
#######################################################
#                                                     #
#                        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   36 (  178),  selected   36 , name T0363TS102_2-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS102_2-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    Y      19      -       -           -
LGA    A      20      -       -           -
LGA    F      21      -       -           -
LGA    P      22      -       -           -
LGA    E      23      -       -           -
LGA    R      24      -       -           -
LGA    Y      25      -       -           -
LGA    L      27      -       -           -
LGA    K      28      -       -           -
LGA    S      29      -       -           -
LGA    F      30      -       -           -
LGA    Q      31      -       -           -
LGA    V      32      -       -           -
LGA    D      33      -       -           -
LGA    E      34      N      11          5.007
LGA    G      35      Q      12          1.495
LGA    I      36      I      13          0.564
LGA    T      37      N      14          0.935
LGA    V      38      I      15          1.466
LGA    Q      39      E      16          2.147
LGA    T      40      I      17          2.052
LGA    A      41      A      18          1.525
LGA    I      42      Y      19          2.088
LGA    T      43      A      20          2.488
LGA    Q      44      F      21          3.016
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    S      45      R      24          4.544
LGA    G      46      Y      25          0.997
LGA    I      47      Y      26          1.846
LGA    L      48      L      27          1.505
LGA    S      49      K      28          2.005
LGA    Q      50      S      29          1.414
LGA    F      51      F      30          1.061
LGA    P      52      Q      31          1.533
LGA    I      54      V      32          2.259
LGA    D      55      D      33          3.305
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    L      56      I      36          2.471
LGA    -       -      T      37           -
LGA    -       -      V      38           -
LGA    -       -      Q      39           -
LGA    -       -      T      40           -
LGA    -       -      A      41           -
LGA    -       -      I      42           -
LGA    -       -      T      43           -
LGA    -       -      Q      44           -
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    -       -      I      47           -
LGA    -       -      L      48           -
LGA    -       -      S      49           -
LGA    -       -      Q      50           -
LGA    -       -      F      51           -
LGA    -       -      P      52           -
LGA    -       -      E      53           -
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   36   46    5.0     22    2.34    22.73     39.955     0.902

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.670036 * X  +  -0.101253 * Y  +  -0.735390 * Z  +  33.985363
  Y_new =   0.463753 * X  +  -0.830640 * Y  +  -0.308172 * Z  +  87.364525
  Z_new =  -0.579641 * X  +  -0.547526 * Y  +   0.603516 * Z  +  30.764263 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.736794    2.404799  [ DEG:   -42.2152    137.7848 ]
  Theta =   0.618289    2.523304  [ DEG:    35.4253    144.5747 ]
  Phi   =   2.536167   -0.605425  [ DEG:   145.3117    -34.6883 ]
 
# 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: T0363TS102_2-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS102_2-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   36   46   5.0   22   2.34   22.73  39.955
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS102_2-D1
PFRMAT TS
TARGET T0363
MODEL 2
PARENT 1uhd_A
ATOM      1  N   TYR    19      25.855   6.583   4.630  1.00  1.00
ATOM      2  CA  TYR    19      26.721   7.411   5.442  1.00  1.00
