
#######################################################
#                                                     #
#                        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   93 (   93),  selected   93 , name T0288TS393_3
# Molecule2: number of CA atoms   91 (  667),  selected   91 , name T0288
# PARAMETERS: T0288TS393_3.T0288  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      S       1           -
LGA    S       1      M       2           #
LGA    M       2      -       -           -
LGA    V       3      V       3          6.515
LGA    P       4      P       4          2.297
LGA    G       5      G       5          2.301
LGA    K       6      K       6          2.381
LGA    V       7      V       7          2.843
LGA    T       8      T       8          2.840
LGA    L       9      L       9          1.814
LGA    Q      10      Q      10          1.747
LGA    K      11      K      11          1.740
LGA    D      12      D      12          3.780
LGA    A      13      A      13          2.316
LGA    Q      14      Q      14          1.929
LGA    N      15      N      15          1.171
LGA    L      16      L      16          1.832
LGA    I      17      I      17          0.752
LGA    G      18      G      18          0.166
LGA    I      19      I      19          0.482
LGA    S      20      S      20          1.347
LGA    I      21      I      21          2.425
LGA    G      22      G      22          1.735
LGA    G      23      G      23          1.922
LGA    G      24      G      24          1.745
LGA    A      25      A      25           #
LGA    Q      26      Q      26          1.934
LGA    Y      27      P      29          4.421
LGA    C      28      -       -           -
LGA    P      29      -       -           -
LGA    C      30      C      30          2.237
LGA    L      31      L      31          0.293
LGA    Y      32      Y      32          1.180
LGA    I      33      I      33          1.606
LGA    V      34      V      34          1.774
LGA    Q      35      Q      35          0.811
LGA    V      36      V      36          2.568
LGA    F      37      F      37          2.009
LGA    D      38      D      38          1.441
LGA    N      39      N      39          0.864
LGA    T      40      T      40          1.490
LGA    P      41      P      41          0.570
LGA    A      42      A      42          0.688
LGA    A      43      A      43          2.113
LGA    L      44      L      44          3.130
LGA    D      45      D      45          2.445
LGA    G      46      G      46          2.191
LGA    T      47      T      47          1.151
LGA    V      48      V      48          1.410
LGA    A      49      A      49          0.346
LGA    A      50      A      50          0.823
LGA    G      51      G      51          1.740
LGA    D      52      D      52          1.834
LGA    E      53      E      53          0.607
LGA    I      54      I      54          1.658
LGA    T      55      T      55          2.414
LGA    G      56      G      56          1.752
LGA    V      57      V      57          1.768
LGA    N      58      N      58          0.638
LGA    G      59      G      59          2.250
LGA    R      60      R      60          2.994
LGA    S      61      S      61          2.696
LGA    I      62      I      62          1.258
LGA    K      63      K      63          1.729
LGA    G      64      G      64          1.473
LGA    K      65      K      65          1.751
LGA    T      66      T      66          1.414
LGA    K      67      K      67          0.600
LGA    V      68      V      68          1.089
LGA    E      69      E      69          1.554
LGA    V      70      V      70          1.059
LGA    A      71      A      71          0.468
LGA    K      72      K      72          1.546
LGA    M      73      M      73          1.379
LGA    I      74      I      74          0.570
LGA    Q      75      Q      75          1.433
LGA    E      76      E      76          2.112
LGA    V      77      V      77          0.985
LGA    K      78      K      78          2.132
LGA    G      79      G      79          1.746
LGA    E      80      E      80          3.145
LGA    V      81      V      81          0.535
LGA    T      82      T      82          0.525
LGA    I      83      I      83          0.577
LGA    H      84      H      84          0.900
LGA    Y      85      Y      85          1.005
