
#######################################################
#                                                     #
#                        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  102 (  102),  selected  102 , name T0300TS168_4
# Molecule2: number of CA atoms   89 (  695),  selected   89 , name T0300
# PARAMETERS: T0300TS168_4.T0300  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      D       7           -
LGA    A       2      K       8           -
LGA    S       3      T       9           -
LGA    K       4      Y      10           -
LGA    K       5      E      11           -
LGA    -       -      E      12           -
LGA    -       -      M      13           -
LGA    -       -      V      14           -
LGA    -       -      K      15           -
LGA    -       -      E      16           -
LGA    -       -      V      17           -
LGA    -       -      E      18           -
LGA    -       -      R      19           -
LGA    -       -      L      20           -
LGA    -       -      K      21           -
LGA    -       -      L      22           -
LGA    -       -      E      23           -
LGA    -       -      N      24           -
LGA    -       -      K      25           -
LGA    -       -      T      26           -
LGA    -       -      L      27           -
LGA    -       -      K      28           -
LGA    -       -      Q      29           -
LGA    -       -      K      30           -
LGA    -       -      V      31           -
LGA    -       -      S      39           -
LGA    -       -      D      40           -
LGA    -       -      D      41           -
LGA    -       -      S      42           -
LGA    -       -      I      43           -
LGA    -       -      L      44           -
LGA    -       -      T      45           -
LGA    -       -      A      46           -
LGA    P       6      A      47           #
LGA    -       -      K      48           -
LGA    -       -      R      49           -
LGA    D       7      E      50          0.634
LGA    K       8      S      51          2.034
LGA    T       9      I      52          4.509
LGA    Y      10      I      53          2.960
LGA    -       -      V      54           -
LGA    E      11      S      55          0.729
LGA    E      12      S      56          0.868
LGA    M      13      S      57          0.744
LGA    V      14      R      58          0.693
LGA    K      15      A      59          1.260
LGA    E      16      L      60          1.547
LGA    V      17      G      61          1.344
LGA    E      18      A      62          1.035
LGA    R      19      V      63          1.022
LGA    L      20      A      64          1.144
LGA    K      21      M      65          0.985
LGA    L      22      R      66          0.545
LGA    E      23      K      67          0.769
LGA    N      24      I      68          1.156
LGA    K      25      E      69          1.191
LGA    T      26      A      70          0.967
LGA    L      27      K      71          0.934
LGA    K      28      V      72          2.611
LGA    Q      29      R      73          3.056
LGA    K      30      S      74          2.010
LGA    V      31      R      75          2.750
LGA    -       -      A      76           -
LGA    K      32      A      77          2.071
LGA    S      33      K      78           #
LGA    S      34      -       -           -
LGA    G      35      -       -           -
LGA    A      36      -       -           -
LGA    V      37      -       -           -
LGA    S      38      -       -           -
LGA    S      39      -       -           -
LGA    D      40      -       -           -
LGA    D      41      -       -           -
LGA    S      42      A      79           #
LGA    I      43      V      80          2.880
LGA    L      44      T      81          3.141
LGA    T      45      E      82          1.603
