
#######################################################
#                                                     #
#                        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   23 (  197),  selected   23 , name T0348TS186_1
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS186_1.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    L      46      D       2           -
LGA    -       -      A       3           -
LGA    E      47      K       4           #
LGA    S      48      F       5          5.315
LGA    E      49      L       6          2.073
LGA    A      50      E       7          1.551
LGA    R      51      I       8          2.557
LGA    E      52      L       9          1.922
LGA    L      53      V      10          1.733
LGA    -       -      C      11           -
LGA    A      54      P      12          2.594
LGA    P      55      L      13          2.435
LGA    E      56      C      14          1.547
LGA    E      57      K      15          1.003
LGA    E      58      G      16          0.948
LGA    V      59      P      17          3.122
LGA    K      60      -       -           -
LGA    L      61      L      18          1.258
LGA    E      62      V      19          1.110
LGA    H      63      F      20          1.061
LGA    H      64      D      21          0.814
LGA    H      65      K      22          1.537
LGA    H      66      S      23          1.538
LGA    H      67      K      24          0.962
LGA    H      68      D      25          1.627
LGA    -       -      E      26           -
LGA    -       -      L      27           -
LGA    -       -      I      28           -
LGA    -       -      C      29           -
LGA    -       -      K      30           -
LGA    -       -      G      31           -
LGA    -       -      D      32           -
LGA    -       -      R      33           -
LGA    -       -      L      34           -
LGA    -       -      A      35           -
LGA    -       -      F      36           -
LGA    -       -      P      37           -
LGA    -       -      I      38           -
LGA    -       -      K      39           -
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      P      43           -
LGA    -       -      M      44           -
LGA    -       -      M      45           -
LGA    -       -      L      46           -
LGA    -       -      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)   23   61    5.0     20    2.10     5.00     28.520     0.911

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.086038 * X  +  -0.389285 * Y  +   0.917090 * Z  +  10.901514
  Y_new =  -0.813170 * X  +  -0.504404 * Y  +  -0.290397 * Z  +  29.904034
  Z_new =   0.575631 * X  +  -0.770736 * Y  +  -0.273157 * Z  +  49.726936 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.911395    1.230197  [ DEG:  -109.5149     70.4851 ]
  Theta =  -0.613376   -2.528216  [ DEG:   -35.1439   -144.8561 ]
  Phi   =  -1.676210    1.465383  [ DEG:   -96.0397     83.9603 ]
 
# 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: T0348TS186_1                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS186_1.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   23   61   5.0   20   2.10    5.00  28.520
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS186_1
PFRMAT TS
TARGET T0348
