
#######################################################
#                                                     #
#                        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   28 (  112),  selected   28 , name T0363TS383_3-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS383_3-D1.T0363_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      N      11           -
LGA    -       -      Q      12           -
LGA    -       -      I      13           -
LGA    -       -      N      14           -
LGA    -       -      I      15           -
LGA    -       -      E      16           -
LGA    -       -      I      17           -
LGA    -       -      A      18           -
LGA    -       -      Y      19           -
LGA    -       -      A      20           -
LGA    -       -      F      21           -
LGA    -       -      P      22           -
LGA    -       -      E      23           -
LGA    -       -      R      24           -
LGA    L      27      Y      25          1.918
LGA    K      28      Y      26          4.809
LGA    S      29      L      27          2.045
LGA    F      30      K      28          1.537
LGA    Q      31      S      29          1.099
LGA    V      32      F      30          0.992
LGA    D      33      Q      31          1.305
LGA    E      34      V      32          2.034
LGA    G      35      D      33          4.805
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    I      36      I      36          0.928
LGA    T      37      T      37          0.836
LGA    V      38      V      38          0.807
LGA    Q      39      Q      39          0.875
LGA    T      40      T      40          0.307
LGA    A      41      A      41          0.659
LGA    I      42      I      42          1.247
LGA    T      43      T      43          0.791
LGA    Q      44      Q      44          1.580
LGA    I      47      S      45          2.800
LGA    -       -      G      46           -
LGA    L      48      I      47          3.404
LGA    S      49      L      48          4.407
LGA    Q      50      S      49          4.110
LGA    F      51      -       -           -
LGA    P      52      Q      50          4.108
LGA    E      53      F      51          1.844
LGA    I      54      -       -           -
LGA    D      55      P      52          3.163
LGA    L      56      E      53          1.907
LGA    -       -      I      54           -
LGA    -       -      D      55           -
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   28   46    5.0     26    2.50    34.62     43.335     1.001

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.732681 * X  +   0.678795 * Y  +   0.049156 * Z  +  17.776917
  Y_new =  -0.369461 * X  +  -0.457369 * Y  +   0.808896 * Z  +  36.780975
  Z_new =   0.571556 * X  +   0.574501 * Y  +   0.585894 * Z  + -20.623713 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.775581   -2.366012  [ DEG:    44.4375   -135.5625 ]
  Theta =  -0.608401   -2.533191  [ DEG:   -34.8588   -145.1412 ]
  Phi   =  -2.674543    0.467049  [ DEG:  -153.2400     26.7600 ]
 
# 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: T0363TS383_3-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS383_3-D1.T0363_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   28   46   5.0   26   2.50   34.62  43.335
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS383_3-D1
PFRMAT TS
TARGET T0363
MODEL 3
PARENT 1fm0D
ATOM      1  N   LEU    27      27.937  20.964  -4.266  1.00  0.00
ATOM      2  CA  LEU    27      26.504  20.708  -4.340  1.00  0.00
ATOM      3  C   LEU    27      25.856  21.314  -3.093  1.00  0.00
