
#######################################################
#                                                     #
#                        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   75 (   75),  selected   75 , name T0349TS393_5
# Molecule2: number of CA atoms   75 ( 1131),  selected   75 , name T0349.pdb
# PARAMETERS: T0349TS393_5.T0349.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    R       2      R       2           -
LGA    E       3      E       3           -
LGA    L       4      L       4           -
LGA    -       -      L       5           -
LGA    -       -      R       6           -
LGA    -       -      T       7           -
LGA    -       -      N       8           -
LGA    -       -      D       9           -
LGA    L       5      A      10           #
LGA    R       6      V      11          3.173
LGA    -       -      L      12           -
LGA    -       -      L      13           -
LGA    T       7      S      14          3.356
LGA    N       8      A      15          0.622
LGA    D       9      V      16          3.683
LGA    A      10      G      17          2.284
LGA    V      11      A      18          2.594
LGA    L      12      L      19          5.505
LGA    L      13      -       -           -
LGA    S      14      L      20          4.192
LGA    A      15      D      21           #
LGA    -       -      G      22           -
LGA    -       -      A      23           -
LGA    -       -      D      24           -
LGA    -       -      I      25           -
LGA    -       -      G      26           -
LGA    V      16      H      27          4.302
LGA    G      17      L      28          2.903
LGA    -       -      V      29           -
LGA    -       -      L      30           -
LGA    -       -      D      31           -
LGA    -       -      Q      32           -
LGA    -       -      N      33           -
LGA    -       -      M      34           -
LGA    -       -      S      35           -
LGA    -       -      I      36           -
LGA    -       -      L      37           -
LGA    -       -      E      38           -
LGA    -       -      G      39           -
LGA    -       -      S      40           -
LGA    -       -      L      41           -
LGA    -       -      G      42           -
LGA    -       -      V      43           -
LGA    -       -      I      44           -
LGA    -       -      P      45           -
LGA    -       -      R      46           -
LGA    -       -      R      47           -
LGA    -       -      V      48           -
LGA    -       -      L      49           -
LGA    A      18      V      50          3.527
LGA    L      19      H      51          3.200
LGA    L      20      -       -           -
LGA    D      21      -       -           -
LGA    G      22      E      52          3.668
LGA    A      23      D      53          1.827
LGA    D      24      D      54           #
LGA    I      25      L      55          3.396
LGA    G      26      A      56          1.914
LGA    H      27      G      57          1.123
LGA    -       -      A      58           -
LGA    -       -      R      59           -
LGA    L      28      R      60          1.384
LGA    V      29      L      61          0.723
LGA    L      30      L      62          4.437
LGA    -       -      T      63           -
LGA    D      31      D      64           #
LGA    Q      32      A      65          4.618
LGA    N      33      G      66          4.164
LGA    M      34      L      67          5.573
LGA    S      35      A      68          1.910
LGA    I      36      -       -           -
LGA    L      37      -       -           -
LGA    E      38      -       -           -
LGA    G      39      -       -           -
LGA    S      40      -       -           -
LGA    L      41      -       -           -
LGA    G      42      -       -           -
LGA    V      43      -       -           -
LGA    I      44      -       -           -
LGA    P      45      -       -           -
LGA    R      46      -       -           -
LGA    R      47      H      69          2.523