MODEL  1
PARENT 1pft
ATOM      1  N   LEU    46       0.165  35.329  48.726  1.00  0.00
ATOM      2  CA  LEU    46       0.885  36.493  49.270  1.00  0.00
ATOM      3  C   LEU    46      -0.103  37.459  49.907  1.00  0.00
ATOM      4  O   LEU    46      -0.995  37.984  49.244  1.00  0.00
ATOM      5  CB  LEU    46       1.641  37.223  48.158  1.00  0.00
ATOM      6  CG  LEU    46       2.505  38.408  48.593  1.00  0.00
ATOM      7  CD1 LEU    46       3.657  37.941  49.469  1.00  0.00
ATOM      8  CD2 LEU    46       3.088  39.121  47.382  1.00  0.00
ATOM      9  N   GLU    47       0.151  37.782  51.173  1.00  0.00
ATOM     10  CA  GLU    47      -0.755  38.620  51.946  1.00  0.00
ATOM     11  C   GLU    47      -0.028  39.217  53.149  1.00  0.00
ATOM     12  O   GLU    47       0.634  38.503  53.902  1.00  0.00
ATOM     13  CB  GLU    47      -1.943  37.801  52.453  1.00  0.00
ATOM     14  CG  GLU    47      -2.985  38.615  53.201  1.00  0.00
ATOM     15  CD  GLU    47      -4.183  37.786  53.619  1.00  0.00
ATOM     16  OE1 GLU    47      -4.219  36.583  53.285  1.00  0.00
ATOM     17  OE2 GLU    47      -5.087  38.339  54.280  1.00  0.00
ATOM     18  N   SER    48      -0.038  40.543  53.219  1.00  0.00
ATOM     19  CA  SER    48       0.810  41.272  54.154  1.00  0.00
ATOM     20  C   SER    48       2.272  41.174  53.729  1.00  0.00
ATOM     21  O   SER    48       2.578  41.047  52.545  1.00  0.00
ATOM     22  CB  SER    48       0.674  40.695  55.564  1.00  0.00
ATOM     23  OG  SER    48       1.318  41.521  56.518  1.00  0.00
ATOM     24  N   GLU    49       3.162  41.333  54.703  1.00  0.00
ATOM     25  CA  GLU    49       4.583  41.500  54.426  1.00  0.00
ATOM     26  C   GLU    49       5.133  40.274  53.705  1.00  0.00
ATOM     27  O   GLU    49       5.966  40.388  52.810  1.00  0.00
ATOM     28  CB  GLU    49       5.363  41.687  55.728  1.00  0.00
ATOM     29  CG  GLU    49       5.120  43.023  56.412  1.00  0.00
ATOM     30  CD  GLU    49       5.812  43.125  57.756  1.00  0.00
ATOM     31  OE1 GLU    49       6.422  42.124  58.188  1.00  0.00
ATOM     32  OE2 GLU    49       5.746  44.206  58.379  1.00  0.00
ATOM     33  N   ALA    50       4.732  39.103  54.189  1.00  0.00
ATOM     34  CA  ALA    50       5.300  37.844  53.728  1.00  0.00
ATOM     35  C   ALA    50       6.754  37.722  54.171  1.00  0.00
ATOM     36  O   ALA    50       7.674  38.005  53.407  1.00  0.00
ATOM     37  CB  ALA    50       5.249  37.763  52.210  1.00  0.00
ATOM     38  N   ARG    51       6.941  37.206  55.381  1.00  0.00
ATOM     39  CA  ARG    51       8.258  36.795  55.849  1.00  0.00
ATOM     40  C   ARG    51       8.128  35.951  57.115  1.00  0.00
ATOM     41  O   ARG    51       7.065  35.370  57.365  1.00  0.00
ATOM     42  CB  ARG    51       9.120  38.019  56.164  1.00  0.00
ATOM     43  CG  ARG    51       8.584  38.880  57.296  1.00  0.00
ATOM     44  CD  ARG    51       9.437  40.123  57.496  1.00  0.00
ATOM     45  NE  ARG    51       8.892  41.000  58.530  1.00  0.00
ATOM     46  CZ  ARG    51       9.364  42.211  58.805  1.00  0.00
ATOM     47  NH1 ARG    51       8.804  42.938  59.764  1.00  0.00
ATOM     48  NH2 ARG    51      10.393  42.694  58.122  1.00  0.00
ATOM     49  N   GLU    52       9.281  35.584  57.670  1.00  0.00