ATOM      3  C   TYR    19      26.848   6.847   6.848  1.00  1.00
ATOM      4  O   TYR    19      25.861   6.701   7.576  1.00  1.00
ATOM      5  CB  TYR    19      26.227   8.885   5.480  1.00  1.00
ATOM      6  N   ALA    20      28.079   6.498   7.204  1.00  1.00
ATOM      7  CA  ALA    20      28.370   5.948   8.516  1.00  1.00
ATOM      8  C   ALA    20      28.653   7.103   9.460  1.00  1.00
ATOM      9  O   ALA    20      29.586   7.878   9.248  1.00  1.00
ATOM     10  CB  ALA    20      29.590   5.007   8.462  1.00  1.00
ATOM     11  N   PHE    21      27.829   7.222  10.493  1.00  1.00
ATOM     12  CA  PHE    21      27.974   8.289  11.470  1.00  1.00
ATOM     13  C   PHE    21      28.236   7.723  12.862  1.00  1.00
ATOM     14  O   PHE    21      27.625   6.735  13.262  1.00  1.00
ATOM     15  CB  PHE    21      26.700   9.151  11.537  1.00  1.00
ATOM     16  N   PRO    22      29.152   8.359  13.582  1.00  1.00
ATOM     17  CA  PRO    22      29.498   7.956  14.940  1.00  1.00
ATOM     18  C   PRO    22      28.186   7.732  15.691  1.00  1.00
ATOM     19  O   PRO    22      27.424   8.674  15.908  1.00  1.00
ATOM     20  CB  PRO    22      30.324   9.069  15.588  1.00  1.00
ATOM     21  N   GLU    23      27.919   6.484  16.071  1.00  1.00
ATOM     22  CA  GLU    23      26.680   6.150  16.769  1.00  1.00
ATOM     23  C   GLU    23      26.367   7.095  17.919  1.00  1.00
ATOM     24  O   GLU    23      25.202   7.382  18.193  1.00  1.00
ATOM     25  CB  GLU    23      26.712   4.703  17.279  1.00  1.00
ATOM     26  N   ARG    24      27.405   7.588  18.582  1.00  1.00
ATOM     27  CA  ARG    24      27.217   8.506  19.699  1.00  1.00
ATOM     28  C   ARG    24      26.754   9.869  19.192  1.00  1.00
ATOM     29  O   ARG    24      26.003  10.575  19.866  1.00  1.00
ATOM     30  CB  ARG    24      28.519   8.648  20.497  1.00  1.00
ATOM     31  N   TYR    25      27.203  10.237  17.998  1.00  1.00
ATOM     32  CA  TYR    25      26.815  11.511  17.404  1.00  1.00
ATOM     33  C   TYR    25      25.395  11.367  16.864  1.00  1.00
ATOM     34  O   TYR    25      24.556  12.248  17.038  1.00  1.00
ATOM     35  CB  TYR    25      27.766  11.876  16.261  1.00  1.00
ATOM     36  N   LEU    27      25.134  10.239  16.215  1.00  1.00
ATOM     37  CA  LEU    27      23.819   9.967  15.650  1.00  1.00
ATOM     38  C   LEU    27      22.742  10.029  16.729  1.00  1.00
ATOM     39  O   LEU    27      21.687  10.638  16.536  1.00  1.00
ATOM     40  CB  LEU    27      23.816   8.599  14.985  1.00  1.00
ATOM     41  N   LYS    28      23.020   9.395  17.866  1.00  1.00
ATOM     42  CA  LYS    28      22.081   9.367  18.985  1.00  1.00
ATOM     43  C   LYS    28      21.683  10.775  19.413  1.00  1.00
ATOM     44  O   LYS    28      20.513  11.044  19.673  1.00  1.00
ATOM     45  CB  LYS    28      22.699   8.622  20.172  1.00  1.00
ATOM     46  N   SER    29      22.660  11.672  19.482  1.00  1.00
ATOM     47  CA  SER    29      22.398  13.052  19.877  1.00  1.00
ATOM     48  C   SER    29      21.460  13.751  18.901  1.00  1.00
ATOM     49  O   SER    29      20.715  14.657  19.280  1.00  1.00
ATOM     50  CB  SER    29      23.714  13.828  19.980  1.00  1.00
ATOM     51  N   PHE    30      21.501  13.328  17.641  1.00  1.00
ATOM     52  CA  PHE    30      20.650  13.908  16.613  1.00  1.00
ATOM     53  C   PHE    30      19.405  13.054  16.422  1.00  1.00
ATOM     54  O   PHE    30      18.626  13.264  15.492  1.00  1.00
ATOM     55  CB  PHE    30      21.421  14.020  15.298  1.00  1.00
ATOM     56  N   GLN    31      19.223  12.087  17.313  1.00  1.00
ATOM     57  CA  GLN    31      18.079  11.189  17.266  1.00  1.00
ATOM     58  C   GLN    31      17.930  10.472  15.924  1.00  1.00
ATOM     59  O   GLN    31      16.820  10.219  15.462  1.00  1.00
ATOM     60  CB  GLN    31      16.798  11.958  17.603  1.00  1.00
ATOM     61  N   VAL    32      19.055  10.143  15.302  1.00  1.00
