
#######################################################
#                                                     #
#                        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 T0381TS393_4-D1
# Molecule2: number of CA atoms   61 (  477),  selected   61 , name T0381_D1.pdb
# PARAMETERS: T0381TS393_4-D1.T0381_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      V      17           -
LGA    V      17      Q      18           #
LGA    Q      18      S      19          2.348
LGA    S      19      -       -           -
LGA    L      20      -       -           -
LGA    A      21      L      20          3.096
LGA    R      22      A      21          2.234
LGA    G      23      R      22          2.209
LGA    L      24      G      23          2.248
LGA    A      25      L      24          1.303
LGA    V      26      A      25          1.205
LGA    I      27      V      26          1.962
LGA    R      28      I      27          1.455
LGA    C      29      R      28          1.246
LGA    F      30      C      29          1.728
LGA    D      31      F      30          0.612
LGA    H      32      D      31          0.692
LGA    R      33      H      32          2.046
LGA    N      34      R      33           #
LGA    Q      35      N      34           -
LGA    R      36      Q      35           -
LGA    R      37      R      36           -
LGA    T      38      R      37           -
LGA    L      39      T      38           -
LGA    S      40      L      39           -
LGA    D      41      S      40           -
LGA    V      42      D      41           -
LGA    A      43      V      42           -
LGA    R      44      A      43           -
LGA    A      45      R      44           -
LGA    T      46      A      45           -
LGA    D      47      -       -           -
LGA    L      48      T      46           #
LGA    -       -      D      47           -
LGA    T      49      L      48          4.281
LGA    -       -      T      49           -
LGA    -       -      R      50           -
LGA    -       -      A      51           -
LGA    -       -      T      52           -
LGA    R      50      A      53          2.429
LGA    A      51      R      54          1.647
LGA    T      52      R      55          0.852
LGA    A      53      F      56          1.093
LGA    R      54      L      57          1.138
LGA    R      55      L      58          0.769
LGA    F      56      T      59          0.671
LGA    L      57      L      60          0.883
LGA    L      58      V      61          1.045
LGA    T      59      E      62          0.991
LGA    L      60      L      63          1.063
LGA    V      61      G      64          1.373
LGA    E      62      Y      65          6.465
LGA    L      63      V      66          5.343
LGA    G      64      A      67          2.855
LGA    Y      65      T      68           -
LGA    V      66      D      69           -
LGA    A      67      G      70           -
LGA    T      68      S      71           -
LGA    D      69      A      72           -
LGA    G      70      -       -           -
LGA    S      71      -       -           -
LGA    A      72      -       -           -
LGA    F      73      -       -           -
LGA    W      74      -       -           -
LGA    L      75      -       -           -
LGA    T      76      F      73           #
LGA    P      77      W      74          1.581
LGA    -       -      L      75           -
LGA    -       -      T      76           -
LGA    -       -      P      77           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   61   61    5.0     31    2.32     6.45     39.177     1.281

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.417825 * X  +   0.395464 * Y  +  -0.817943 * Z  +  -7.027771
  Y_new =   0.792651 * X  +   0.281293 * Y  +   0.540906 * Z  +  60.007092
  Z_new =   0.443990 * X  +  -0.874347 * Y  +  -0.195934 * Z  +  10.646258 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -1.791246    1.350346  [ DEG:  -102.6309     77.3691 ]
  Theta =  -0.460047   -2.681545  [ DEG:   -26.3588   -153.6412 ]
  Phi   =   1.085686   -2.055906  [ DEG:    62.2052   -117.7948 ]
 
# 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: T0381TS393_4-D1                               
REMARK     2: T0381_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0381TS393_4-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   31   2.32    6.45  39.177
REMARK  ---------------------------------------------------------- 
MOLECULE T0381TS393_4-D1
PFRMAT TS
TARGET T0381
MODEL 4
PARENT N/A
ATOM     17  CA  VAL    17      10.552  62.693  31.900  1.00 25.00           C
ATOM     18  CA  GLN    18       9.438  59.167  32.896  1.00 25.00           C