ATOM     50  CA  GLU    52       9.331  34.831  58.909  1.00  0.00
ATOM     51  C   GLU    52       8.601  33.499  58.773  1.00  0.00
ATOM     52  O   GLU    52       8.240  33.074  57.678  1.00  0.00
ATOM     53  CB  GLU    52       8.674  35.621  60.043  1.00  0.00
ATOM     54  CG  GLU    52       9.389  36.914  60.394  1.00  0.00
ATOM     55  CD  GLU    52       8.709  37.669  61.520  1.00  0.00
ATOM     56  OE1 GLU    52       7.656  37.199  62.000  1.00  0.00
ATOM     57  OE2 GLU    52       9.228  38.731  61.922  1.00  0.00
ATOM     58  N   LEU    53       8.296  32.906  59.924  1.00  0.00
ATOM     59  CA  LEU    53       7.395  31.772  59.998  1.00  0.00
ATOM     60  C   LEU    53       6.023  32.241  60.554  1.00  0.00
ATOM     61  O   LEU    53       5.809  32.249  61.779  1.00  0.00
ATOM     62  CB  LEU    53       7.965  30.694  60.921  1.00  0.00
ATOM     63  CG  LEU    53       9.319  30.105  60.520  1.00  0.00
ATOM     64  CD1 LEU    53       9.786  29.083  61.546  1.00  0.00
ATOM     65  CD2 LEU    53       9.226  29.412  59.169  1.00  0.00
ATOM     66  N   ALA    54       5.020  32.178  59.644  1.00  0.00
ATOM     67  CA  ALA    54       3.593  32.327  60.014  1.00  0.00
ATOM     68  C   ALA    54       3.053  31.181  60.868  1.00  0.00
ATOM     69  O   ALA    54       1.879  31.182  61.241  1.00  0.00
ATOM     70  CB  ALA    54       2.726  32.390  58.766  1.00  0.00
ATOM     71  N   PRO    55       3.823  30.094  60.893  1.00  0.00
ATOM     72  CA  PRO    55       3.400  28.871  61.560  1.00  0.00
ATOM     73  C   PRO    55       3.677  28.955  63.056  1.00  0.00
ATOM     74  O   PRO    55       2.771  29.184  63.856  1.00  0.00
ATOM     75  CB  PRO    55       4.234  27.777  60.891  1.00  0.00
ATOM     76  CG  PRO    55       4.624  28.358  59.573  1.00  0.00
ATOM     77  CD  PRO    55       4.827  29.828  59.809  1.00  0.00
ATOM     78  N   GLU    56       4.955  28.826  63.420  1.00  0.00
ATOM     79  CA  GLU    56       5.309  28.543  64.808  1.00  0.00
ATOM     80  C   GLU    56       5.677  29.804  65.568  1.00  0.00
ATOM     81  O   GLU    56       6.043  29.741  66.748  1.00  0.00
ATOM     82  CB  GLU    56       6.509  27.595  64.872  1.00  0.00
ATOM     83  CG  GLU    56       6.243  26.218  64.286  1.00  0.00
ATOM     84  CD  GLU    56       7.457  25.312  64.354  1.00  0.00
ATOM     85  OE1 GLU    56       8.526  25.784  64.796  1.00  0.00
ATOM     86  OE2 GLU    56       7.339  24.131  63.966  1.00  0.00
ATOM     87  N   GLU    57       5.757  30.923  64.854  1.00  0.00
ATOM     88  CA  GLU    57       6.474  32.105  65.335  1.00  0.00
ATOM     89  C   GLU    57       7.942  31.768  65.573  1.00  0.00
ATOM     90  O   GLU    57       8.403  31.659  66.705  1.00  0.00
ATOM     91  CB  GLU    57       5.780  32.619  66.583  1.00  0.00
ATOM     92  CG  GLU    57       4.946  33.862  66.412  1.00  0.00
ATOM     93  CD  GLU    57       3.517  33.688  65.980  1.00  0.00
ATOM     94  OE1 GLU    57       2.774  33.389  66.941  1.00  0.00
ATOM     95  OE2 GLU    57       3.156  33.664  64.817  1.00  0.00
ATOM     96  N   GLU    58       8.653  31.517  64.473  1.00  0.00
ATOM     97  CA  GLU    58      10.106  31.425  64.508  1.00  0.00
ATOM     98  C   GLU    58      10.708  32.120  63.289  1.00  0.00