LGA    N      86      N      86          1.907
LGA    K      87      K      87          3.398
LGA    L      88      L      88          1.269
LGA    Q      89      Q      89          1.835
LGA    Y      90      Y      90          4.937
LGA    Y      91      Y      91          6.792
LGA    K      92      K      92           -
LGA    V      93      V      93           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   93   91    5.0     86    2.14    98.84     83.864     3.831

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.569935 * X  +   0.161811 * Y  +  -0.805600 * Z  +  27.551334
  Y_new =   0.269825 * X  +  -0.889195 * Y  +  -0.369494 * Z  +  17.438181
  Z_new =  -0.776124 * X  +  -0.427959 * Y  +   0.463123 * Z  +  13.166636 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.745956    2.395637  [ DEG:   -42.7401    137.2599 ]
  Theta =   0.888496    2.253097  [ DEG:    50.9070    129.0930 ]
  Phi   =   2.699426   -0.442167  [ DEG:   154.6657    -25.3343 ]
 
# 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: T0288TS393_3                                  
REMARK     2: T0288                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0288TS393_3.T0288 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   93   91   5.0   86   2.14   98.84  83.864
REMARK  ---------------------------------------------------------- 
MOLECULE T0288TS393_3
PFRMAT TS
TARGET T0288
MODEL 3
PARENT N/A
ATOM      1  CA  SER     1      24.638  14.292  33.127  1.00 25.00           C
ATOM      2  CA  MET     2      25.690  12.886  29.807  1.00 25.00           C
ATOM      3  CA  VAL     3      22.891  12.233  27.367  1.00 25.00           C
ATOM      4  CA  PRO     4      24.600  13.732  24.331  1.00 25.00           C
ATOM      5  CA  GLY     5      22.896  17.169  24.727  1.00 25.00           C
ATOM      6  CA  LYS     6      21.603  18.630  21.428  1.00 25.00           C
ATOM      7  CA  VAL     7      22.065  21.886  19.587  1.00 25.00           C
ATOM      8  CA  THR     8      18.907  22.496  17.538  1.00 25.00           C
ATOM      9  CA  LEU     9      20.523  24.042  14.470  1.00 25.00           C
ATOM     10  CA  GLN    10      17.712  25.450  12.290  1.00 25.00           C
ATOM     11  CA  LYS    11      19.097  25.929   8.847  1.00 25.00           C
ATOM     12  CA  ASP    12      16.542  28.284   7.429  1.00 25.00           C
ATOM     13  CA  ALA    13      18.389  29.099   4.225  1.00 25.00           C
ATOM     14  CA  GLN    14      21.881  29.478   2.769  1.00 25.00           C
ATOM     15  CA  ASN    15      22.111  25.690   2.389  1.00 25.00           C
ATOM     16  CA  LEU    16      22.571  23.910   5.701  1.00 25.00           C
ATOM     17  CA  ILE    17      23.869  24.158   9.266  1.00 25.00           C
ATOM     18  CA  GLY    18      27.206  25.879   8.941  1.00 25.00           C
ATOM     19  CA  ILE    19      29.227  22.805   9.843  1.00 25.00           C
ATOM     20  CA  SER    20      31.190  20.720   7.385  1.00 25.00           C
ATOM     21  CA  ILE    21      31.060  16.917   6.876  1.00 25.00           C
ATOM     22  CA  GLY    22      34.795  16.199   7.524  1.00 25.00           C
ATOM     23  CA  GLY    23      36.309  12.837   8.610  1.00 25.00           C
ATOM     24  CA  GLY    24      38.361   9.712   7.762  1.00 25.00           C
ATOM     25  CA  ALA    25      37.495   6.105   7.027  1.00 25.00           C
ATOM     26  CA  GLN    26      40.404   4.982   9.216  1.00 25.00           C
ATOM     27  CA  TYR    27      39.216   6.777  12.382  1.00 25.00           C
ATOM     28  CA  CYS    28      36.827   5.183  14.870  1.00 25.00           C
ATOM     29  CA  PRO    29      33.487   5.551  13.012  1.00 25.00           C
ATOM     30  CA  CYS    30      32.090   8.846  14.342  1.00 25.00           C
ATOM     31  CA  LEU    31      32.985  11.908  12.276  1.00 25.00           C
ATOM     32  CA  TYR    32      34.079  15.476  12.714  1.00 25.00           C
ATOM     33  CA  ILE    33      33.147  18.999  11.764  1.00 25.00           C
ATOM     34  CA  VAL    34      36.292  20.400  10.144  1.00 25.00           C
ATOM     35  CA  GLN    35      35.366  23.927  11.232  1.00 25.00           C
ATOM     36  CA  VAL    36      32.682  26.413  10.385  1.00 25.00           C
ATOM     37  CA  PHE    37      31.641  29.531   8.388  1.00 25.00           C