LGA    A      46      Q      83          1.032
LGA    A      47      -       -           -
LGA    K      48      E      84          5.853
LGA    R      49      L      85          3.510
LGA    E      50      T      86          0.960
LGA    S      51      S      87          3.933
LGA    I      52      L      88          2.211
LGA    I      53      L      89          1.653
LGA    V      54      Q      90          4.119
LGA    S      55      S      91          3.673
LGA    S      56      L      92          2.277
LGA    S      57      T      93           #
LGA    R      58      -       -           -
LGA    A      59      L      94          1.478
LGA    L      60      -       -           -
LGA    G      61      -       -           -
LGA    A      62      -       -           -
LGA    V      63      R      95          1.673
LGA    A      64      V      96          1.526
LGA    M      65      D      97          3.405
LGA    R      66      -       -           -
LGA    K      67      -       -           -
LGA    I      68      V      98          2.622
LGA    E      69      S      99           #
LGA    A      70      -       -           -
LGA    K      71      -       -           -
LGA    V      72      M     100           #
LGA    R      73      E     101           -
LGA    S      74      E     102           -
LGA    R      75      -       -           -
LGA    A      76      -       -           -
LGA    A      77      -       -           -
LGA    K      78      -       -           -
LGA    A      79      -       -           -
LGA    V      80      -       -           -
LGA    T      81      -       -           -
LGA    E      82      -       -           -
LGA    Q      83      -       -           -
LGA    E      84      -       -           -
LGA    L      85      -       -           -
LGA    T      86      -       -           -
LGA    S      87      -       -           -
LGA    L      88      -       -           -
LGA    L      89      -       -           -
LGA    Q      90      -       -           -
LGA    S      91      -       -           -
LGA    L      92      -       -           -
LGA    T      93      -       -           -
LGA    L      94      -       -           -
LGA    R      95      -       -           -
LGA    V      96      -       -           -
LGA    D      97      -       -           -
LGA    V      98      -       -           -
LGA    S      99      -       -           -
LGA    M     100      -       -           -
LGA    E     101      -       -           -
LGA    E     102      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  102   89    5.0     44    2.32     4.55     36.851     1.816

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.708535 * X  +  -0.409502 * Y  +   0.574705 * Z  +  33.947250
  Y_new =   0.163876 * X  +  -0.696658 * Y  +  -0.698435 * Z  + -20.371647
  Z_new =   0.686384 * X  +   0.589046 * Y  +  -0.426500 * Z  +   7.604184 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.197482   -0.944110  [ DEG:   125.9065    -54.0935 ]
  Theta =  -0.756505   -2.385088  [ DEG:   -43.3445   -136.6555 ]
  Phi   =   0.227291   -2.914301  [ DEG:    13.0228   -166.9772 ]
 
# 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: T0300TS168_4                                  
REMARK     2: T0300                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0300TS168_4.T0300 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  102   89   5.0   44   2.32    4.55  36.851
REMARK  ---------------------------------------------------------- 
MOLECULE T0300TS168_4
PFRMAT TS
TARGET T0300
MODEL 4
PARENT N/A
ATOM      1  CA  MET     1      55.936 -21.269   3.041  1.00 25.00           C
ATOM      2  CA  ALA     2      57.317 -21.948  -0.446  1.00 25.00           C
ATOM      3  CA  SER     3      57.199 -24.454  -3.379  1.00 25.00           C
ATOM      4  CA  LYS     4      55.714 -23.395  -6.752  1.00 25.00           C