ATOM     99  O   GLU    58      10.535  31.668  62.159  1.00  0.00
ATOM    100  CB  GLU    58      10.550  29.961  64.504  1.00  0.00
ATOM    101  CG  GLU    58      12.057  29.769  64.563  1.00  0.00
ATOM    102  CD  GLU    58      12.460  28.308  64.551  1.00  0.00
ATOM    103  OE1 GLU    58      11.558  27.444  64.535  1.00  0.00
ATOM    104  OE2 GLU    58      13.676  28.027  64.558  1.00  0.00
ATOM    105  N   VAL    59      11.276  33.298  63.527  1.00  0.00
ATOM    106  CA  VAL    59      11.652  34.205  62.448  1.00  0.00
ATOM    107  C   VAL    59      12.836  33.671  61.647  1.00  0.00
ATOM    108  O   VAL    59      13.246  34.279  60.656  1.00  0.00
ATOM    109  CB  VAL    59      12.054  35.589  62.989  1.00  0.00
ATOM    110  CG1 VAL    59      10.903  36.215  63.762  1.00  0.00
ATOM    111  CG2 VAL    59      13.250  35.471  63.921  1.00  0.00
ATOM    112  N   LYS    60      13.516  32.690  62.232  1.00  0.00
ATOM    113  CA  LYS    60      14.636  32.039  61.563  1.00  0.00
ATOM    114  C   LYS    60      14.119  31.053  60.514  1.00  0.00
ATOM    115  O   LYS    60      13.821  29.902  60.831  1.00  0.00
ATOM    116  CB  LYS    60      15.492  31.273  62.574  1.00  0.00
ATOM    117  CG  LYS    60      16.723  30.614  61.972  1.00  0.00
ATOM    118  CD  LYS    60      17.577  29.957  63.044  1.00  0.00
ATOM    119  CE  LYS    60      18.833  29.342  62.448  1.00  0.00
ATOM    120  NZ  LYS    60      19.693  28.717  63.491  1.00  0.00
ATOM    121  N   LEU    61      14.230  31.459  59.254  1.00  0.00
ATOM    122  CA  LEU    61      14.045  30.549  58.130  1.00  0.00
ATOM    123  C   LEU    61      15.379  30.272  57.446  1.00  0.00
ATOM    124  O   LEU    61      16.395  30.885  57.767  1.00  0.00
ATOM    125  CB  LEU    61      12.985  31.160  57.200  1.00  0.00
ATOM    126  CG  LEU    61      11.748  31.746  57.859  1.00  0.00
ATOM    127  CD1 LEU    61      10.800  32.330  56.820  1.00  0.00
ATOM    128  CD2 LEU    61      11.047  30.646  58.649  1.00  0.00
ATOM    129  N   GLU    62      15.320  29.455  56.398  1.00  0.00
ATOM    130  CA  GLU    62      16.523  29.012  55.707  1.00  0.00
ATOM    131  C   GLU    62      16.183  28.545  54.295  1.00  0.00
ATOM    132  O   GLU    62      15.033  28.229  53.995  1.00  0.00
ATOM    133  CB  GLU    62      17.175  27.849  56.459  1.00  0.00
ATOM    134  CG  GLU    62      18.458  27.340  55.821  1.00  0.00
ATOM    135  CD  GLU    62      19.082  26.199  56.600  1.00  0.00
ATOM    136  OE1 GLU    62      18.466  25.748  57.588  1.00  0.00
ATOM    137  OE2 GLU    62      20.187  25.757  56.222  1.00  0.00
ATOM    138  N   HIS    63      17.169  28.648  53.409  1.00  0.00
ATOM    139  CA  HIS    63      16.948  28.457  51.982  1.00  0.00
ATOM    140  C   HIS    63      17.382  27.057  51.560  1.00  0.00
ATOM    141  O   HIS    63      18.017  26.337  52.329  1.00  0.00
ATOM    142  CB  HIS    63      17.751  29.478  51.174  1.00  0.00
ATOM    143  CG  HIS    63      17.357  30.898  51.434  1.00  0.00
ATOM    144  ND1 HIS    63      16.298  31.507  50.795  1.00  0.00
ATOM    145  CD2 HIS    63      17.842  31.971  52.290  1.00  0.00
ATOM    146  CE1 HIS    63      16.191  32.774  51.233  1.00  0.00
ATOM    147  NE2 HIS    63      17.114  33.058  52.130  1.00  0.00
ATOM    148  N   HIS    64      16.858  26.620  50.418  1.00  0.00
