
#######################################################
#                                                     #
#                        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_3
# Molecule2: number of CA atoms   91 (  667),  selected   91 , name T0288
# PARAMETERS: T0288TS168_3.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      -       -           -
LGA    V       3      M       2           #
LGA    -       -      V       3           -
LGA    P       4      P       4          2.808
LGA    G       5      G       5          1.645
LGA    K       6      K       6          1.470
LGA    V       7      V       7          1.455
LGA    T       8      T       8          1.739
LGA    L       9      L       9          1.694
LGA    Q      10      Q      10          1.566
LGA    K      11      K      11          1.577
LGA    D      12      D      12          2.128
LGA    A      13      A      13          0.246
LGA    Q      14      Q      14          0.076
LGA    N      15      N      15          0.859
LGA    L      16      L      16          1.115
LGA    I      17      I      17          0.435
LGA    G      18      G      18          0.379
LGA    I      19      I      19          2.848
LGA    S      20      S      20          1.308
LGA    I      21      I      21          1.645
LGA    G      22      G      22          2.003
LGA    G      23      G      23          4.207
LGA    G      24      G      24          1.420
LGA    A      25      -       -           -
LGA    Q      26      -       -           -
LGA    Y      27      A      25          0.982
LGA    C      28      Q      26          5.982
LGA    P      29      P      29          2.109
LGA    C      30      C      30          1.584
LGA    L      31      L      31          2.437
LGA    Y      32      Y      32          2.712
LGA    I      33      I      33          1.029
LGA    V      34      V      34          1.029
LGA    Q      35      Q      35          0.180
LGA    V      36      V      36          0.618
LGA    F      37      F      37          1.149
LGA    D      38      D      38          0.835
LGA    N      39      N      39          0.894
LGA    T      40      T      40          1.735
LGA    P      41      P      41          1.466
LGA    A      42      A      42          0.820
LGA    A      43      A      43          1.013
LGA    L      44      L      44          2.213
LGA    D      45      D      45          2.091
LGA    G      46      G      46          0.829
LGA    T      47      T      47          1.199
LGA    V      48      V      48          0.894
LGA    A      49      A      49          0.968
LGA    A      50      A      50          1.280
LGA    G      51      G      51          1.693
LGA    D      52      D      52          1.333
LGA    E      53      E      53          1.658
LGA    I      54      I      54          0.919
LGA    T      55      T      55          1.561
LGA    G      56      G      56          2.539
LGA    V      57      V      57          1.714
LGA    N      58      N      58          0.551
LGA    G      59      G      59          1.283
LGA    R      60      R      60          1.000
LGA    S      61      S      61          1.167
LGA    I      62      I      62          1.478
LGA    K      63      K      63          2.495
LGA    G      64      G      64          2.163
LGA    K      65      K      65          1.419
LGA    T      66      T      66          1.108
LGA    K      67      K      67          1.003
LGA    V      68      V      68          1.373
LGA    E      69      E      69          1.096
LGA    V      70      V      70          0.481
LGA    A      71      A      71          0.641
LGA    K      72      K      72          0.899
LGA    M      73      M      73          0.792
LGA    I      74      I      74          0.827
LGA    Q      75      Q      75          0.557
LGA    E      76      E      76          1.101
LGA    V      77      V      77          0.978
LGA    K      78      K      78          1.093
LGA    G      79      G      79          1.583
LGA    E      80      E      80          0.831
LGA    V      81      V      81          1.897
LGA    T      82      T      82          0.461
LGA    I      83      I      83          0.439
LGA    H      84      H      84          0.451
LGA    Y      85      Y      85          1.107
