
#######################################################
#                                                     #
#                        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 T0288TS168_1
# Molecule2: number of CA atoms   91 (  667),  selected   91 , name T0288
# PARAMETERS: T0288TS168_1.T0288  -4  -ie  -d:5  -o1  -sia  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    S       1      S       1           -
LGA    M       2      M       2           -
LGA    V       3      V       3          5.447
LGA    P       4      P       4          2.637
LGA    G       5      G       5          2.063
LGA    K       6      K       6          1.778
LGA    V       7      V       7          0.717
LGA    T       8      T       8          1.714
LGA    L       9      L       9          0.868
LGA    Q      10      Q      10          1.173
LGA    K      11      K      11          1.972
LGA    D      12      D      12          0.871
LGA    A      13      A      13          1.572
LGA    Q      14      Q      14          1.158
LGA    N      15      N      15          0.795
LGA    L      16      L      16          1.354
LGA    I      17      I      17          1.095
LGA    G      18      G      18          1.115
LGA    I      19      I      19          0.354
LGA    S      20      S      20          0.647
LGA    I      21      I      21          1.191
LGA    G      22      G      22          1.062
LGA    G      23      G      23          1.482
LGA    G      24      G      24          2.229
LGA    A      25      -       -           -
LGA    Q      26      A      25          3.460
LGA    Y      27      Q      26          3.874
LGA    C      28      P      29          3.355
LGA    P      29      C      30          3.211
LGA    C      30      -       -           -
LGA    L      31      L      31          1.301
LGA    Y      32      Y      32          1.559
LGA    I      33      I      33          0.798
LGA    V      34      V      34          0.631
LGA    Q      35      Q      35          0.503
LGA    V      36      V      36          0.432
LGA    F      37      F      37          1.394
LGA    D      38      D      38          1.824
LGA    N      39      N      39          0.377
LGA    T      40      T      40          2.189
LGA    P      41      P      41          1.996
LGA    A      42      A      42          0.418
LGA    A      43      A      43          0.305
LGA    L      44      L      44          1.365
LGA    D      45      D      45          1.667
LGA    G      46      G      46          1.131
LGA    T      47      T      47          1.960
LGA    V      48      V      48          1.795
LGA    A      49      A      49          1.068
LGA    A      50      A      50          0.550
LGA    G      51      G      51          0.771
LGA    D      52      D      52          0.927
LGA    E      53      E      53          0.843
LGA    I      54      I      54          0.953
LGA    T      55      T      55          1.305
LGA    G      56      G      56          1.334
LGA    V      57      V      57          4.586
LGA    N      58      N      58          0.950
LGA    G      59      G      59          3.819
LGA    R      60      R      60          3.090
LGA    S      61      S      61          2.446
LGA    I      62      I      62          1.469
LGA    K      63      K      63          2.466
LGA    G      64      G      64          2.072
LGA    K      65      K      65          1.683
LGA    T      66      T      66          0.246
LGA    K      67      K      67          0.411
LGA    V      68      V      68          0.622
LGA    E      69      E      69          0.398
LGA    V      70      V      70          0.728
LGA    A      71      A      71          0.795
LGA    K      72      K      72          0.582
LGA    M      73      M      73          0.874
LGA    I      74      I      74          1.444
LGA    Q      75      Q      75          1.021
LGA    E      76      E      76          0.776
LGA    V      77      V      77          0.548
LGA    K      78      K      78          1.646
LGA    G      79      G      79          2.863
LGA    E      80      E      80          2.389
LGA    V      81      V      81          1.136
LGA    T      82      T      82          1.402
LGA    I      83      I      83          0.999
LGA    H      84      H      84          1.418
LGA    Y      85      Y      85          1.019
