
#######################################################
#                                                     #
#                        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   61 (   61),  selected   61 , name T0381TS168_1-D1
# Molecule2: number of CA atoms   61 (  477),  selected   61 , name T0381_D1.pdb
# PARAMETERS: T0381TS168_1-D1.T0381_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    V      17      V      17           -
LGA    Q      18      Q      18           -
LGA    S      19      S      19           -
LGA    L      20      L      20           -
LGA    A      21      A      21           -
LGA    R      22      R      22           -
LGA    G      23      G      23           -
LGA    L      24      L      24           -
LGA    A      25      A      25           -
LGA    V      26      V      26           -
LGA    I      27      I      27           -
LGA    R      28      R      28           -
LGA    -       -      C      29           -
LGA    C      29      F      30           #
LGA    F      30      -       -           -
LGA    D      31      -       -           -
LGA    H      32      -       -           -
LGA    R      33      -       -           -
LGA    N      34      -       -           -
LGA    Q      35      D      31          4.322
LGA    R      36      H      32          2.932
LGA    R      37      R      33           #
LGA    -       -      N      34           -
LGA    T      38      Q      35           #
LGA    L      39      R      36           #
LGA    S      40      R      37           #
LGA    D      41      T      38           -
LGA    -       -      L      39           -
LGA    V      42      S      40           #
LGA    A      43      D      41          1.334
LGA    -       -      V      42           -
LGA    -       -      A      43           -
LGA    R      44      R      44          1.603
LGA    -       -      A      45           -
LGA    -       -      T      46           -
LGA    -       -      D      47           -
LGA    A      45      L      48          3.987
LGA    T      46      T      49          4.913
LGA    D      47      -       -           -
LGA    L      48      -       -           -
LGA    T      49      R      50          2.477
LGA    R      50      A      51          1.219
LGA    A      51      T      52          2.246
LGA    T      52      A      53          2.369
LGA    A      53      R      54          1.149
LGA    R      54      R      55          0.744
LGA    R      55      F      56          1.534
LGA    F      56      L      57          1.179
LGA    L      57      L      58          0.200
LGA    L      58      T      59          0.980
LGA    T      59      L      60          1.142
LGA    L      60      V      61          0.513
LGA    V      61      E      62          0.680
LGA    E      62      L      63          1.196
LGA    L      63      G      64          2.839
LGA    G      64      -       -           -
LGA    Y      65      Y      65          2.403
LGA    V      66      V      66          3.506
LGA    A      67      A      67           -
LGA    T      68      T      68           -
LGA    D      69      D      69           -
LGA    G      70      G      70           -
LGA    S      71      S      71           -
LGA    A      72      A      72           -
LGA    -       -      F      73           -
LGA    F      73      W      74           #
LGA    W      74      L      75          4.372
LGA    L      75      -       -           -
LGA    T      76      T      76          2.156
LGA    P      77      P      77          4.570

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   61   61    5.0     26    2.56    30.77     33.894     0.976

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.586405 * X  +   0.589706 * Y  +  -0.555316 * Z  +  12.324830
  Y_new =   0.769166 * X  +   0.620349 * Y  +  -0.153461 * Z  +  65.604469
  Z_new =   0.253993 * X  +  -0.517120 * Y  +  -0.817358 * Z  +  -5.131118 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.577495    0.564098  [ DEG:  -147.6796     32.3204 ]
  Theta =  -0.256806   -2.884786  [ DEG:   -14.7139   -165.2861 ]
  Phi   =   2.222180   -0.919412  [ DEG:   127.3216    -52.6784 ]
 