ATOM      5  CA  LYS     5      54.936 -20.245  -8.629  1.00 25.00           C
ATOM      6  CA  PRO     6      53.680 -16.613  -8.460  1.00 25.00           C
ATOM      7  CA  ASP     7      51.506 -14.127 -10.344  1.00 25.00           C
ATOM      8  CA  LYS     8      48.748 -11.838 -11.618  1.00 25.00           C
ATOM      9  CA  THR     9      48.886 -10.005  -8.354  1.00 25.00           C
ATOM     10  CA  TYR    10      46.999 -12.454  -6.169  1.00 25.00           C
ATOM     11  CA  GLU    11      43.881 -10.401  -7.023  1.00 25.00           C
ATOM     12  CA  GLU    12      41.724 -13.561  -6.850  1.00 25.00           C
ATOM     13  CA  MET    13      43.235 -14.435  -3.440  1.00 25.00           C
ATOM     14  CA  VAL    14      42.511 -10.890  -2.184  1.00 25.00           C
ATOM     15  CA  LYS    15      38.895 -11.167  -3.414  1.00 25.00           C
ATOM     16  CA  GLU    16      38.518 -14.534  -1.629  1.00 25.00           C
ATOM     17  CA  VAL    17      39.908 -13.006   1.596  1.00 25.00           C
ATOM     18  CA  GLU    18      37.445 -10.089   1.305  1.00 25.00           C
ATOM     19  CA  ARG    19      34.554 -12.548   0.796  1.00 25.00           C
ATOM     20  CA  LEU    20      35.665 -14.531   3.878  1.00 25.00           C
ATOM     21  CA  LYS    21      35.814 -11.302   5.932  1.00 25.00           C
ATOM     22  CA  LEU    22      32.295 -10.359   4.751  1.00 25.00           C
ATOM     23  CA  GLU    23      31.011 -13.834   5.723  1.00 25.00           C
ATOM     24  CA  ASN    24      32.620 -13.488   9.181  1.00 25.00           C
ATOM     25  CA  LYS    25      30.988 -10.052   9.623  1.00 25.00           C
ATOM     26  CA  THR    26      27.589 -11.510   8.626  1.00 25.00           C
ATOM     27  CA  LEU    27      28.046 -14.359  11.145  1.00 25.00           C
ATOM     28  CA  LYS    28      28.929 -11.831  13.882  1.00 25.00           C
ATOM     29  CA  GLN    29      25.810  -9.779  13.027  1.00 25.00           C
ATOM     30  CA  LYS    30      23.653 -12.939  13.203  1.00 25.00           C
ATOM     31  CA  VAL    31      25.164 -13.812  16.611  1.00 25.00           C
ATOM     32  CA  LYS    32      24.439 -10.267  17.868  1.00 25.00           C
ATOM     33  CA  SER    33      21.118  -8.669  16.824  1.00 25.00           C
ATOM     34  CA  SER    34      18.353 -11.277  16.429  1.00 25.00           C
ATOM     35  CA  GLY    35      16.488 -10.016  19.565  1.00 25.00           C
ATOM     36  CA  ALA    36      16.017 -13.588  20.811  1.00 25.00           C
ATOM     37  CA  VAL    37      16.544 -16.289  23.441  1.00 25.00           C
ATOM     38  CA  SER    38      17.448 -19.228  25.644  1.00 25.00           C
ATOM     39  CA  SER    39      17.622 -16.819  28.602  1.00 25.00           C
ATOM     40  CA  ASP    40      17.698 -13.581  30.570  1.00 25.00           C
ATOM     41  CA  ASP    41      20.386 -11.352  32.120  1.00 25.00           C
ATOM     42  CA  SER    42      24.210 -11.801  32.027  1.00 25.00           C
ATOM     43  CA  ILE    43      26.918 -10.704  29.537  1.00 25.00           C
ATOM     44  CA  LEU    44      28.599 -11.546  26.219  1.00 25.00           C
ATOM     45  CA  THR    45      32.118 -10.157  26.895  1.00 25.00           C
ATOM     46  CA  ALA    46      34.257 -11.920  29.500  1.00 25.00           C
ATOM     47  CA  ALA    47      37.611 -13.028  28.019  1.00 25.00           C
ATOM     48  CA  LYS    48      36.274 -16.591  27.590  1.00 25.00           C
ATOM     49  CA  ARG    49      33.144 -15.233  25.849  1.00 25.00           C
ATOM     50  CA  GLU    50      35.329 -13.129  23.510  1.00 25.00           C
ATOM     51  CA  SER    51      37.459 -16.205  22.693  1.00 25.00           C
ATOM     52  CA  ILE    52      34.296 -18.228  21.944  1.00 25.00           C
ATOM     53  CA  ILE    53      33.024 -15.437  19.651  1.00 25.00           C