LGA    V      48      E      70          2.853
LGA    L      49      -       -           -
LGA    V      50      -       -           -
LGA    H      51      -       -           -
LGA    E      52      -       -           -
LGA    D      53      -       -           -
LGA    D      54      -       -           -
LGA    L      55      -       -           -
LGA    A      56      -       -           -
LGA    G      57      -       -           -
LGA    A      58      -       -           -
LGA    R      59      -       -           -
LGA    R      60      -       -           -
LGA    L      61      L      71          3.876
LGA    L      62      R      72          1.976
LGA    T      63      -       -           -
LGA    D      64      -       -           -
LGA    A      65      -       -           -
LGA    G      66      S      73          2.328
LGA    L      67      D      74          2.626
LGA    A      68      D      75          1.384
LGA    H      69      -       -           -
LGA    E      70      -       -           -
LGA    L      71      -       -           -
LGA    R      72      -       -           -
LGA    S      73      -       -           -
LGA    D      74      -       -           -
LGA    D      75      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   75   75    5.0     31    3.22     9.68     23.517     0.934

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.016409 * X  +  -0.827268 * Y  +   0.561568 * Z  +   3.987447
  Y_new =   0.665039 * X  +   0.428425 * Y  +   0.611698 * Z  +   2.410794
  Z_new =  -0.746628 * X  +   0.363427 * Y  +   0.557196 * Z  +   3.072189 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.577950   -2.563643  [ DEG:    33.1141   -146.8859 ]
  Theta =   0.842979    2.298614  [ DEG:    48.2991    131.7009 ]
  Phi   =   1.546127   -1.595466  [ DEG:    88.5866    -91.4134 ]
 
# 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: T0349TS393_5                                  
REMARK     2: T0349.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0349TS393_5.T0349.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   75   75   5.0   31   3.22    9.68  23.517
REMARK  ---------------------------------------------------------- 
MOLECULE T0349TS393_5
PFRMAT TS
TARGET T0349
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1     -15.835  -1.359  15.742  1.00 25.00           C
ATOM      2  CA  ARG     2     -13.607  -4.217  14.549  1.00 25.00           C
ATOM      3  CA  GLU     3      -9.859  -4.159  13.935  1.00 25.00           C
ATOM      4  CA  LEU     4      -6.863  -2.106  15.149  1.00 25.00           C
ATOM      5  CA  LEU     5      -4.647  -3.708  12.469  1.00 25.00           C
ATOM      6  CA  ARG     6      -7.259  -2.897   9.789  1.00 25.00           C
ATOM      7  CA  THR     7      -7.415   0.731  11.004  1.00 25.00           C
ATOM      8  CA  ASN     8      -3.595   0.968  10.866  1.00 25.00           C
ATOM      9  CA  ASP     9      -3.613  -0.435   7.303  1.00 25.00           C
ATOM     10  CA  ALA    10      -6.273   2.124   6.282  1.00 25.00           C
ATOM     11  CA  VAL    11      -4.179   4.946   7.805  1.00 25.00           C
ATOM     12  CA  LEU    12      -1.092   3.715   5.900  1.00 25.00           C
ATOM     13  CA  LEU    13      -3.106   3.628   2.644  1.00 25.00           C
ATOM     14  CA  SER    14      -4.340   7.197   3.283  1.00 25.00           C
ATOM     15  CA  ALA    15      -0.745   8.352   3.921  1.00 25.00           C
ATOM     16  CA  VAL    16       0.394   6.690   0.664  1.00 25.00           C
ATOM     17  CA  GLY    17      -2.444   8.420  -1.239  1.00 25.00           C
ATOM     18  CA  ALA    18      -1.443  11.789   0.283  1.00 25.00           C
ATOM     19  CA  LEU    19       2.200  11.197  -0.738  1.00 25.00           C
ATOM     20  CA  LEU    20       1.087  10.341  -4.301  1.00 25.00           C
ATOM     21  CA  ASP    21      -1.016  13.538  -4.439  1.00 25.00           C
ATOM     22  CA  GLY    22       0.997  16.239  -2.593  1.00 25.00           C
ATOM     23  CA  ALA    23       4.075  17.169  -0.535  1.00 25.00           C