# 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: T0381TS168_1-D1                               
REMARK     2: T0381_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0381TS168_1-D1.T0381_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   61   61   5.0   26   2.56   30.77  33.894
REMARK  ---------------------------------------------------------- 
MOLECULE T0381TS168_1-D1
PFRMAT TS
TARGET T0381
MODEL 1
PARENT N/A
ATOM     17  CA  VAL    17      17.993  72.313  11.552  1.00 25.00           C
ATOM     18  CA  GLN    18      17.037  70.415  14.739  1.00 25.00           C
ATOM     19  CA  SER    19      13.370  70.356  13.633  1.00 25.00           C
ATOM     20  CA  LEU    20      14.404  69.024  10.195  1.00 25.00           C
ATOM     21  CA  ALA    21      16.514  66.296  11.858  1.00 25.00           C
ATOM     22  CA  ARG    22      13.552  65.327  14.083  1.00 25.00           C
ATOM     23  CA  GLY    23      11.273  65.142  11.011  1.00 25.00           C
ATOM     24  CA  LEU    24      13.830  62.926   9.218  1.00 25.00           C
ATOM     25  CA  ALA    25      14.023  60.631  12.277  1.00 25.00           C
ATOM     26  CA  VAL    26      10.202  60.394  12.372  1.00 25.00           C
ATOM     27  CA  ILE    27      10.139  59.522   8.644  1.00 25.00           C
ATOM     28  CA  ARG    28      12.785  56.812   9.208  1.00 25.00           C
ATOM     29  CA  CYS    29      10.733  55.375  12.104  1.00 25.00           C
ATOM     30  CA  PHE    30       7.602  55.335   9.899  1.00 25.00           C
ATOM     31  CA  ASP    31       9.545  53.536   7.133  1.00 25.00           C
ATOM     32  CA  HIS    32       9.858  49.725   7.317  1.00 25.00           C
ATOM     33  CA  ARG    33      11.021  46.192   8.090  1.00 25.00           C
ATOM     34  CA  ASN    34       7.489  45.325   6.855  1.00 25.00           C
ATOM     35  CA  GLN    35       5.175  46.935   9.431  1.00 25.00           C
ATOM     36  CA  ARG    36       6.855  45.442  12.497  1.00 25.00           C
ATOM     37  CA  ARG    37       5.444  48.354  14.406  1.00 25.00           C
ATOM     38  CA  THR    38       1.789  49.249  14.561  1.00 25.00           C
ATOM     39  CA  LEU    39       2.963  52.403  12.784  1.00 25.00           C
ATOM     40  CA  SER    40      -0.740  53.373  12.887  1.00 25.00           C
ATOM     41  CA  ASP    41      -0.641  53.446  16.715  1.00 25.00           C
ATOM     42  CA  VAL    42       2.481  55.664  16.615  1.00 25.00           C
ATOM     43  CA  ALA    43       0.749  58.033  14.154  1.00 25.00           C
ATOM     44  CA  ARG    44      -2.318  58.206  16.441  1.00 25.00           C
ATOM     45  CA  ALA    45      -0.069  58.990  19.440  1.00 25.00           C
ATOM     46  CA  THR    46       1.670  61.757  17.444  1.00 25.00           C
ATOM     47  CA  ASP    47      -1.366  64.002  16.970  1.00 25.00           C
ATOM     48  CA  LEU    48      -0.266  66.132  19.862  1.00 25.00           C
ATOM     49  CA  THR    49       3.120  67.914  19.480  1.00 25.00           C
ATOM     50  CA  ARG    50       4.459  67.251  23.007  1.00 25.00           C
ATOM     51  CA  ALA    51       6.341  65.448  25.813  1.00 25.00           C
ATOM     52  CA  THR    52       6.500  62.263  23.692  1.00 25.00           C
ATOM     53  CA  ALA    53       7.848  64.275  20.726  1.00 25.00           C
ATOM     54  CA  ARG    54      10.505  65.866  22.980  1.00 25.00           C
ATOM     55  CA  ARG    55      11.520  62.404  24.268  1.00 25.00           C
ATOM     56  CA  PHE    56      11.796  61.120  20.669  1.00 25.00           C
ATOM     57  CA  LEU    57      13.970  64.131  19.735  1.00 25.00           C
ATOM     58  CA  LEU    58      16.224  63.474  22.761  1.00 25.00           C
ATOM     59  CA  THR    59      16.551  59.795  21.748  1.00 25.00           C
ATOM     60  CA  LEU    60      17.468  60.834  18.178  1.00 25.00           C
ATOM     61  CA  VAL    61      20.107  63.255  19.534  1.00 25.00           C
ATOM     62  CA  GLU    62      21.558  60.479  21.736  1.00 25.00           C
ATOM     63  CA  LEU    63      23.589  59.728  18.556  1.00 25.00           C
ATOM     64  CA  GLY    64      22.372  56.677  16.693  1.00 25.00           C
ATOM     65  CA  TYR    65      18.589  56.141  16.143  1.00 25.00           C
ATOM     66  CA  VAL    66      15.718  54.311  17.911  1.00 25.00           C
ATOM     67  CA  ALA    67      17.190  52.683  20.948  1.00 25.00           C
ATOM     68  CA  THR    68      14.833  50.309  22.848  1.00 25.00           C
ATOM     69  CA  ASP    69      15.045  46.840  24.390  1.00 25.00           C
ATOM     70  CA  GLY    70      11.789  45.052  25.214  1.00 25.00           C
ATOM     71  CA  SER    71      10.828  44.975  21.594  1.00 25.00           C
ATOM     72  CA  ALA    72       9.186  48.002  20.021  1.00 25.00           C
ATOM     73  CA  PHE    73      10.752  50.915  18.090  1.00 25.00           C
ATOM     74  CA  TRP    74      13.158  49.744  15.361  1.00 25.00           C
ATOM     75  CA  LEU    75      16.053  51.614  13.620  1.00 25.00           C
ATOM     76  CA  THR    76      19.782  51.021  14.152  1.00 25.00           C
ATOM     77  CA  PRO    77      21.403  53.757  12.060  1.00 25.00           C
TER
END