ATOM      4  O   LEU    27      26.510  21.444  -2.056  1.00  0.00
ATOM      5  N   LYS    28      24.571  21.667  -3.187  1.00  0.00
ATOM      6  CA  LYS    28      23.825  22.236  -2.062  1.00  0.00
ATOM      7  C   LYS    28      23.196  21.166  -1.153  1.00  0.00
ATOM      8  O   LYS    28      22.907  21.439   0.034  1.00  0.00
ATOM      9  N   SER    29      22.983  19.963  -1.694  1.00  0.00
ATOM     10  CA  SER    29      22.225  18.928  -0.996  1.00  0.00
ATOM     11  C   SER    29      22.431  17.575  -1.656  1.00  0.00
ATOM     12  O   SER    29      22.578  17.507  -2.887  1.00  0.00
ATOM     13  N   PHE    30      22.409  16.507  -0.864  1.00  0.00
ATOM     14  CA  PHE    30      22.466  15.139  -1.406  1.00  0.00
ATOM     15  C   PHE    30      21.790  14.151  -0.446  1.00  0.00
ATOM     16  O   PHE    30      21.453  14.494   0.686  1.00  0.00
ATOM     17  N   GLN    31      21.553  12.930  -0.914  1.00  0.00
ATOM     18  CA  GLN    31      20.906  11.884  -0.113  1.00  0.00
ATOM     19  C   GLN    31      21.854  10.721   0.135  1.00  0.00
ATOM     20  O   GLN    31      22.654  10.381  -0.744  1.00  0.00
ATOM     21  N   VAL    32      21.760  10.118   1.322  1.00  0.00
ATOM     22  CA  VAL    32      22.550   8.947   1.696  1.00  0.00
ATOM     23  C   VAL    32      21.648   7.890   2.372  1.00  0.00
ATOM     24  O   VAL    32      20.675   8.218   3.046  1.00  0.00
ATOM     25  N   ASP    33      21.933   6.604   2.182  1.00  0.00
ATOM     26  CA  ASP    33      21.161   5.574   2.885  1.00  0.00
ATOM     27  C   ASP    33      21.317   5.735   4.414  1.00  0.00
ATOM     28  O   ASP    33      22.280   6.345   4.895  1.00  0.00
ATOM     29  N   GLU    34      22.576   4.108   6.848  1.00  0.00
ATOM     30  CA  GLU    34      23.509   3.090   7.330  1.00  0.00
ATOM     31  C   GLU    34      24.649   3.643   8.183  1.00  0.00
ATOM     32  O   GLU    34      25.758   3.119   8.117  1.00  0.00
ATOM     33  N   GLY    35      24.405   4.698   8.952  1.00  0.00
ATOM     34  CA  GLY    35      25.452   5.250   9.809  1.00  0.00
ATOM     35  C   GLY    35      24.907   5.521  11.214  1.00  0.00
ATOM     36  O   GLY    35      23.854   6.140  11.359  1.00  0.00
ATOM     37  N   ILE    36      25.612   5.048  12.247  1.00  0.00
ATOM     38  CA  ILE    36      25.120   5.191  13.623  1.00  0.00
ATOM     39  C   ILE    36      25.056   6.629  14.173  1.00  0.00
ATOM     40  O   ILE    36      24.165   6.934  14.955  1.00  0.00
ATOM     41  N   THR    37      25.968   7.495  13.736  1.00  0.00
ATOM     42  CA  THR    37      26.078   8.864  14.260  1.00  0.00
ATOM     43  C   THR    37      26.431   9.888  13.185  1.00  0.00
ATOM     44  O   THR    37      26.824   9.533  12.067  1.00  0.00
ATOM     45  N   VAL    38      26.297  11.168  13.549  1.00  0.00
ATOM     46  CA  VAL    38      26.735  12.269  12.687  1.00  0.00
ATOM     47  C   VAL    38      28.226  12.092  12.303  1.00  0.00
ATOM     48  O   VAL    38      28.618  12.303  11.148  1.00  0.00
ATOM     49  N   GLN    39      29.070  11.748  13.280  1.00  0.00
ATOM     50  CA  GLN    39      30.513  11.561  13.012  1.00  0.00
ATOM     51  C   GLN    39      30.792  10.459  11.981  1.00  0.00
ATOM     52  O   GLN    39      31.647  10.631  11.102  1.00  0.00
ATOM     53  N   THR    40      30.101   9.325  12.093  1.00  0.00
ATOM     54  CA  THR    40      30.270   8.244  11.109  1.00  0.00
ATOM     55  C   THR    40      29.880   8.707   9.697  1.00  0.00
ATOM     56  O   THR    40      30.559   8.376   8.724  1.00  0.00
ATOM     57  N   ALA    41      28.777   9.468   9.595  1.00  0.00
ATOM     58  CA  ALA    41      28.375  10.059   8.307  1.00  0.00
