
#######################################################
#                                                     #
#                        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_2-D1
# Molecule2: number of CA atoms   46 (  372),  selected   46 , name T0363_D1.pdb
# PARAMETERS: T0363TS383_2-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    L      27      F      21          3.153
LGA    K      28      P      22           #
LGA    S      29      E      23           -
LGA    -       -      R      24           -
LGA    -       -      Y      25           -
LGA    F      30      Y      26          3.512
LGA    Q      31      L      27          1.715
LGA    V      32      K      28          1.180
LGA    D      33      S      29          2.331
LGA    E      34      F      30          2.779
LGA    -       -      Q      31           -
LGA    G      35      V      32          3.250
LGA    I      36      D      33          3.409
LGA    -       -      E      34           -
LGA    -       -      G      35           -
LGA    T      37      I      36          2.529
LGA    V      38      T      37          3.816
LGA    Q      39      V      38          3.265
LGA    -       -      Q      39           -
LGA    T      40      T      40          2.568
LGA    A      41      A      41          1.917
LGA    I      42      I      42          1.373
LGA    T      43      T      43          0.552
LGA    Q      44      Q      44          3.319
LGA    -       -      S      45           -
LGA    -       -      G      46           -
LGA    I      47      I      47          2.400
LGA    L      48      L      48          2.200
LGA    S      49      S      49          3.135
LGA    Q      50      Q      50          2.440
LGA    F      51      F      51          2.875
LGA    P      52      P      52          1.498
LGA    E      53      E      53          0.927
LGA    I      54      I      54          2.521
LGA    D      55      -       -           -
LGA    L      56      D      55          2.186
LGA    -       -      L      56           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   28   46    5.0     25    2.58    52.00     36.771     0.934

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.863752 * X  +   0.502584 * Y  +   0.036640 * Z  +  25.875420
  Y_new =  -0.420315 * X  +  -0.758652 * Y  +   0.497778 * Z  +  47.628139
  Z_new =   0.277972 * X  +   0.414556 * Y  +   0.866530 * Z  +  -9.287839 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.446227   -2.695366  [ DEG:    25.5669   -154.4331 ]
  Theta =  -0.281683   -2.859910  [ DEG:   -16.1392   -163.8608 ]
  Phi   =  -2.688710    0.452882  [ DEG:  -154.0517     25.9483 ]
 
# 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_2-D1                               
REMARK     2: T0363_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0363TS383_2-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   25   2.58   52.00  36.771
REMARK  ---------------------------------------------------------- 
MOLECULE T0363TS383_2-D1
PFRMAT TS
TARGET T0363
MODEL 2
PARENT 1fmaD
ATOM      1  N   LEU    27      31.143  25.237   0.190  1.00  0.00
ATOM      2  CA  LEU    27      29.710  25.341  -0.122  1.00  0.00
ATOM      3  C   LEU    27      28.958  25.529   1.142  1.00  0.00
ATOM      4  O   LEU    27      29.317  25.128   2.189  1.00  0.00
ATOM      5  N   LYS    28      27.796  26.156   1.063  1.00  0.00
ATOM      6  CA  LYS    28      26.946  26.311   2.251  1.00  0.00
ATOM      7  C   LYS    28      26.092  25.146   2.537  1.00  0.00