ATOM    149  CA  HIS    64      17.030  25.254  49.959  1.00  0.00
ATOM    150  C   HIS    64      17.246  25.239  48.432  1.00  0.00
ATOM    151  O   HIS    64      16.304  25.064  47.646  1.00  0.00
ATOM    152  CB  HIS    64      15.791  24.418  50.289  1.00  0.00
ATOM    153  CG  HIS    64      15.469  24.365  51.751  1.00  0.00
ATOM    154  ND1 HIS    64      16.189  23.603  52.645  1.00  0.00
ATOM    155  CD2 HIS    64      14.473  24.978  52.617  1.00  0.00
ATOM    156  CE1 HIS    64      15.667  23.759  53.874  1.00  0.00
ATOM    157  NE2 HIS    64      14.636  24.583  53.864  1.00  0.00
ATOM    158  N   HIS    65      18.497  25.538  48.028  1.00  0.00
ATOM    159  CA  HIS    65      18.846  25.748  46.600  1.00  0.00
ATOM    160  C   HIS    65      18.575  24.528  45.720  1.00  0.00
ATOM    161  O   HIS    65      18.712  24.594  44.499  1.00  0.00
ATOM    162  CB  HIS    65      20.334  26.077  46.455  1.00  0.00
ATOM    163  CG  HIS    65      20.710  27.422  46.995  1.00  0.00
ATOM    164  ND1 HIS    65      20.215  28.599  46.475  1.00  0.00
ATOM    165  CD2 HIS    65      21.570  27.908  48.064  1.00  0.00
ATOM    166  CE1 HIS    65      20.730  29.633  47.163  1.00  0.00
ATOM    167  NE2 HIS    65      21.545  29.226  48.118  1.00  0.00
ATOM    168  N   HIS    66      18.454  23.380  46.379  1.00  0.00
ATOM    169  CA  HIS    66      18.306  22.106  45.688  1.00  0.00
ATOM    170  C   HIS    66      16.890  21.976  45.125  1.00  0.00
ATOM    171  O   HIS    66      16.713  21.679  43.945  1.00  0.00
ATOM    172  CB  HIS    66      18.559  20.943  46.648  1.00  0.00
ATOM    173  CG  HIS    66      19.975  20.849  47.124  1.00  0.00
ATOM    174  ND1 HIS    66      21.027  20.567  46.280  1.00  0.00
ATOM    175  CD2 HIS    66      20.653  20.993  48.404  1.00  0.00
ATOM    176  CE1 HIS    66      22.168  20.550  46.991  1.00  0.00
ATOM    177  NE2 HIS    66      21.951  20.805  48.266  1.00  0.00
ATOM    178  N   HIS    67      15.932  22.482  45.899  1.00  0.00
ATOM    179  CA  HIS    67      14.536  22.469  45.493  1.00  0.00
ATOM    180  C   HIS    67      14.111  23.852  45.006  1.00  0.00
ATOM    181  O   HIS    67      13.084  23.997  44.345  1.00  0.00
ATOM    182  CB  HIS    67      13.641  22.073  46.668  1.00  0.00
ATOM    183  CG  HIS    67      13.860  20.672  47.150  1.00  0.00
ATOM    184  ND1 HIS    67      13.483  19.566  46.419  1.00  0.00
ATOM    185  CD2 HIS    67      14.441  20.061  48.336  1.00  0.00
ATOM    186  CE1 HIS    67      13.808  18.456  47.106  1.00  0.00
ATOM    187  NE2 HIS    67      14.382  18.746  48.257  1.00  0.00
ATOM    188  N   HIS    68      14.823  24.867  45.482  1.00  0.00
ATOM    189  CA  HIS    68      14.402  26.252  45.316  1.00  0.00
ATOM    190  C   HIS    68      13.435  26.649  46.428  1.00  0.00
ATOM    191  O   HIS    68      12.430  27.313  46.182  1.00  0.00
ATOM    192  CB  HIS    68      13.699  26.440  43.970  1.00  0.00
ATOM    193  CG  HIS    68      14.573  26.163  42.788  1.00  0.00
ATOM    194  ND1 HIS    68      15.606  26.994  42.412  1.00  0.00
ATOM    195  CD2 HIS    68      14.654  25.115  41.780  1.00  0.00
ATOM    196  CE1 HIS    68      16.204  26.485  41.321  1.00  0.00
ATOM    197  NE2 HIS    68      15.638  25.357  40.936  1.00  0.00
TER
END