ATOM     59  C   ALA    41      29.443  11.060   7.775  1.00  0.00
ATOM     60  O   ALA    41      29.798  11.026   6.595  1.00  0.00
ATOM     61  N   ILE    42      29.939  11.941   8.648  1.00  0.00
ATOM     62  CA  ILE    42      30.987  12.909   8.279  1.00  0.00
ATOM     63  C   ILE    42      32.218  12.186   7.692  1.00  0.00
ATOM     64  O   ILE    42      32.749  12.566   6.622  1.00  0.00
ATOM     65  N   THR    43      32.663  11.120   8.365  1.00  0.00
ATOM     66  CA  THR    43      33.845  10.351   7.895  1.00  0.00
ATOM     67  C   THR    43      33.576   9.713   6.510  1.00  0.00
ATOM     68  O   THR    43      34.439   9.709   5.636  1.00  0.00
ATOM     69  N   GLN    44      32.390   9.124   6.332  1.00  0.00
ATOM     70  CA  GLN    44      32.020   8.531   5.040  1.00  0.00
ATOM     71  C   GLN    44      32.058   9.561   3.899  1.00  0.00
ATOM     72  O   GLN    44      32.607   9.288   2.814  1.00  0.00
ATOM     73  N   ILE    47      31.470  10.735   4.139  1.00  0.00
ATOM     74  CA  ILE    47      31.436  11.774   3.104  1.00  0.00
ATOM     75  C   ILE    47      32.845  12.346   2.819  1.00  0.00
ATOM     76  O   ILE    47      33.207  12.584   1.645  1.00  0.00
ATOM     77  N   LEU    48      33.652  12.552   3.872  1.00  0.00
ATOM     78  CA  LEU    48      35.028  13.039   3.697  1.00  0.00
ATOM     79  C   LEU    48      35.868  12.088   2.828  1.00  0.00
ATOM     80  O   LEU    48      36.795  12.520   2.123  1.00  0.00
ATOM     81  N   SER    49      35.548  10.792   2.864  1.00  0.00
ATOM     82  CA  SER    49      36.321   9.796   2.151  1.00  0.00
ATOM     83  C   SER    49      36.012   9.725   0.655  1.00  0.00
ATOM     84  O   SER    49      36.687   8.966  -0.056  1.00  0.00
ATOM     85  N   GLN    50      35.045  10.519   0.164  1.00  0.00
ATOM     86  CA  GLN    50      34.640  10.442  -1.256  1.00  0.00
ATOM     87  C   GLN    50      35.621  11.087  -2.232  1.00  0.00
ATOM     88  O   GLN    50      35.728  10.636  -3.386  1.00  0.00
ATOM     89  N   PHE    51      36.327  12.129  -1.788  1.00  0.00
ATOM     90  CA  PHE    51      37.300  12.849  -2.619  1.00  0.00
ATOM     91  C   PHE    51      38.174  13.783  -1.797  1.00  0.00
ATOM     92  O   PHE    51      37.844  14.093  -0.661  1.00  0.00
ATOM     93  N   PRO    52      39.258  14.293  -2.395  1.00  0.00
ATOM     94  CA  PRO    52      40.149  15.214  -1.699  1.00  0.00
ATOM     95  C   PRO    52      39.436  16.539  -1.363  1.00  0.00
ATOM     96  O   PRO    52      39.687  17.116  -0.304  1.00  0.00
ATOM     97  N   GLU    53      38.552  17.014  -2.251  1.00  0.00
ATOM     98  CA  GLU    53      37.782  18.248  -1.990  1.00  0.00
ATOM     99  C   GLU    53      36.789  18.044  -0.841  1.00  0.00
ATOM    100  O   GLU    53      36.632  18.933  -0.000  1.00  0.00
ATOM    101  N   ILE    54      36.091  16.902  -0.827  1.00  0.00
ATOM    102  CA  ILE    54      35.148  16.599   0.259  1.00  0.00
ATOM    103  C   ILE    54      35.889  16.463   1.610  1.00  0.00
ATOM    104  O   ILE    54      35.395  16.911   2.637  1.00  0.00
ATOM    105  N   ASP    55      37.097  15.880   1.592  1.00  0.00
ATOM    106  CA  ASP    55      37.892  15.762   2.829  1.00  0.00
ATOM    107  C   ASP    55      38.301  17.139   3.379  1.00  0.00
ATOM    108  O   ASP    55      38.208  17.398   4.581  1.00  0.00
ATOM    109  N   LEU    56      38.744  18.034   2.496  1.00  0.00
ATOM    110  CA  LEU    56      39.126  19.370   2.928  1.00  0.00
ATOM    111  C   LEU    56      37.937  20.133   3.528  1.00  0.00
ATOM    112  O   LEU    56      38.063  20.797   4.566  1.00  0.00
TER
END