LGA    N      86      N      86          0.842
LGA    K      87      K      87          1.047
LGA    L      88      L      88          1.599
LGA    Q      89      Q      89          1.264
LGA    Y      90      Y      90          4.068
LGA    Y      91      Y      91          3.722
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    1.70    97.67     86.469     4.773

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.201925 * X  +  -0.803795 * Y  +   0.559589 * Z  +  27.652470
  Y_new =   0.642397 * X  +   0.539982 * Y  +   0.543825 * Z  +  17.433279
  Z_new =  -0.739292 * X  +   0.249667 * Y  +   0.625391 * Z  +  13.048042 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.379831   -2.761762  [ DEG:    21.7627   -158.2373 ]
  Theta =   0.832018    2.309575  [ DEG:    47.6711    132.3289 ]
  Phi   =   1.266245   -1.875348  [ DEG:    72.5505   -107.4495 ]
 
# 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_3                                  
REMARK     2: T0288                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0288TS168_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   1.70   97.67  86.469
REMARK  ---------------------------------------------------------- 
MOLECULE T0288TS168_3
PFRMAT TS
TARGET T0288
MODEL 3
PARENT N/A
ATOM      1  CA  SER     1      24.584   8.838  31.970  1.00 25.00           C
ATOM      2  CA  MET     2      25.605  11.824  29.844  1.00 25.00           C
ATOM      3  CA  VAL     3      25.431  10.075  26.445  1.00 25.00           C
ATOM      4  CA  PRO     4      24.348  13.230  24.562  1.00 25.00           C
ATOM      5  CA  GLY     5      21.915  16.127  24.326  1.00 25.00           C
ATOM      6  CA  LYS     6      20.949  17.730  21.024  1.00 25.00           C
ATOM      7  CA  VAL     7      21.650  20.427  18.487  1.00 25.00           C
ATOM      8  CA  THR     8      18.676  21.862  16.623  1.00 25.00           C
ATOM      9  CA  LEU     9      20.489  24.267  14.213  1.00 25.00           C
ATOM     10  CA  GLN    10      17.781  25.910  12.054  1.00 25.00           C
ATOM     11  CA  LYS    11      18.515  26.392   8.389  1.00 25.00           C
ATOM     12  CA  ASP    12      17.848  29.314   6.031  1.00 25.00           C
ATOM     13  CA  ALA    13      19.321  30.447   2.720  1.00 25.00           C
ATOM     14  CA  GLN    14      22.335  28.712   1.124  1.00 25.00           C
ATOM     15  CA  ASN    15      21.332  25.687   3.082  1.00 25.00           C
ATOM     16  CA  LEU    16      24.418  24.427   4.808  1.00 25.00           C
ATOM     17  CA  ILE    17      24.036  24.463   8.575  1.00 25.00           C
ATOM     18  CA  GLY    18      27.423  26.186   8.664  1.00 25.00           C
ATOM     19  CA  ILE    19      29.562  23.490   7.019  1.00 25.00           C
ATOM     20  CA  SER    20      32.898  21.699   7.108  1.00 25.00           C
ATOM     21  CA  ILE    21      32.887  17.897   7.204  1.00 25.00           C
ATOM     22  CA  GLY    22      36.387  16.504   7.171  1.00 25.00           C
ATOM     23  CA  GLY    23      35.713  12.873   6.331  1.00 25.00           C
ATOM     24  CA  GLY    24      36.050  10.141   8.913  1.00 25.00           C
ATOM     25  CA  ALA    25      35.644   6.418   8.075  1.00 25.00           C
ATOM     26  CA  GLN    26      39.389   5.803   7.381  1.00 25.00           C
ATOM     27  CA  TYR    27      41.106   8.311   9.732  1.00 25.00           C
ATOM     28  CA  CYS    28      38.680   7.270  12.510  1.00 25.00           C
ATOM     29  CA  PRO    29      35.302   5.847  13.447  1.00 25.00           C
ATOM     30  CA  CYS    30      33.001   8.788  12.696  1.00 25.00           C
ATOM     31  CA  LEU    31      30.786  11.584  11.306  1.00 25.00           C
ATOM     32  CA  TYR    32      33.037  14.638  11.118  1.00 25.00           C
ATOM     33  CA  ILE    33      33.274  18.217  12.489  1.00 25.00           C
ATOM     34  CA  VAL    34      35.950  20.402  10.861  1.00 25.00           C
ATOM     35  CA  GLN    35      34.751  23.860  11.889  1.00 25.00           C
ATOM     36  CA  VAL    36      31.763  26.125  12.126  1.00 25.00           C
ATOM     37  CA  PHE    37      32.320  29.435  10.418  1.00 25.00           C
ATOM     38  CA  ASP    38      30.271  32.636  10.606  1.00 25.00           C