LGA    N      86      N      86          1.093
LGA    K      87      K      87          1.090
LGA    L      88      L      88          2.824
LGA    Q      89      Q      89          1.853
LGA    Y      90      Y      90          2.600
LGA    Y      91      Y      91          3.009
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     87    1.83    95.40     86.384     4.512

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.840835 * X  +  -0.540458 * Y  +  -0.030019 * Z  +  27.588335
  Y_new =  -0.540019 * X  +  -0.833768 * Y  +  -0.114934 * Z  +  17.509363
  Z_new =   0.037089 * X  +   0.112851 * Y  +  -0.992919 * Z  +  13.157452 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   3.028422   -0.113171  [ DEG:   173.5158     -6.4842 ]
  Theta =  -0.037097   -3.104496  [ DEG:    -2.1255   -177.8745 ]
  Phi   =  -0.570901    2.570691  [ DEG:   -32.7102    147.2898 ]
 
# 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: T0288TS168_1                                  
REMARK     2: T0288                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0288TS168_1.T0288 -4 -ie -d:5 -o1 -sia 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   93   91   5.0   87   1.83   95.40  86.384
REMARK  ---------------------------------------------------------- 
MOLECULE T0288TS168_1
PFRMAT TS
TARGET T0288
MODEL 1
PARENT N/A
ATOM      1  CA  SER     1      24.149  13.335  32.946  1.00 25.00           C
ATOM      2  CA  MET     2      26.593  11.239  30.961  1.00 25.00           C
ATOM      3  CA  VAL     3      26.044  12.226  27.389  1.00 25.00           C
ATOM      4  CA  PRO     4      24.604  13.355  24.075  1.00 25.00           C
ATOM      5  CA  GLY     5      23.600  17.047  24.278  1.00 25.00           C
ATOM      6  CA  LYS     6      21.639  18.026  21.148  1.00 25.00           C
ATOM      7  CA  VAL     7      20.847  19.975  17.910  1.00 25.00           C
ATOM      8  CA  THR     8      18.355  22.333  16.247  1.00 25.00           C
ATOM      9  CA  LEU     9      20.043  23.998  13.270  1.00 25.00           C
ATOM     10  CA  GLN    10      17.026  25.674  11.723  1.00 25.00           C
ATOM     11  CA  LYS    11      18.859  26.874   8.595  1.00 25.00           C
ATOM     12  CA  ASP    12      19.274  29.525   5.920  1.00 25.00           C
ATOM     13  CA  ALA    13      17.699  29.969   2.467  1.00 25.00           C
ATOM     14  CA  GLN    14      21.174  28.853   1.237  1.00 25.00           C
ATOM     15  CA  ASN    15      20.342  25.454   2.817  1.00 25.00           C
ATOM     16  CA  LEU    16      22.734  24.418   5.601  1.00 25.00           C
ATOM     17  CA  ILE    17      23.514  23.779   9.309  1.00 25.00           C
ATOM     18  CA  GLY    18      26.925  25.166   8.352  1.00 25.00           C
ATOM     19  CA  ILE    19      29.611  22.808   9.672  1.00 25.00           C
ATOM     20  CA  SER    20      32.793  21.500   8.117  1.00 25.00           C
ATOM     21  CA  ILE    21      32.762  17.770   7.622  1.00 25.00           C
ATOM     22  CA  GLY    22      35.913  15.671   7.773  1.00 25.00           C
ATOM     23  CA  GLY    23      36.603  12.150   8.933  1.00 25.00           C
ATOM     24  CA  GLY    24      35.827   8.689  10.417  1.00 25.00           C
ATOM     25  CA  ALA    25      35.210   5.427   8.492  1.00 25.00           C
ATOM     26  CA  GLN    26      38.955   5.574   7.841  1.00 25.00           C
ATOM     27  CA  TYR    27      40.343   6.308  11.336  1.00 25.00           C
ATOM     28  CA  CYS    28      37.552   5.339  13.742  1.00 25.00           C
ATOM     29  CA  PRO    29      33.817   5.121  14.253  1.00 25.00           C
ATOM     30  CA  CYS    30      32.731   8.808  14.532  1.00 25.00           C
ATOM     31  CA  LEU    31      31.788  11.444  11.966  1.00 25.00           C
ATOM     32  CA  TYR    32      33.726  14.712  12.202  1.00 25.00           C
ATOM     33  CA  ILE    33      33.338  18.517  12.688  1.00 25.00           C
ATOM     34  CA  VAL    34      36.278  20.880  12.149  1.00 25.00           C
ATOM     35  CA  GLN    35      34.978  24.417  11.767  1.00 25.00           C
ATOM     36  CA  VAL    36      31.932  26.393  12.852  1.00 25.00           C
ATOM     37  CA  PHE    37      30.399  29.432  11.181  1.00 25.00           C
ATOM     38  CA  ASP    38      30.505  32.854   9.575  1.00 25.00           C