ATOM      8  O   LYS    28      25.595  24.955   3.634  1.00  0.00
ATOM      9  N   SER    29      25.840  24.331   1.500  1.00  0.00
ATOM     10  CA  SER    29      24.858  23.244   1.598  1.00  0.00
ATOM     11  C   SER    29      25.033  22.267   0.551  1.00  0.00
ATOM     12  O   SER    29      25.358  22.690  -0.583  1.00  0.00
ATOM     13  N   PHE    30      24.728  21.042   0.816  1.00  0.00
ATOM     14  CA  PHE    30      24.772  20.032  -0.182  1.00  0.00
ATOM     15  C   PHE    30      23.852  18.916   0.168  1.00  0.00
ATOM     16  O   PHE    30      23.407  18.772   1.264  1.00  0.00
ATOM     17  N   GLN    31      23.533  18.092  -0.789  1.00  0.00
ATOM     18  CA  GLN    31      22.682  16.921  -0.551  1.00  0.00
ATOM     19  C   GLN    31      23.461  15.660  -0.720  1.00  0.00
ATOM     20  O   GLN    31      24.324  15.576  -1.633  1.00  0.00
ATOM     21  N   VAL    32      23.132  14.688   0.127  1.00  0.00
ATOM     22  CA  VAL    32      23.655  13.339   0.101  1.00  0.00
ATOM     23  C   VAL    32      22.524  12.270   0.204  1.00  0.00
ATOM     24  O   VAL    32      21.424  12.473   0.714  1.00  0.00
ATOM     25  N   ASP    33      22.707  11.110  -0.417  1.00  0.00
ATOM     26  CA  ASP    33      21.686  10.049  -0.261  1.00  0.00
ATOM     27  C   ASP    33      21.550   9.603   1.227  1.00  0.00
ATOM     28  O   ASP    33      22.493   9.730   2.012  1.00  0.00
ATOM     29  N   GLU    34      22.071   7.062   2.781  1.00  0.00
ATOM     30  CA  GLU    34      22.752   5.793   2.873  1.00  0.00
ATOM     31  C   GLU    34      23.745   5.805   3.991  1.00  0.00
ATOM     32  O   GLU    34      24.774   5.155   3.831  1.00  0.00
ATOM     33  N   GLY    35      23.518   6.583   5.054  1.00  0.00
ATOM     34  CA  GLY    35      24.434   6.525   6.170  1.00  0.00
ATOM     35  C   GLY    35      23.692   6.282   7.425  1.00  0.00
ATOM     36  O   GLY    35      22.667   6.901   7.645  1.00  0.00
ATOM     37  N   ILE    36      24.196   5.411   8.266  1.00  0.00
ATOM     38  CA  ILE    36      23.414   5.102   9.452  1.00  0.00
ATOM     39  C   ILE    36      23.429   6.210  10.495  1.00  0.00
ATOM     40  O   ILE    36      22.490   6.275  11.234  1.00  0.00
ATOM     41  N   THR    37      24.488   6.998  10.544  1.00  0.00
ATOM     42  CA  THR    37      24.703   7.953  11.648  1.00  0.00
ATOM     43  C   THR    37      25.332   9.170  11.064  1.00  0.00
ATOM     44  O   THR    37      25.909   9.177   9.974  1.00  0.00
ATOM     45  N   VAL    38      25.262  10.197  11.867  1.00  0.00
ATOM     46  CA  VAL    38      25.964  11.464  11.591  1.00  0.00
ATOM     47  C   VAL    38      27.429  11.173  11.381  1.00  0.00
ATOM     48  O   VAL    38      28.057  11.739  10.473  1.00  0.00
ATOM     49  N   GLN    39      28.020  10.358  12.218  1.00  0.00
ATOM     50  CA  GLN    39      29.411  10.014  12.064  1.00  0.00
ATOM     51  C   GLN    39      29.719   9.386  10.734  1.00  0.00
ATOM     52  O   GLN    39      30.719   9.685  10.136  1.00  0.00
ATOM     53  N   THR    40      28.916   8.455  10.301  1.00  0.00
ATOM     54  CA  THR    40      29.150   7.791   9.029  1.00  0.00
ATOM     55  C   THR    40      29.105   8.806   7.917  1.00  0.00
ATOM     56  O   THR    40      29.902   8.817   6.983  1.00  0.00
ATOM     57  N   ALA    41      28.154   9.716   8.023  1.00  0.00
ATOM     58  CA  ALA    41      28.061  10.795   7.033  1.00  0.00
ATOM     59  C   ALA    41      29.285  11.713   7.096  1.00  0.00