ATOM     62  CA  VAL    32      19.032   9.436  14.031  1.00  1.00
ATOM     63  C   VAL    32      18.999   7.940  14.306  1.00  1.00
ATOM     64  O   VAL    32      19.674   7.464  15.213  1.00  1.00
ATOM     65  CB  VAL    32      20.279   9.773  13.213  1.00  1.00
ATOM     66  N   ASP    33      18.206   7.204  13.535  1.00  1.00
ATOM     67  CA  ASP    33      18.119   5.758  13.705  1.00  1.00
ATOM     68  C   ASP    33      18.849   5.101  12.539  1.00  1.00
ATOM     69  O   ASP    33      18.950   5.685  11.457  1.00  1.00
ATOM     70  CB  ASP    33      16.657   5.313  13.725  1.00  1.00
ATOM     71  N   GLU    34      19.376   3.899  12.742  1.00  1.00
ATOM     72  CA  GLU    34      20.075   3.253  11.643  1.00  1.00
ATOM     73  C   GLU    34      19.059   2.934  10.561  1.00  1.00
ATOM     74  O   GLU    34      17.992   2.392  10.849  1.00  1.00
ATOM     75  CB  GLU    34      20.780   1.976  12.096  1.00  1.00
ATOM     76  N   GLY    35      19.385   3.291   9.322  1.00  1.00
ATOM     77  CA  GLY    35      18.479   3.044   8.214  1.00  1.00
ATOM     78  C   GLY    35      17.576   4.230   7.918  1.00  1.00
ATOM     79  O   GLY    35      16.818   4.209   6.946  1.00  1.00
ATOM     80  N   ILE    36      17.658   5.268   8.750  1.00  1.00
ATOM     81  CA  ILE    36      16.839   6.470   8.577  1.00  1.00
ATOM     82  C   ILE    36      17.344   7.305   7.397  1.00  1.00
ATOM     83  O   ILE    36      18.536   7.614   7.300  1.00  1.00
ATOM     84  CB  ILE    36      16.864   7.320   9.858  1.00  1.00
ATOM     85  N   THR    37      16.436   7.666   6.500  1.00  1.00
ATOM     86  CA  THR    37      16.811   8.468   5.340  1.00  1.00
ATOM     87  C   THR    37      17.219   9.867   5.789  1.00  1.00
ATOM     88  O   THR    37      16.530  10.489   6.592  1.00  1.00
ATOM     89  CB  THR    37      15.640   8.578   4.364  1.00  1.00
ATOM     90  N   VAL    38      18.343  10.353   5.273  1.00  1.00
ATOM     91  CA  VAL    38      18.814  11.689   5.608  1.00  1.00
ATOM     92  C   VAL    38      19.292  12.441   4.366  1.00  1.00
ATOM     93  O   VAL    38      19.724  11.833   3.387  1.00  1.00
ATOM     94  CB  VAL    38      19.978  11.651   6.629  1.00  1.00
ATOM     95  N   GLN    39      19.208  13.766   4.423  1.00  1.00
ATOM     96  CA  GLN    39      19.657  14.608   3.326  1.00  1.00
ATOM     97  C   GLN    39      21.048  15.083   3.694  1.00  1.00
ATOM     98  O   GLN    39      21.292  15.493   4.829  1.00  1.00
ATOM     99  CB  GLN    39      18.740  15.822   3.164  1.00  1.00
ATOM    100  N   THR    40      21.959  15.028   2.733  1.00  1.00
ATOM    101  CA  THR    40      23.327  15.457   2.961  1.00  1.00
ATOM    102  C   THR    40      23.581  16.639   2.035  1.00  1.00
ATOM    103  O   THR    40      23.272  16.567   0.843  1.00  1.00
ATOM    104  CB  THR    40      24.349  14.342   2.580  1.00  1.00
ATOM    105  N   ALA    41      24.109  17.733   2.574  1.00  1.00
ATOM    106  CA  ALA    41      24.446  18.881   1.736  1.00  1.00
ATOM    107  C   ALA    41      25.896  19.230   2.039  1.00  1.00
ATOM    108  O   ALA    41      26.276  19.408   3.195  1.00  1.00
ATOM    109  CB  ALA    41      23.511  20.097   1.982  1.00  1.00
ATOM    110  N   ILE    42      26.700  19.300   0.989  1.00  1.00
ATOM    111  CA  ILE    42      28.131  19.578   1.100  1.00  1.00
ATOM    112  C   ILE    42      28.373  21.066   0.910  1.00  1.00
ATOM    113  O   ILE    42      28.140  21.614  -0.166  1.00  1.00
ATOM    114  CB  ILE    42      28.875  18.759   0.032  1.00  1.00
ATOM    115  N   THR    43      28.835  21.716   1.971  1.00  1.00
ATOM    116  CA  THR    43      29.116  23.145   1.955  1.00  1.00
ATOM    117  C   THR    43      30.243  23.539   0.998  1.00  1.00
ATOM    118  O   THR    43      30.194  24.597   0.373  1.00  1.00
ATOM    119  CB  THR    43      29.466  23.634   3.380  1.00  1.00
ATOM    120  N   GLN    44      31.257  22.688   0.893  1.00  1.00