ATOM     54  CA  VAL    54      36.390 -15.371  17.825  1.00 25.00           C
ATOM     55  CA  SER    55      36.253 -19.172  17.381  1.00 25.00           C
ATOM     56  CA  SER    56      32.695 -18.906  15.990  1.00 25.00           C
ATOM     57  CA  SER    57      33.828 -16.184  13.545  1.00 25.00           C
ATOM     58  CA  ARG    58      36.753 -18.383  12.415  1.00 25.00           C
ATOM     59  CA  ALA    59      34.364 -21.329  11.881  1.00 25.00           C
ATOM     60  CA  LEU    60      32.030 -19.093   9.825  1.00 25.00           C
ATOM     61  CA  GLY    61      34.990 -17.911   7.702  1.00 25.00           C
ATOM     62  CA  ALA    62      36.056 -21.544   7.123  1.00 25.00           C
ATOM     63  CA  VAL    63      32.486 -22.451   6.076  1.00 25.00           C
ATOM     64  CA  ALA    64      32.420 -19.492   3.648  1.00 25.00           C
ATOM     65  CA  MET    65      35.773 -20.599   2.167  1.00 25.00           C
ATOM     66  CA  ARG    66      34.435 -24.162   1.739  1.00 25.00           C
ATOM     67  CA  LYS    67      31.307 -22.804  -0.003  1.00 25.00           C
ATOM     68  CA  ILE    68      33.492 -20.700  -2.341  1.00 25.00           C
ATOM     69  CA  GLU    69      35.621 -23.776  -3.159  1.00 25.00           C
ATOM     70  CA  ALA    70      32.458 -25.799  -3.907  1.00 25.00           C
ATOM     71  CA  LYS    71      31.186 -23.007  -6.201  1.00 25.00           C
ATOM     72  CA  VAL    72      34.552 -22.941  -8.027  1.00 25.00           C
ATOM     73  CA  ARG    73      34.414 -26.743  -8.470  1.00 25.00           C
ATOM     74  CA  SER    74      30.857 -26.476  -9.862  1.00 25.00           C
ATOM     75  CA  ARG    75      31.990 -23.755 -12.306  1.00 25.00           C
ATOM     76  CA  ALA    76      34.915 -25.954 -13.436  1.00 25.00           C
ATOM     77  CA  ALA    77      37.425 -28.577 -12.276  1.00 25.00           C
ATOM     78  CA  LYS    78      39.870 -29.193  -9.466  1.00 25.00           C
ATOM     79  CA  ALA    79      39.791 -26.347  -6.905  1.00 25.00           C
ATOM     80  CA  VAL    80      40.440 -28.844  -4.075  1.00 25.00           C
ATOM     81  CA  THR    81      41.530 -32.133  -2.605  1.00 25.00           C
ATOM     82  CA  GLU    82      44.145 -30.251  -0.607  1.00 25.00           C
ATOM     83  CA  GLN    83      45.675 -32.642   1.963  1.00 25.00           C
ATOM     84  CA  GLU    84      45.633 -29.868   4.604  1.00 25.00           C
ATOM     85  CA  LEU    85      41.958 -29.135   3.810  1.00 25.00           C
ATOM     86  CA  THR    86      41.120 -32.857   4.140  1.00 25.00           C
ATOM     87  CA  SER    87      42.927 -32.992   7.513  1.00 25.00           C
ATOM     88  CA  LEU    88      40.981 -29.917   8.707  1.00 25.00           C
ATOM     89  CA  LEU    89      37.691 -31.545   7.612  1.00 25.00           C
ATOM     90  CA  GLN    90      38.623 -34.749   9.493  1.00 25.00           C
ATOM     91  CA  SER    91      38.336 -37.236   6.673  1.00 25.00           C
ATOM     92  CA  LEU    92      34.619 -36.256   6.703  1.00 25.00           C
ATOM     93  CA  THR    93      32.324 -38.272   4.378  1.00 25.00           C
ATOM     94  CA  LEU    94      29.598 -36.881   6.639  1.00 25.00           C
ATOM     95  CA  ARG    95      26.640 -37.063   9.067  1.00 25.00           C
ATOM     96  CA  VAL    96      23.989 -34.602  10.268  1.00 25.00           C
ATOM     97  CA  ASP    97      21.139 -35.245  12.660  1.00 25.00           C
ATOM     98  CA  VAL    98      18.710 -32.397  13.576  1.00 25.00           C
ATOM     99  CA  SER    99      15.687 -31.509  15.696  1.00 25.00           C
ATOM    100  CA  MET   100      12.699 -33.547  16.886  1.00 25.00           C
ATOM    101  CA  GLU   101      11.121 -32.766  13.457  1.00 25.00           C
ATOM    102  CA  GLU   102      11.320 -33.914   9.877  1.00 25.00           C
TER
END
