA    P      55      I      38           #
LGA    E      56      K      39           #
LGA    E      57      D      40          4.515
LGA    E      58      -       -           -
LGA    V      59      G      41           #
LGA    K      60      I      42           -
LGA    L      61      P      43           -
LGA    E      62      M      44           -
LGA    H      63      M      45           -
LGA    H      64      L      46           -
LGA    H      65      E      47           -
LGA    -       -      S      48           -
LGA    -       -      E      49           -
LGA    -       -      A      50           -
LGA    -       -      R      51           -
LGA    -       -      E      52           -
LGA    -       -      L      53           -
LGA    -       -      A      54           -
LGA    -       -      P      55           -
LGA    -       -      E      56           -
LGA    -       -      E      57           -
LGA    -       -      E      58           -
LGA    -       -      V      59           -
LGA    -       -      K      60           -
LGA    -       -      L      61           -
LGA    -       -      E      62           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   40   61    5.0     22    2.78    40.91     24.318     0.764

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.276346 * X  +  -0.187707 * Y  +  -0.942549 * Z  +   7.938319
  Y_new =  -0.349265 * X  +  -0.894069 * Y  +   0.280453 * Z  +  41.044636
  Z_new =  -0.895347 * X  +   0.406702 * Y  +   0.181513 * Z  +  50.631901 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.151019   -1.990574  [ DEG:    65.9485   -114.0515 ]
  Theta =   1.109210    2.032382  [ DEG:    63.5531    116.4469 ]
  Phi   =  -2.240162    0.901431  [ DEG:  -128.3518     51.6482 ]
 
# 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: T0348TS550_5                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS550_5.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   40   61   5.0   22   2.78   40.91  24.318
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS550_5
PFRMAT TS
TARGET T0348
MODEL 5
PARENT 2ct7_A
ATOM      1  N   ILE     8       8.592  38.705  59.954  1.00  0.00
ATOM      2  CA  ILE     8       8.088  37.563  60.700  1.00  0.00
ATOM      3  C   ILE     8       7.723  36.414  59.753  1.00  0.00
ATOM      4  O   ILE     8       6.630  36.380  59.199  1.00  0.00
ATOM      5  N   LEU     9       8.645  35.485  59.586  1.00  0.00
ATOM      6  CA  LEU     9       8.421  34.337  58.706  1.00  0.00
ATOM      7  C   LEU     9       8.210  33.065  59.524  1.00  0.00
ATOM      8  O   LEU     9       9.075  32.654  60.300  1.00  0.00
ATOM      9  N   VAL    10       7.167  32.392  58.366  1.00  0.00
ATOM     10  CA  VAL    10       6.625  31.058  58.643  1.00  0.00
ATOM     11  C   VAL    10       7.757  30.050  58.744  1.00  0.00
ATOM     12  O   VAL    10       8.596  29.956  57.845  1.00  0.00
ATOM     13  N   CYS    11       7.790  29.305  59.843  1.00  0.00
ATOM     14  CA  CYS    11       8.834  28.315  60.060  1.00  0.00
ATOM     15  C   CYS    11       8.172  27.029  60.497  1.00  0.00
ATOM     16  O   CYS    11       7.351  27.034  61.415  1.00  0.00