ATOM     60  O   ALA    41      29.892  12.027   6.072  1.00  0.00
ATOM     61  N   ILE    42      29.716  12.080   8.288  1.00  0.00
ATOM     62  CA  ILE    42      30.865  12.945   8.456  1.00  0.00
ATOM     63  C   ILE    42      32.084  12.285   7.789  1.00  0.00
ATOM     64  O   ILE    42      32.843  12.927   7.066  1.00  0.00
ATOM     65  N   THR    43      32.257  10.996   8.057  1.00  0.00
ATOM     66  CA  THR    43      33.409  10.305   7.479  1.00  0.00
ATOM     67  C   THR    43      33.321  10.290   5.961  1.00  0.00
ATOM     68  O   THR    43      34.270  10.474   5.303  1.00  0.00
ATOM     69  N   GLN    44      32.120  10.034   5.423  1.00  0.00
ATOM     70  CA  GLN    44      31.944   9.988   3.976  1.00  0.00
ATOM     71  C   GLN    44      32.305  11.383   3.357  1.00  0.00
ATOM     72  O   GLN    44      33.073  11.434   2.393  1.00  0.00
ATOM     73  N   ILE    47      31.778  12.432   3.976  1.00  0.00
ATOM     74  CA  ILE    47      32.058  13.806   3.480  1.00  0.00
ATOM     75  C   ILE    47      33.517  14.122   3.625  1.00  0.00
ATOM     76  O   ILE    47      34.130  14.724   2.724  1.00  0.00
ATOM     77  N   LEU    48      34.136  13.732   4.746  1.00  0.00
ATOM     78  CA  LEU    48      35.544  14.014   4.984  1.00  0.00
ATOM     79  C   LEU    48      36.368  13.381   3.917  1.00  0.00
ATOM     80  O   LEU    48      37.420  13.897   3.537  1.00  0.00
ATOM     81  N   SER    49      35.937  12.233   3.405  1.00  0.00
ATOM     82  CA  SER    49      36.706  11.491   2.455  1.00  0.00
ATOM     83  C   SER    49      36.671  12.038   1.062  1.00  0.00
ATOM     84  O   SER    49      37.405  11.532   0.239  1.00  0.00
ATOM     85  N   GLN    50      35.896  13.095   0.810  1.00  0.00
ATOM     86  CA  GLN    50      35.723  13.650  -0.545  1.00  0.00
ATOM     87  C   GLN    50      36.878  14.415  -0.984  1.00  0.00
ATOM     88  O   GLN    50      37.156  14.461  -2.167  1.00  0.00
ATOM     89  N   PHE    51      37.593  15.055  -0.072  1.00  0.00
ATOM     90  CA  PHE    51      38.777  15.839  -0.443  1.00  0.00
ATOM     91  C   PHE    51      39.572  16.197   0.779  1.00  0.00
ATOM     92  O   PHE    51      39.087  16.091   1.886  1.00  0.00
ATOM     93  N   PRO    52      40.812  16.689   0.585  1.00  0.00
ATOM     94  CA  PRO    52      41.641  17.067   1.690  1.00  0.00
ATOM     95  C   PRO    52      41.013  18.275   2.417  1.00  0.00
ATOM     96  O   PRO    52      41.106  18.321   3.653  1.00  0.00
ATOM     97  N   GLU    53      40.384  19.181   1.660  1.00  0.00
ATOM     98  CA  GLU    53      39.733  20.345   2.291  1.00  0.00
ATOM     99  C   GLU    53      38.566  19.877   3.157  1.00  0.00
ATOM    100  O   GLU    53      38.385  20.386   4.217  1.00  0.00
ATOM    101  N   ILE    54      37.741  18.976   2.624  1.00  0.00
ATOM    102  CA  ILE    54      36.611  18.443   3.370  1.00  0.00
ATOM    103  C   ILE    54      37.077  17.686   4.578  1.00  0.00
ATOM    104  O   ILE    54      36.508  17.757   5.599  1.00  0.00
ATOM    105  N   ASP    55      38.197  16.985   4.456  1.00  0.00
ATOM    106  CA  ASP    55      38.679  16.236   5.607  1.00  0.00
ATOM    107  C   ASP    55      39.160  17.140   6.674  1.00  0.00
ATOM    108  O   ASP    55      38.854  16.978   7.802  1.00  0.00
ATOM    109  N   LEU    56      39.839  18.203   6.284  1.00  0.00
ATOM    110  CA  LEU    56      40.305  19.220   7.225  1.00  0.00
ATOM    111  C   LEU    56      39.171  19.880   7.952  1.00  0.00
ATOM    112  O   LEU    56      39.131  20.028   9.154  1.00  0.00
TER
END