ATOM    121  CA  GLN    44      32.399  22.955   0.018  1.00  1.00
ATOM    122  C   GLN    44      32.032  22.996  -1.456  1.00  1.00
ATOM    123  O   GLN    44      32.384  23.937  -2.173  1.00  1.00
ATOM    124  CB  GLN    44      33.481  21.877   0.182  1.00  1.00
ATOM    125  N   SER    45      31.331  21.965  -1.910  1.00  1.00
ATOM    126  CA  SER    45      30.989  21.865  -3.324  1.00  1.00
ATOM    127  C   SER    45      29.528  22.085  -3.691  1.00  1.00
ATOM    128  O   SER    45      29.186  22.090  -4.876  1.00  1.00
ATOM    129  CB  SER    45      31.456  20.510  -3.875  1.00  1.00
ATOM    130  N   GLY    46      28.669  22.250  -2.690  1.00  1.00
ATOM    131  CA  GLY    46      27.264  22.492  -2.960  1.00  1.00
ATOM    132  C   GLY    46      26.410  21.289  -3.335  1.00  1.00
ATOM    133  O   GLY    46      25.219  21.447  -3.596  1.00  1.00
ATOM    134  N   ILE    47      27.002  20.094  -3.377  1.00  1.00
ATOM    135  CA  ILE    47      26.236  18.896  -3.713  1.00  1.00
ATOM    136  C   ILE    47      25.161  18.612  -2.664  1.00  1.00
ATOM    137  O   ILE    47      25.382  18.798  -1.464  1.00  1.00
ATOM    138  CB  ILE    47      27.152  17.672  -3.818  1.00  1.00
ATOM    139  N   LEU    48      24.004  18.154  -3.134  1.00  1.00
ATOM    140  CA  LEU    48      22.882  17.825  -2.266  1.00  1.00
ATOM    141  C   LEU    48      22.382  16.445  -2.696  1.00  1.00
ATOM    142  O   LEU    48      22.093  16.224  -3.875  1.00  1.00
ATOM    143  CB  LEU    48      21.768  18.867  -2.430  1.00  1.00
ATOM    144  N   SER    49      22.330  15.504  -1.754  1.00  1.00
ATOM    145  CA  SER    49      21.862  14.154  -2.059  1.00  1.00
ATOM    146  C   SER    49      21.242  13.500  -0.835  1.00  1.00
ATOM    147  O   SER    49      21.357  14.016   0.273  1.00  1.00
ATOM    148  CB  SER    49      23.014  13.283  -2.607  1.00  1.00
ATOM    149  N   GLN    50      20.562  12.379  -1.055  1.00  1.00
ATOM    150  CA  GLN    50      19.918  11.640   0.023  1.00  1.00
ATOM    151  C   GLN    50      20.582  10.282   0.163  1.00  1.00
ATOM    152  O   GLN    50      21.064   9.727  -0.812  1.00  1.00
ATOM    153  CB  GLN    50      18.432  11.406  -0.292  1.00  1.00
ATOM    154  N   PHE    51      20.597   9.754   1.381  1.00  1.00
ATOM    155  CA  PHE    51      21.150   8.431   1.637  1.00  1.00
ATOM    156  C   PHE    51      20.558   7.971   2.972  1.00  1.00
ATOM    157  O   PHE    51      19.574   8.546   3.427  1.00  1.00
ATOM    158  CB  PHE    51      22.694   8.460   1.669  1.00  1.00
ATOM    159  N   PRO    52      21.110   6.930   3.585  1.00  1.00
ATOM    160  CA  PRO    52      20.574   6.482   4.866  1.00  1.00
ATOM    161  C   PRO    52      21.692   6.354   5.902  1.00  1.00
ATOM    162  O   PRO    52      22.871   6.245   5.559  1.00  1.00
ATOM    163  CB  PRO    52      19.789   5.168   4.700  1.00  1.00
ATOM    164  N   ILE    54      21.317   6.396   7.174  1.00  1.00
ATOM    165  CA  ILE    54      22.283   6.328   8.261  1.00  1.00
ATOM    166  C   ILE    54      22.744   4.927   8.659  1.00  1.00
ATOM    167  O   ILE    54      21.942   3.994   8.758  1.00  1.00
ATOM    168  CB  ILE    54      21.721   7.004   9.538  1.00  1.00
ATOM    169  N   ASP    55      24.049   4.805   8.877  1.00  1.00
ATOM    170  CA  ASP    55      24.675   3.571   9.335  1.00  1.00
ATOM    171  C   ASP    55      25.410   3.993  10.603  1.00  1.00
ATOM    172  O   ASP    55      26.211   4.928  10.576  1.00  1.00
ATOM    173  CB  ASP    55      25.694   3.013   8.323  1.00  1.00
ATOM    174  N   LEU    56      25.119   3.321  11.714  1.00  1.00
ATOM    175  CA  LEU    56      25.743   3.645  12.995  1.00  1.00
ATOM    176  C   LEU    56      27.200   3.198  13.041  1.00  1.00
ATOM    177  O   LEU    56      27.504   2.011  12.910  1.00  1.00
ATOM    178  CB  LEU    56      24.952   2.998  14.136  1.00  1.00
TER
END