ATOM     17  N   PRO    12       8.519  25.935  59.817  1.00  0.00
ATOM     18  CA  PRO    12       7.958  24.622  60.109  1.00  0.00
ATOM     19  C   PRO    12       6.446  24.697  60.274  1.00  0.00
ATOM     20  O   PRO    12       5.924  24.719  61.393  1.00  0.00
ATOM     21  N   LEU    13       5.759  24.737  59.135  1.00  0.00
ATOM     22  CA  LEU    13       4.304  24.824  59.076  1.00  0.00
ATOM     23  C   LEU    13       3.729  25.959  59.930  1.00  0.00
ATOM     24  O   LEU    13       2.749  25.777  60.667  1.00  0.00
ATOM     25  N   CYS    14       4.344  27.133  59.824  1.00  0.00
ATOM     26  CA  CYS    14       3.877  28.293  60.559  1.00  0.00
ATOM     27  C   CYS    14       3.902  28.067  62.051  1.00  0.00
ATOM     28  O   CYS    14       3.232  28.779  62.789  1.00  0.00
ATOM     29  N   LYS    15       4.658  27.065  62.490  1.00  0.00
ATOM     30  CA  LYS    15       4.769  26.757  63.913  1.00  0.00
ATOM     31  C   LYS    15       5.222  28.003  64.681  1.00  0.00
ATOM     32  O   LYS    15       4.604  28.394  65.671  1.00  0.00
ATOM     33  N   GLY    16       6.308  28.613  64.218  1.00  0.00
ATOM     34  CA  GLY    16       6.841  29.823  64.827  1.00  0.00
ATOM     35  C   GLY    16       6.959  30.869  63.724  1.00  0.00
ATOM     36  O   GLY    16       6.678  30.590  62.562  1.00  0.00
ATOM     37  N   PRO    17       7.353  32.080  64.088  1.00  0.00
ATOM     38  CA  PRO    17       7.495  33.122  63.092  1.00  0.00
ATOM     39  C   PRO    17       8.950  33.499  62.927  1.00  0.00
ATOM     40  O   PRO    17       9.273  34.470  62.251  1.00  0.00
ATOM     41  N   LEU    18       9.788  32.681  63.465  1.00  0.00
ATOM     42  CA  LEU    18      11.219  32.947  63.433  1.00  0.00
ATOM     43  C   LEU    18      11.564  33.955  62.341  1.00  0.00
ATOM     44  O   LEU    18      11.017  33.903  61.235  1.00  0.00
ATOM     45  N   VAL    19      12.462  34.881  62.652  1.00  0.00
ATOM     46  CA  VAL    19      12.880  35.904  61.700  1.00  0.00
ATOM     47  C   VAL    19      13.918  35.354  60.723  1.00  0.00
ATOM     48  O   VAL    19      14.864  34.676  61.120  1.00  0.00
ATOM     49  N   PHE    20      13.910  36.716  59.846  1.00  0.00
ATOM     50  CA  PHE    20      14.901  37.181  58.883  1.00  0.00
ATOM     51  C   PHE    20      16.317  37.155  59.471  1.00  0.00
ATOM     52  O   PHE    20      17.288  37.413  58.751  1.00  0.00
ATOM     53  N   ASP    21      16.445  36.867  60.767  1.00  0.00
ATOM     54  CA  ASP    21      17.772  36.808  61.374  1.00  0.00
ATOM     55  C   ASP    21      18.306  35.425  61.143  1.00  0.00
ATOM     56  O   ASP    21      19.418  35.262  60.662  1.00  0.00
ATOM     57  N   LYS    22      17.488  34.432  61.472  1.00  0.00
ATOM     58  CA  LYS    22      17.842  33.022  61.323  1.00  0.00
ATOM     59  C   LYS    22      18.118  32.532  59.875  1.00  0.00
ATOM     60  O   LYS    22      17.847  33.224  58.870  1.00  0.00
ATOM     61  N   SER    23      18.710  31.345  59.779  1.00  0.00
ATOM     62  CA  SER    23      18.961  30.777  58.469  1.00  0.00
ATOM     63  C   SER    23      18.524  29.338  58.532  1.00  0.00
ATOM     64  O   SER    23      19.258  28.448  58.940  1.00  0.00