ATOM     38  CA  ASP    38      30.484  32.824   9.965  1.00 25.00           C
ATOM     39  CA  ASN    39      26.687  33.449   9.973  1.00 25.00           C
ATOM     40  CA  THR    40      24.243  30.632   9.390  1.00 25.00           C
ATOM     41  CA  PRO    41      22.189  28.834  12.119  1.00 25.00           C
ATOM     42  CA  ALA    42      25.206  27.106  13.739  1.00 25.00           C
ATOM     43  CA  ALA    43      28.622  28.836  13.641  1.00 25.00           C
ATOM     44  CA  LEU    44      27.156  31.885  15.437  1.00 25.00           C
ATOM     45  CA  ASP    45      24.860  30.081  17.787  1.00 25.00           C
ATOM     46  CA  GLY    46      27.702  27.566  18.414  1.00 25.00           C
ATOM     47  CA  THR    47      26.885  24.399  20.355  1.00 25.00           C
ATOM     48  CA  VAL    48      28.096  22.740  17.153  1.00 25.00           C
ATOM     49  CA  ALA    49      31.599  23.076  18.441  1.00 25.00           C
ATOM     50  CA  ALA    50      34.713  22.739  16.315  1.00 25.00           C
ATOM     51  CA  GLY    51      36.817  19.551  16.587  1.00 25.00           C
ATOM     52  CA  ASP    52      33.427  17.853  17.071  1.00 25.00           C
ATOM     53  CA  GLU    53      31.678  14.419  17.302  1.00 25.00           C
ATOM     54  CA  ILE    54      29.131  14.879  14.503  1.00 25.00           C
ATOM     55  CA  THR    55      26.356  12.295  14.833  1.00 25.00           C
ATOM     56  CA  GLY    56      22.890  12.015  13.345  1.00 25.00           C
ATOM     57  CA  VAL    57      20.756  13.708  10.669  1.00 25.00           C
ATOM     58  CA  ASN    58      17.257  12.899  11.880  1.00 25.00           C
ATOM     59  CA  GLY    59      17.472   9.276  13.074  1.00 25.00           C
ATOM     60  CA  ARG    60      19.951   8.681  10.188  1.00 25.00           C
ATOM     61  CA  SER    61      22.870   6.392  11.178  1.00 25.00           C
ATOM     62  CA  ILE    62      26.339   7.753  11.992  1.00 25.00           C
ATOM     63  CA  LYS    63      28.180   4.894  13.784  1.00 25.00           C
ATOM     64  CA  GLY    64      29.023   3.283  10.442  1.00 25.00           C
ATOM     65  CA  LYS    65      29.352   6.254   8.077  1.00 25.00           C
ATOM     66  CA  THR    66      32.368   7.148   5.992  1.00 25.00           C
ATOM     67  CA  LYS    67      32.133  10.886   6.357  1.00 25.00           C
ATOM     68  CA  VAL    68      30.547  10.616   2.882  1.00 25.00           C
ATOM     69  CA  GLU    69      27.406   9.047   4.410  1.00 25.00           C
ATOM     70  CA  VAL    70      27.218  11.874   6.986  1.00 25.00           C
ATOM     71  CA  ALA    71      27.559  14.474   4.195  1.00 25.00           C
ATOM     72  CA  LYS    72      24.764  12.755   2.219  1.00 25.00           C
ATOM     73  CA  MET    73      22.527  12.765   5.328  1.00 25.00           C
ATOM     74  CA  ILE    74      23.234  16.492   5.855  1.00 25.00           C
ATOM     75  CA  GLN    75      22.359  17.200   2.194  1.00 25.00           C
ATOM     76  CA  GLU    76      19.090  15.240   2.571  1.00 25.00           C
ATOM     77  CA  VAL    77      17.603  17.565   5.168  1.00 25.00           C
ATOM     78  CA  LYS    78      17.025  21.223   4.458  1.00 25.00           C
ATOM     79  CA  GLY    79      14.332  21.769   7.146  1.00 25.00           C
ATOM     80  CA  GLU    80      14.624  19.157   9.943  1.00 25.00           C
ATOM     81  CA  VAL    81      18.384  18.642  10.201  1.00 25.00           C
ATOM     82  CA  THR    82      18.436  17.561  13.877  1.00 25.00           C
ATOM     83  CA  ILE    83      22.168  17.199  14.554  1.00 25.00           C
ATOM     84  CA  HIS    84      22.667  14.941  17.540  1.00 25.00           C
ATOM     85  CA  TYR    85      26.194  15.890  18.767  1.00 25.00           C
ATOM     86  CA  ASN    86      28.966  15.850  21.363  1.00 25.00           C
ATOM     87  CA  LYS    87      31.681  13.331  22.249  1.00 25.00           C
ATOM     88  CA  LEU    88      34.612  15.667  23.152  1.00 25.00           C
ATOM     89  CA  GLN    89      35.958  15.954  26.706  1.00 25.00           C
ATOM     90  CA  TYR    90      39.086  15.733  28.829  1.00 25.00           C
ATOM     91  CA  TYR    91      42.163  14.350  30.557  1.00 25.00           C
ATOM     92  CA  LYS    92      44.770  11.649  31.085  1.00 25.00           C
ATOM     93  CA  VAL    93      42.323   9.655  33.311  1.00 25.00           C
TER
END