ATOM     39  CA  ASN    39      26.888  33.836  10.283  1.00 25.00           C
ATOM     40  CA  THR    40      26.143  30.809   8.152  1.00 25.00           C
ATOM     41  CA  PRO    41      24.300  28.870  10.924  1.00 25.00           C
ATOM     42  CA  ALA    42      25.532  26.467  13.584  1.00 25.00           C
ATOM     43  CA  ALA    43      26.978  29.703  15.068  1.00 25.00           C
ATOM     44  CA  LEU    44      23.272  30.448  15.765  1.00 25.00           C
ATOM     45  CA  ASP    45      22.099  27.349  17.566  1.00 25.00           C
ATOM     46  CA  GLY    46      25.336  27.730  19.580  1.00 25.00           C
ATOM     47  CA  THR    47      26.294  24.120  19.054  1.00 25.00           C
ATOM     48  CA  VAL    48      29.157  22.658  17.053  1.00 25.00           C
ATOM     49  CA  ALA    49      32.179  23.860  19.058  1.00 25.00           C
ATOM     50  CA  ALA    50      34.846  22.054  16.975  1.00 25.00           C
ATOM     51  CA  GLY    51      36.214  18.478  17.030  1.00 25.00           C
ATOM     52  CA  ASP    52      32.690  17.194  17.689  1.00 25.00           C
ATOM     53  CA  GLU    53      31.517  13.716  16.633  1.00 25.00           C
ATOM     54  CA  ILE    54      28.267  13.982  14.565  1.00 25.00           C
ATOM     55  CA  THR    55      25.929  11.134  15.573  1.00 25.00           C
ATOM     56  CA  GLY    56      22.224  11.214  14.636  1.00 25.00           C
ATOM     57  CA  VAL    57      18.827  12.399  15.869  1.00 25.00           C
ATOM     58  CA  ASN    58      17.339  14.020  12.766  1.00 25.00           C
ATOM     59  CA  GLY    59      17.924  10.624  11.224  1.00 25.00           C
ATOM     60  CA  ARG    60      19.372   7.398   9.950  1.00 25.00           C
ATOM     61  CA  SER    61      22.759   6.312  11.428  1.00 25.00           C
ATOM     62  CA  ILE    62      25.786   8.467  10.847  1.00 25.00           C
ATOM     63  CA  LYS    63      27.819   6.372  13.280  1.00 25.00           C
ATOM     64  CA  GLY    64      28.526   3.246  11.203  1.00 25.00           C
ATOM     65  CA  LYS    65      29.251   5.613   8.403  1.00 25.00           C
ATOM     66  CA  THR    66      31.288   6.986   5.532  1.00 25.00           C
ATOM     67  CA  LYS    67      32.167  10.604   6.191  1.00 25.00           C
ATOM     68  CA  VAL    68      31.162  11.291   2.561  1.00 25.00           C
ATOM     69  CA  GLU    69      27.706   9.772   3.204  1.00 25.00           C
ATOM     70  CA  VAL    70      27.300  11.956   6.323  1.00 25.00           C
ATOM     71  CA  ALA    71      28.285  15.061   4.308  1.00 25.00           C
ATOM     72  CA  LYS    72      25.738  14.141   1.600  1.00 25.00           C
ATOM     73  CA  MET    73      23.025  13.700   4.268  1.00 25.00           C
ATOM     74  CA  ILE    74      23.903  17.116   5.761  1.00 25.00           C
ATOM     75  CA  GLN    75      23.699  18.715   2.288  1.00 25.00           C
ATOM     76  CA  GLU    76      20.280  17.088   1.712  1.00 25.00           C
ATOM     77  CA  VAL    77      17.787  17.389   4.611  1.00 25.00           C
ATOM     78  CA  LYS    78      15.110  20.028   5.106  1.00 25.00           C
ATOM     79  CA  GLY    79      13.185  21.426   8.076  1.00 25.00           C
ATOM     80  CA  GLU    80      15.035  20.964  11.303  1.00 25.00           C
ATOM     81  CA  VAL    81      18.518  20.070  10.221  1.00 25.00           C
ATOM     82  CA  THR    82      19.949  18.292  13.261  1.00 25.00           C
ATOM     83  CA  ILE    83      23.448  17.109  14.159  1.00 25.00           C
ATOM     84  CA  HIS    84      24.202  15.544  17.554  1.00 25.00           C
ATOM     85  CA  TYR    85      27.535  15.705  19.260  1.00 25.00           C
ATOM     86  CA  ASN    86      29.406  13.067  21.246  1.00 25.00           C
ATOM     87  CA  LYS    87      31.240  16.109  22.709  1.00 25.00           C
ATOM     88  CA  LEU    88      34.927  17.189  22.513  1.00 25.00           C
ATOM     89  CA  GLN    89      38.054  16.583  24.591  1.00 25.00           C
ATOM     90  CA  TYR    90      40.792  17.364  27.108  1.00 25.00           C
ATOM     91  CA  TYR    91      44.407  16.970  28.118  1.00 25.00           C
ATOM     92  CA  LYS    92      45.434  13.659  29.662  1.00 25.00           C
ATOM     93  CA  VAL    93      46.319  11.402  32.619  1.00 25.00           C
TER
END