ATOM     65  N   LYS    24      17.276  29.155  58.138  1.00  0.00
ATOM     66  CA  LYS    24      16.587  27.884  58.131  1.00  0.00
ATOM     67  C   LYS    24      16.497  27.472  56.653  1.00  0.00
ATOM     68  O   LYS    24      16.267  28.312  55.766  1.00  0.00
ATOM     69  N   ASP    25      16.735  26.186  56.357  1.00  0.00
ATOM     70  CA  ASP    25      16.640  25.795  54.947  1.00  0.00
ATOM     71  C   ASP    25      15.195  25.931  54.406  1.00  0.00
ATOM     72  O   ASP    25      14.232  25.608  55.117  1.00  0.00
ATOM     73  N   GLU    26      15.078  26.431  53.170  1.00  0.00
ATOM     74  CA  GLU    26      13.802  26.604  52.460  1.00  0.00
ATOM     75  C   GLU    26      12.896  27.738  52.954  1.00  0.00
ATOM     76  O   GLU    26      11.690  27.761  52.659  1.00  0.00
ATOM     77  N   LEU    27      13.132  28.901  52.839  1.00  0.00
ATOM     78  CA  LEU    27      13.085  28.911  54.290  1.00  0.00
ATOM     79  C   LEU    27      12.759  27.530  54.840  1.00  0.00
ATOM     80  O   LEU    27      11.997  26.774  54.254  1.00  0.00
ATOM     81  N   ILE    28      13.357  27.196  55.981  1.00  0.00
ATOM     82  CA  ILE    28      13.134  25.897  56.612  1.00  0.00
ATOM     83  C   ILE    28      12.744  26.063  58.076  1.00  0.00
ATOM     84  O   ILE    28      13.437  26.716  58.847  1.00  0.00
ATOM     85  N   CYS    29      12.166  24.981  58.278  1.00  0.00
ATOM     86  CA  CYS    29      10.985  24.604  59.080  1.00  0.00
ATOM     87  C   CYS    29      11.092  23.174  59.631  1.00  0.00
ATOM     88  O   CYS    29      11.837  22.366  59.104  1.00  0.00
ATOM     89  N   LYS    30      10.344  22.856  60.685  1.00  0.00
ATOM     90  CA  LYS    30      10.392  21.499  61.247  1.00  0.00
ATOM     91  C   LYS    30       9.278  20.637  60.682  1.00  0.00
ATOM     92  O   LYS    30       8.159  21.133  60.434  1.00  0.00
ATOM     93  N   GLY    31       9.580  19.351  60.478  1.00  0.00
ATOM     94  CA  GLY    31       8.573  18.402  60.056  1.00  0.00
ATOM     95  C   GLY    31       7.361  18.416  61.025  1.00  0.00
ATOM     96  O   GLY    31       7.526  18.503  62.239  1.00  0.00
ATOM     97  N   ASP    32       6.144  18.247  60.505  1.00  0.00
ATOM     98  CA  ASP    32       5.746  17.838  59.133  1.00  0.00
ATOM     99  C   ASP    32       5.817  18.878  58.011  1.00  0.00
ATOM    100  O   ASP    32       5.468  18.549  56.875  1.00  0.00
ATOM    101  N   ARG    33       6.256  20.103  58.292  1.00  0.00
ATOM    102  CA  ARG    33       6.445  21.076  57.232  1.00  0.00
ATOM    103  C   ARG    33       7.732  20.793  56.462  1.00  0.00
ATOM    104  O   ARG    33       8.703  20.341  57.056  1.00  0.00
ATOM    105  N   LEU    34       7.676  21.035  55.149  1.00  0.00
ATOM    106  CA  LEU    34       8.784  20.937  54.237  1.00  0.00
ATOM    107  C   LEU    34       9.096  22.330  53.647  1.00  0.00
ATOM    108  O   LEU    34       8.287  23.262  53.781  1.00  0.00
ATOM    109  N   ALA    35      10.662  22.860  53.590  1.00  0.00
ATOM    110  CA  ALA    35      10.934  24.025  52.761  1.00  0.00
ATOM    111  C   ALA    35       9.643  24.613  52.204  1.00  0.00
ATOM    112  O   ALA    35       8.934  23.975  51.432  1.00  0.00