ATOM     24  CA  ASP    24       6.199  16.750  -3.660  1.00 25.00           C
ATOM     25  CA  ILE    25       7.267  13.306  -2.610  1.00 25.00           C
ATOM     26  CA  GLY    26       7.422  13.772   1.124  1.00 25.00           C
ATOM     27  CA  HIS    27       5.691  13.338   4.485  1.00 25.00           C
ATOM     28  CA  LEU    28       7.729  11.772   7.291  1.00 25.00           C
ATOM     29  CA  VAL    29       5.245   9.913   9.407  1.00 25.00           C
ATOM     30  CA  LEU    30       2.614   8.698  11.937  1.00 25.00           C
ATOM     31  CA  ASP    31       2.739   6.674  15.187  1.00 25.00           C
ATOM     32  CA  GLN    32       3.051   3.040  13.965  1.00 25.00           C
ATOM     33  CA  ASN    33       6.653   2.988  15.094  1.00 25.00           C
ATOM     34  CA  MET    34       9.163   5.432  13.470  1.00 25.00           C
ATOM     35  CA  SER    35       9.212   2.709  10.769  1.00 25.00           C
ATOM     36  CA  ILE    36       8.430   5.054   7.842  1.00 25.00           C
ATOM     37  CA  LEU    37      10.524   2.866   5.499  1.00 25.00           C
ATOM     38  CA  GLU    38      12.396  -0.381   5.437  1.00 25.00           C
ATOM     39  CA  GLY    39      11.941  -3.112   8.108  1.00 25.00           C
ATOM     40  CA  SER    40      15.610  -2.240   8.604  1.00 25.00           C
ATOM     41  CA  LEU    41      14.562   1.182   9.896  1.00 25.00           C
ATOM     42  CA  GLY    42      12.838  -0.459  12.788  1.00 25.00           C
ATOM     43  CA  VAL    43       9.454  -2.147  12.603  1.00 25.00           C
ATOM     44  CA  ILE    44       6.555  -3.568  10.541  1.00 25.00           C
ATOM     45  CA  PRO    45       4.503  -0.344  10.520  1.00 25.00           C
ATOM     46  CA  ARG    46       4.972   1.458   7.138  1.00 25.00           C
ATOM     47  CA  ARG    47       7.399  -1.179   5.838  1.00 25.00           C
ATOM     48  CA  VAL    48       6.602  -4.895   5.636  1.00 25.00           C
ATOM     49  CA  LEU    49       6.059  -8.366   4.235  1.00 25.00           C
ATOM     50  CA  VAL    50       3.429  -8.629   6.990  1.00 25.00           C
ATOM     51  CA  HIS    51       0.928  -9.893   4.438  1.00 25.00           C
ATOM     52  CA  GLU    52      -1.966  -8.252   2.558  1.00 25.00           C
ATOM     53  CA  ASP    53      -2.695  -4.741   3.903  1.00 25.00           C
ATOM     54  CA  ASP    54       0.818  -4.565   5.417  1.00 25.00           C
ATOM     55  CA  LEU    55       2.341  -5.652   2.076  1.00 25.00           C
ATOM     56  CA  ALA    56       0.313  -2.965   0.249  1.00 25.00           C
ATOM     57  CA  GLY    57       1.507  -0.326   2.754  1.00 25.00           C
ATOM     58  CA  ALA    58       5.134  -1.444   2.239  1.00 25.00           C
ATOM     59  CA  ARG    59       4.693  -1.209  -1.558  1.00 25.00           C
ATOM     60  CA  ARG    60       3.233   2.313  -1.196  1.00 25.00           C
ATOM     61  CA  LEU    61       6.195   3.341   1.004  1.00 25.00           C
ATOM     62  CA  LEU    62       8.640   1.947  -1.593  1.00 25.00           C
ATOM     63  CA  THR    63       6.842   3.888  -4.363  1.00 25.00           C
ATOM     64  CA  ASP    64       7.035   7.093  -2.275  1.00 25.00           C
ATOM     65  CA  ALA    65      10.779   6.525  -1.702  1.00 25.00           C
ATOM     66  CA  GLY    66      13.377   3.687  -1.516  1.00 25.00           C
ATOM     67  CA  LEU    67      12.125   3.041  -5.087  1.00 25.00           C
ATOM     68  CA  ALA    68      13.083   3.238  -8.773  1.00 25.00           C
ATOM     69  CA  HIS    69      16.077   1.697 -10.626  1.00 25.00           C
ATOM     70  CA  GLU    70      13.527   0.858 -13.321  1.00 25.00           C
ATOM     71  CA  LEU    71       9.723   0.993 -13.502  1.00 25.00           C
ATOM     72  CA  ARG    72      10.340   1.100 -17.225  1.00 25.00           C
ATOM     73  CA  SER    73      11.718  -2.331 -17.931  1.00 25.00           C
ATOM     74  CA  ASP    74      14.561  -4.702 -18.741  1.00 25.00           C
ATOM     75  CA  ASP    75      13.054  -8.164 -18.013  1.00 25.00           C
TER
END