ATOM     39  CA  ASN    39      26.622  33.511  11.240  1.00 25.00           C
ATOM     40  CA  THR    40      24.760  31.295   8.848  1.00 25.00           C
ATOM     41  CA  PRO    41      24.091  28.686  11.594  1.00 25.00           C
ATOM     42  CA  ALA    42      25.659  25.806  13.573  1.00 25.00           C
ATOM     43  CA  ALA    43      26.762  28.844  15.658  1.00 25.00           C
ATOM     44  CA  LEU    44      23.229  29.578  16.768  1.00 25.00           C
ATOM     45  CA  ASP    45      22.458  27.829  20.121  1.00 25.00           C
ATOM     46  CA  GLY    46      26.179  28.549  20.710  1.00 25.00           C
ATOM     47  CA  THR    47      26.674  24.880  20.128  1.00 25.00           C
ATOM     48  CA  VAL    48      28.911  22.108  18.673  1.00 25.00           C
ATOM     49  CA  ALA    49      32.546  22.692  17.723  1.00 25.00           C
ATOM     50  CA  ALA    50      36.055  21.453  16.929  1.00 25.00           C
ATOM     51  CA  GLY    51      36.814  17.811  16.481  1.00 25.00           C
ATOM     52  CA  ASP    52      33.541  16.698  18.025  1.00 25.00           C
ATOM     53  CA  GLU    53      31.706  14.167  15.811  1.00 25.00           C
ATOM     54  CA  ILE    54      28.016  13.929  14.844  1.00 25.00           C
ATOM     55  CA  THR    55      25.800  10.774  15.061  1.00 25.00           C
ATOM     56  CA  GLY    56      23.659  11.303  11.950  1.00 25.00           C
ATOM     57  CA  VAL    57      20.896  13.530  10.579  1.00 25.00           C
ATOM     58  CA  ASN    58      17.677  12.658  12.364  1.00 25.00           C
ATOM     59  CA  GLY    59      17.213   9.382  14.271  1.00 25.00           C
ATOM     60  CA  ARG    60      20.129   7.579  12.658  1.00 25.00           C
ATOM     61  CA  SER    61      23.693   6.407  13.379  1.00 25.00           C
ATOM     62  CA  ILE    62      26.868   7.439  11.458  1.00 25.00           C
ATOM     63  CA  LYS    63      29.319   5.290  13.485  1.00 25.00           C
ATOM     64  CA  GLY    64      30.273   2.710  10.844  1.00 25.00           C
ATOM     65  CA  LYS    65      29.354   4.907   7.828  1.00 25.00           C
ATOM     66  CA  THR    66      31.524   6.112   4.945  1.00 25.00           C
ATOM     67  CA  LYS    67      31.493   9.773   6.004  1.00 25.00           C
ATOM     68  CA  VAL    68      30.169  10.299   2.450  1.00 25.00           C
ATOM     69  CA  GLU    69      26.736   8.967   3.505  1.00 25.00           C
ATOM     70  CA  VAL    70      26.715  11.338   6.514  1.00 25.00           C
ATOM     71  CA  ALA    71      27.617  14.280   4.233  1.00 25.00           C
ATOM     72  CA  LYS    72      24.787  13.321   1.837  1.00 25.00           C
ATOM     73  CA  MET    73      22.330  13.147   4.769  1.00 25.00           C
ATOM     74  CA  ILE    74      23.475  16.600   5.967  1.00 25.00           C
ATOM     75  CA  GLN    75      22.996  18.009   2.438  1.00 25.00           C
ATOM     76  CA  GLU    76      19.479  16.500   2.287  1.00 25.00           C
ATOM     77  CA  VAL    77      17.351  17.758   5.140  1.00 25.00           C
ATOM     78  CA  LYS    78      16.019  21.101   4.040  1.00 25.00           C
ATOM     79  CA  GLY    79      13.409  21.988   6.640  1.00 25.00           C
ATOM     80  CA  GLU    80      15.780  21.139   9.448  1.00 25.00           C
ATOM     81  CA  VAL    81      19.331  20.463  10.753  1.00 25.00           C
ATOM     82  CA  THR    82      18.981  17.852  13.544  1.00 25.00           C
ATOM     83  CA  ILE    83      22.541  16.676  14.183  1.00 25.00           C
ATOM     84  CA  HIS    84      23.532  14.813  17.383  1.00 25.00           C
ATOM     85  CA  TYR    85      26.251  15.376  19.992  1.00 25.00           C
ATOM     86  CA  ASN    86      29.545  13.855  21.037  1.00 25.00           C
ATOM     87  CA  LYS    87      30.706  16.891  23.106  1.00 25.00           C
ATOM     88  CA  LEU    88      34.338  15.803  22.911  1.00 25.00           C
ATOM     89  CA  GLN    89      37.296  16.428  25.226  1.00 25.00           C
ATOM     90  CA  TYR    90      39.735  16.098  28.193  1.00 25.00           C
ATOM     91  CA  TYR    91      43.102  17.643  29.085  1.00 25.00           C
ATOM     92  CA  LYS    92      44.237  16.461  32.499  1.00 25.00           C
ATOM     93  CA  VAL    93      42.741  18.185  35.547  1.00 25.00           C
TER
END
