
#######################################################
#                                                     #
#                        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   68 (   68),  selected   68 , name T0348TS168_3
# Molecule2: number of CA atoms   61 (  465),  selected   61 , name T0348.pdb
# PARAMETERS: T0348TS168_3.T0348.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      D       2           -
LGA    -       -      A       3           -
LGA    -       -      K       4           -
LGA    -       -      F       5           -
LGA    -       -      L       6           -
LGA    -       -      E       7           -
LGA    -       -      I       8           -
LGA    -       -      L       9           -
LGA    -       -      V      10           -
LGA    -       -      C      11           -
LGA    -       -      P      12           -
LGA    -       -      L      13           -
LGA    M       1      C      14          3.003
LGA    D       2      K      15          3.795
LGA    A       3      G      16          3.164
LGA    K       4      P      17          3.422
LGA    F       5      -       -           -
LGA    L       6      L      18          1.980
LGA    E       7      V      19          2.641
LGA    I       8      F      20          4.922
LGA    -       -      D      21           -
LGA    -       -      K      22           -
LGA    -       -      S      23           -
LGA    -       -      K      24           -
LGA    -       -      D      25           -
LGA    -       -      E      26           -
LGA    L       9      L      27          1.883
LGA    -       -      I      28           -
LGA    -       -      C      29           -
LGA    -       -      K      30           -
LGA    -       -      G      31           -
LGA    -       -      D      32           -
LGA    -       -      R      33           -
LGA    V      10      L      34          4.988
LGA    C      11      A      35          1.604
LGA    P      12      F      36           #
LGA    L      13      -       -           -
LGA    C      14      -       -           -
LGA    K      15      -       -           -
LGA    G      16      P      37          4.593
LGA    P      17      I      38          1.844
LGA    L      18      K      39           #
LGA    -       -      D      40           -
LGA    -       -      G      41           -
LGA    -       -      I      42           -
LGA    -       -      P      43           -
LGA    V      19      M      44          2.349
LGA    F      20      M      45          2.558
LGA    D      21      L      46          4.336
LGA    -       -      E      47           -
LGA    K      22      S      48           #
LGA    S      23      E      49          3.859
LGA    K      24      A      50          4.671
LGA    D      25      R      51          1.577
LGA    E      26      E      52          2.993
LGA    L      27      -       -           -
LGA    I      28      -       -           -
LGA    C      29      L      53          1.471
LGA    K      30      A      54          4.642
LGA    -       -      P      55           -
LGA    -       -      E      56           -
LGA    G      31      E      57          2.783
LGA    D      32      E      58          2.856
LGA    -       -      V      59           -
LGA    -       -      K      60           -
LGA    R      33      L      61           #
LGA    L      34      E      62           -
LGA    A      35      -       -           -
LGA    F      36      -       -           -
LGA    P      37      -       -           -
LGA    I      38      -       -           -
LGA    K      39      -       -           -
LGA    D      40      -       -           -
LGA    G      41      -       -           -
LGA    I      42      -       -           -
LGA    P      43      -       -           -
LGA    M      44      -       -           -
LGA    M      45      -       -           -
LGA    L      46      -       -           -
LGA    E      47      -       -           -
LGA    S      48      -       -           -
LGA    E      49      -       -           -
LGA    A      50      -       -           -
LGA    R      51      -       -           -
LGA    E      52      -       -           -
LGA    L      53      -       -           -
LGA    A      54      -       -           -
LGA    P      55      -       -           -
LGA    E      56      -       -           -
LGA    E      57      -       -           -
LGA    E      58      -       -           -
LGA    V      59      -       -           -
LGA    K      60      -       -           -
LGA    L      61      -       -           -
LGA    E      62      -       -           -
LGA    H      63      -       -           -
LGA    H      64      -       -           -
LGA    H      65      -       -           -
LGA    H      66      -       -           -
LGA    H      67      -       -           -
LGA    H      68      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   68   61    5.0     23    3.33    13.04     21.642     0.671

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.129409 * X  +  -0.200139 * Y  +   0.971184 * Z  +   3.041950
  Y_new =   0.809968 * X  +   0.543661 * Y  +   0.219963 * Z  +  30.204065
  Z_new =  -0.572018 * X  +   0.815093 * Y  +   0.091751 * Z  +  61.905437 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.458703   -1.682890  [ DEG:    83.5775    -96.4225 ]
  Theta =   0.608964    2.532629  [ DEG:    34.8911    145.1089 ]
  Phi   =   1.729228   -1.412365  [ DEG:    99.0775    -80.9225 ]
 
# 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: T0348TS168_3                                  
REMARK     2: T0348.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0348TS168_3.T0348.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   68   61   5.0   23   3.33   13.04  21.642