ATOM     19  CA  SER    19       6.204  59.595  30.892  1.00 25.00           C
ATOM     20  CA  LEU    20       8.215  60.772  27.852  1.00 25.00           C
ATOM     21  CA  ALA    21      10.524  57.734  28.174  1.00 25.00           C
ATOM     22  CA  ARG    22       7.484  55.412  28.363  1.00 25.00           C
ATOM     23  CA  GLY    23       6.004  57.055  25.237  1.00 25.00           C
ATOM     24  CA  LEU    24       9.332  56.605  23.395  1.00 25.00           C
ATOM     25  CA  ALA    25       9.429  52.917  24.422  1.00 25.00           C
ATOM     26  CA  VAL    26       5.841  52.447  23.168  1.00 25.00           C
ATOM     27  CA  ILE    27       6.763  54.097  19.837  1.00 25.00           C
ATOM     28  CA  ARG    28       9.805  51.794  19.509  1.00 25.00           C
ATOM     29  CA  CYS    29       7.600  48.742  20.215  1.00 25.00           C
ATOM     30  CA  PHE    30       5.098  49.905  17.559  1.00 25.00           C
ATOM     31  CA  ASP    31       7.945  50.351  15.037  1.00 25.00           C
ATOM     32  CA  HIS    32       8.469  47.188  12.911  1.00 25.00           C
ATOM     33  CA  ARG    33       9.054  44.673  10.119  1.00 25.00           C
ATOM     34  CA  ASN    34       7.987  42.146  12.755  1.00 25.00           C
ATOM     35  CA  GLN    35      10.276  40.658  15.320  1.00 25.00           C
ATOM     36  CA  ARG    36      13.824  41.080  16.572  1.00 25.00           C
ATOM     37  CA  ARG    37      13.498  43.343  19.646  1.00 25.00           C
ATOM     38  CA  THR    38      13.735  42.554  23.378  1.00 25.00           C
ATOM     39  CA  LEU    39      11.739  45.795  24.030  1.00 25.00           C
ATOM     40  CA  SER    40       8.927  43.531  25.310  1.00 25.00           C
ATOM     41  CA  ASP    41       9.709  44.557  28.916  1.00 25.00           C
ATOM     42  CA  VAL    42       9.627  48.251  27.909  1.00 25.00           C
ATOM     43  CA  ALA    43       6.251  47.730  26.177  1.00 25.00           C
ATOM     44  CA  ARG    44       4.883  46.004  29.311  1.00 25.00           C
ATOM     45  CA  ALA    45       6.112  48.912  31.479  1.00 25.00           C
ATOM     46  CA  THR    46       4.430  51.415  29.119  1.00 25.00           C
ATOM     47  CA  ASP    47       2.231  54.420  29.930  1.00 25.00           C
ATOM     48  CA  LEU    48       2.322  57.813  28.208  1.00 25.00           C
ATOM     49  CA  THR    49       3.451  60.872  26.291  1.00 25.00           C
ATOM     50  CA  ARG    50       6.065  62.129  23.806  1.00 25.00           C
ATOM     51  CA  ALA    51       7.787  64.609  21.451  1.00 25.00           C
ATOM     52  CA  THR    52      10.613  65.095  23.989  1.00 25.00           C
ATOM     53  CA  ALA    53      11.027  61.300  24.292  1.00 25.00           C
ATOM     54  CA  ARG    54      11.174  60.987  20.478  1.00 25.00           C
ATOM     55  CA  ARG    55      13.826  63.746  20.330  1.00 25.00           C
ATOM     56  CA  PHE    56      15.875  61.956  23.024  1.00 25.00           C
ATOM     57  CA  LEU    57      15.627  58.673  21.067  1.00 25.00           C
ATOM     58  CA  LEU    58      16.780  60.458  17.880  1.00 25.00           C
ATOM     59  CA  THR    59      19.744  61.975  19.774  1.00 25.00           C
ATOM     60  CA  LEU    60      20.678  58.518  21.132  1.00 25.00           C
ATOM     61  CA  VAL    61      20.507  57.056  17.595  1.00 25.00           C
ATOM     62  CA  GLU    62      22.750  59.876  16.295  1.00 25.00           C
ATOM     63  CA  LEU    63      20.125  60.106  13.571  1.00 25.00           C
ATOM     64  CA  GLY    64      18.849  56.993  11.759  1.00 25.00           C
ATOM     65  CA  TYR    65      20.017  53.843  13.642  1.00 25.00           C
ATOM     66  CA  VAL    66      17.501  52.517  16.220  1.00 25.00           C
ATOM     67  CA  ALA    67      18.735  52.135  19.808  1.00 25.00           C
ATOM     68  CA  THR    68      20.840  49.347  21.410  1.00 25.00           C
ATOM     69  CA  ASP    69      24.016  47.665  22.654  1.00 25.00           C
ATOM     70  CA  GLY    70      24.622  44.079  21.510  1.00 25.00           C
ATOM     71  CA  SER    71      23.928  44.298  17.806  1.00 25.00           C
ATOM     72  CA  ALA    72      20.252  44.623  18.540  1.00 25.00           C
ATOM     73  CA  PHE    73      17.175  46.837  18.581  1.00 25.00           C
ATOM     74  CA  TRP    74      16.436  46.569  14.893  1.00 25.00           C
ATOM     75  CA  LEU    75      14.868  49.591  13.108  1.00 25.00           C
ATOM     76  CA  THR    76      14.969  52.609  10.740  1.00 25.00           C
ATOM     77  CA  PRO    77      13.033  54.703  13.258  1.00 25.00           C
TER
END