ATOM    113  N   PHE    36       9.345  25.844  52.609  1.00  0.00
ATOM    114  CA  PHE    36       8.145  26.527  52.155  1.00  0.00
ATOM    115  C   PHE    36       8.438  27.986  51.808  1.00  0.00
ATOM    116  O   PHE    36       9.222  28.652  52.479  1.00  0.00
ATOM    117  N   PRO    55       5.439  33.576  42.969  1.00  0.00
ATOM    118  CA  PRO    55       4.231  32.880  43.390  1.00  0.00
ATOM    119  C   PRO    55       3.189  32.876  42.284  1.00  0.00
ATOM    120  O   PRO    55       2.438  31.913  42.132  1.00  0.00
ATOM    121  N   GLU    56       3.151  33.955  41.517  1.00  0.00
ATOM    122  CA  GLU    56       2.193  34.084  40.422  1.00  0.00
ATOM    123  C   GLU    56       2.550  33.139  39.273  1.00  0.00
ATOM    124  O   GLU    56       1.810  32.212  38.959  1.00  0.00
ATOM    125  N   GLU    57       3.694  33.390  38.655  1.00  0.00
ATOM    126  CA  GLU    57       4.156  32.562  37.540  1.00  0.00
ATOM    127  C   GLU    57       4.151  31.084  37.928  1.00  0.00
ATOM    128  O   GLU    57       3.709  30.242  37.153  1.00  0.00
ATOM    129  N   GLU    58       4.642  30.785  39.121  1.00  0.00
ATOM    130  CA  GLU    58       4.690  29.419  39.606  1.00  0.00
ATOM    131  C   GLU    58       3.318  28.750  39.520  1.00  0.00
ATOM    132  O   GLU    58       3.163  27.693  38.919  1.00  0.00
ATOM    133  N   VAL    59       2.330  29.389  40.123  1.00  0.00
ATOM    134  CA  VAL    59       0.973  28.857  40.124  1.00  0.00
ATOM    135  C   VAL    59       0.551  28.460  38.711  1.00  0.00
ATOM    136  O   VAL    59       0.079  27.340  38.490  1.00  0.00
ATOM    137  N   LYS    60       0.724  29.370  37.767  1.00  0.00
ATOM    138  CA  LYS    60       0.368  29.111  36.369  1.00  0.00
ATOM    139  C   LYS    60       1.015  27.824  35.879  1.00  0.00
ATOM    140  O   LYS    60       0.431  27.097  35.069  1.00  0.00
ATOM    141  N   LEU    61       2.214  27.547  36.365  1.00  0.00
ATOM    142  CA  LEU    61       2.940  26.354  35.970  1.00  0.00
ATOM    143  C   LEU    61       2.300  25.103  36.566  1.00  0.00
ATOM    144  O   LEU    61       2.353  24.020  35.978  1.00  0.00
ATOM    145  N   GLU    62       1.703  25.259  37.739  1.00  0.00
ATOM    146  CA  GLU    62       1.058  24.143  38.429  1.00  0.00
ATOM    147  C   GLU    62      -0.213  23.731  37.698  1.00  0.00
ATOM    148  O   GLU    62      -0.468  22.548  37.490  1.00  0.00
ATOM    149  N   HIS    63      -1.021  24.716  37.328  1.00  0.00
ATOM    150  CA  HIS    63      -2.280  24.463  36.632  1.00  0.00
ATOM    151  C   HIS    63      -2.012  23.868  35.251  1.00  0.00
ATOM    152  O   HIS    63      -2.804  23.066  34.747  1.00  0.00
ATOM    153  N   HIS    64      -0.909  24.271  34.631  1.00  0.00
ATOM    154  CA  HIS    64      -0.545  23.775  33.316  1.00  0.00
ATOM    155  C   HIS    64       0.092  22.398  33.410  1.00  0.00
ATOM    156  O   HIS    64      -0.316  21.468  32.727  1.00  0.00
ATOM    157  N   HIS    65       1.111  22.279  34.259  1.00  0.00
ATOM    158  CA  HIS    65       1.812  21.020  34.445  1.00  0.00
ATOM    159  C   HIS    65       0.956  20.030  35.218  1.00  0.00
ATOM    160  O   HIS    65       0.624  18.948  34.726  1.00  0.00
TER
END