REMARK  ---------------------------------------------------------- 
MOLECULE T0348TS168_3
PFRMAT TS
TARGET T0348
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1       7.321  30.523  67.437  1.00 25.00           C
ATOM      2  CA  ASP     2      10.553  30.620  65.360  1.00 25.00           C
ATOM      3  CA  ALA     3      13.070  32.159  62.989  1.00 25.00           C
ATOM      4  CA  LYS     4      15.404  29.208  62.272  1.00 25.00           C
ATOM      5  CA  PHE     5      12.430  27.122  61.056  1.00 25.00           C
ATOM      6  CA  LEU     6      11.320  29.991  58.774  1.00 25.00           C
ATOM      7  CA  GLU     7      14.868  30.273  57.361  1.00 25.00           C
ATOM      8  CA  ILE     8      14.936  26.498  56.711  1.00 25.00           C
ATOM      9  CA  LEU     9      11.554  26.719  54.928  1.00 25.00           C
ATOM     10  CA  VAL    10       8.026  25.234  54.762  1.00 25.00           C
ATOM     11  CA  CYS    11       8.389  21.678  53.408  1.00 25.00           C
ATOM     12  CA  PRO    12      11.775  22.275  51.652  1.00 25.00           C
ATOM     13  CA  LEU    13      10.603  19.736  49.061  1.00 25.00           C
ATOM     14  CA  CYS    14       9.994  22.726  46.786  1.00 25.00           C
ATOM     15  CA  LYS    15      11.675  25.852  48.092  1.00 25.00           C
ATOM     16  CA  GLY    16      10.079  29.321  48.035  1.00 25.00           C
ATOM     17  CA  PRO    17       6.923  27.811  46.578  1.00 25.00           C
ATOM     18  CA  LEU    18       6.256  26.792  50.200  1.00 25.00           C
ATOM     19  CA  VAL    19       5.658  30.157  51.974  1.00 25.00           C
ATOM     20  CA  PHE    20       3.493  28.235  54.496  1.00 25.00           C
ATOM     21  CA  ASP    21       2.031  24.890  53.392  1.00 25.00           C
ATOM     22  CA  LYS    22       3.810  22.395  51.074  1.00 25.00           C
ATOM     23  CA  SER    23       0.428  20.625  50.765  1.00 25.00           C
ATOM     24  CA  LYS    24       0.925  19.022  54.209  1.00 25.00           C
ATOM     25  CA  ASP    25       4.470  17.860  53.470  1.00 25.00           C
ATOM     26  CA  GLU    26       5.256  19.472  56.833  1.00 25.00           C
ATOM     27  CA  LEU    27       6.659  17.560  59.771  1.00 25.00           C
ATOM     28  CA  ILE    28      10.365  17.361  58.827  1.00 25.00           C
ATOM     29  CA  CYS    29       9.428  16.884  55.145  1.00 25.00           C
ATOM     30  CA  LYS    30      12.555  17.255  53.084  1.00 25.00           C
ATOM     31  CA  GLY    31      14.434  16.004  56.129  1.00 25.00           C
ATOM     32  CA  ASP    32      16.710  18.769  57.310  1.00 25.00           C
ATOM     33  CA  ARG    33      15.692  21.448  54.748  1.00 25.00           C
ATOM     34  CA  LEU    34      12.568  22.024  56.900  1.00 25.00           C
ATOM     35  CA  ALA    35       9.419  22.587  58.960  1.00 25.00           C
ATOM     36  CA  PHE    36       6.336  24.805  59.471  1.00 25.00           C
ATOM     37  CA  PRO    37       5.306  22.322  62.173  1.00 25.00           C
ATOM     38  CA  ILE    38       5.045  24.849  64.967  1.00 25.00           C
ATOM     39  CA  LYS    39       2.364  22.416  66.287  1.00 25.00           C
ATOM     40  CA  ASP    40      -0.413  19.886  65.726  1.00 25.00           C
ATOM     41  CA  GLY    41      -3.279  21.608  67.547  1.00 25.00           C
ATOM     42  CA  ILE    42      -5.416  24.739  68.251  1.00 25.00           C
ATOM     43  CA  PRO    43      -4.165  24.930  71.845  1.00 25.00           C
ATOM     44  CA  MET    44      -1.830  27.511  73.339  1.00 25.00           C
ATOM     45  CA  MET    45      -4.259  30.174  72.170  1.00 25.00           C
ATOM     46  CA  LEU    46      -7.795  31.139  71.200  1.00 25.00           C
ATOM     47  CA  GLU    47     -10.440  32.190  73.689  1.00 25.00           C
ATOM     48  CA  SER    48      -8.334  34.819  75.480  1.00 25.00           C
ATOM     49  CA  GLU    49      -7.730  35.670  79.109  1.00 25.00           C
ATOM     50  CA  ALA    50      -5.762  34.326  82.135  1.00 25.00           C
ATOM     51  CA  ARG    51      -2.314  34.874  80.661  1.00 25.00           C
ATOM     52  CA  GLU    52      -0.349  37.950  79.461  1.00 25.00           C
ATOM     53  CA  LEU    53      -0.888  41.640  78.526  1.00 25.00           C
ATOM     54  CA  ALA    54       1.587  44.009  80.102  1.00 25.00           C
ATOM     55  CA  PRO    55       0.071  47.210  78.641  1.00 25.00           C
ATOM     56  CA  GLU    56      -0.173  45.709  75.190  1.00 25.00           C
ATOM     57  CA  GLU    57      -0.635  48.409  72.576  1.00 25.00           C
ATOM     58  CA  GLU    58      -4.222  49.722  72.456  1.00 25.00           C
ATOM     59  CA  VAL    59      -7.821  49.383  71.177  1.00 25.00           C
ATOM     60  CA  LYS    60      -9.916  50.486  68.166  1.00 25.00           C
ATOM     61  CA  LEU    61      -9.556  48.855  64.744  1.00 25.00           C
ATOM     62  CA  GLU    62      -7.591  48.775  61.470  1.00 25.00           C
ATOM     63  CA  HIS    63     -10.026  46.981  59.068  1.00 25.00           C
ATOM     64  CA  HIS    64     -12.116  43.787  59.207  1.00 25.00           C
ATOM     65  CA  HIS    65      -8.975  41.808  58.294  1.00 25.00           C
ATOM     66  CA  HIS    66      -6.109  40.021  56.545  1.00 25.00           C
ATOM     67  CA  HIS    67      -3.944  42.299  54.403  1.00 25.00           C
ATOM     68  CA  HIS    68      -0.734  42.009  56.451  1.00 25.00           C
TER
END
