
#######################################################
#                                                     #
#                        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_1
# Molecule2: number of CA atoms   91 (  667),  selected   91 , name T0288
# PARAMETERS: T0288TS393_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          5.994
LGA    P       4      P       4          2.868
LGA    G       5      G       5          1.757
LGA    K       6      K       6          1.598
LGA    V       7      V       7          1.428
LGA    T       8      T       8          2.352
LGA    L       9      L       9          2.133
LGA    Q      10      Q      10          2.138
LGA    K      11      K      11          2.083
LGA    D      12      D      12          3.426
LGA    A      13      A      13          1.522
LGA    Q      14      Q      14          1.620
LGA    N      15      N      15          3.893
LGA    L      16      L      16          1.190
LGA    I      17      I      17          0.775
LGA    G      18      G      18          1.653
LGA    I      19      I      19          1.566
LGA    S      20      S      20          2.023
LGA    I      21      I      21          1.136
LGA    G      22      G      22          0.846
LGA    G      23      G      23          0.544
LGA    G      24      G      24          0.390
LGA    A      25      A      25          4.749
LGA    Q      26      Q      26          0.827
LGA    Y      27      -       -           -
LGA    C      28      P      29          2.538
LGA    P      29      C      30          1.780
LGA    C      30      -       -           -
LGA    L      31      L      31          1.439
LGA    Y      32      Y      32          1.986
LGA    I      33      I      33          1.412
LGA    V      34      V      34          1.753
LGA    Q      35      Q      35          1.108
LGA    V      36      V      36          1.192
LGA    F      37      F      37          1.250
LGA    D      38      D      38          1.952
LGA    N      39      N      39          1.492
LGA    T      40      T      40          2.076
LGA    P      41      P      41          2.193
LGA    A      42      A      42          0.989
LGA    A      43      A      43          1.970
LGA    L      44      L      44          1.681
LGA    D      45      D      45          1.576
LGA    G      46      G      46          1.746
LGA    T      47      T      47          2.085
LGA    V      48      V      48          2.048
LGA    A      49      A      49          0.128
LGA    A      50      A      50          0.802
LGA    G      51      G      51          0.665
LGA    D      52      D      52          0.904
LGA    E      53      E      53          0.408
LGA    I      54      I      54          1.163
LGA    T      55      T      55          1.336
LGA    G      56      G      56          1.645
LGA    V      57      V      57          1.751
LGA    N      58      N      58          1.044
LGA    G      59      G      59          2.467
LGA    R      60      R      60          2.461
LGA    S      61      S      61          1.587
LGA    I      62      I      62          1.771
LGA    K      63      K      63          2.070
LGA    G      64      G      64          1.379
LGA    K      65      K      65          1.258
LGA    T      66      T      66          1.957
LGA    K      67      K      67          0.944
LGA    V      68      V      68          0.253
LGA    E      69      E      69          0.602
LGA    V      70      V      70          0.850
LGA    A      71      A      71          0.515
LGA    K      72      K      72          0.855
LGA    M      73      M      73          0.900
LGA    I      74      I      74          0.424
LGA    Q      75      Q      75          1.219
LGA    E      76      E      76          1.941
LGA    V      77      V      77          0.956
LGA    K      78      K      78          0.788
LGA    G      79      G      79          1.950
LGA    E      80      E      80          2.318
LGA    V      81      V      81          1.193
LGA    T      82      T      82          1.642
LGA    I      83      I      83          1.427
LGA    H      84      H      84          0.554
LGA    Y      85      Y      85          1.515
LGA    N      86      N      86          1.092
LGA    K      87      K      87          1.143
LGA    L      88      L      88          1.484
LGA    Q      89      Q      89          1.165
LGA    Y      90      Y      90          4.557
LGA    Y      91      Y      91          6.913
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    2.00    97.70     86.620     4.152

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.814963 * X  +   0.480312 * Y  +   0.324246 * Z  +  27.602598
  Y_new =   0.555527 * X  +  -0.806807 * Y  +  -0.201126 * Z  +  17.532238
  Z_new =   0.165001 * X  +   0.344038 * Y  +  -0.924345 * Z  +  13.162296 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   2.785282   -0.356310  [ DEG:   159.5849    -20.4151 ]
  Theta =  -0.165759   -2.975834  [ DEG:    -9.4973   -170.5027 ]
  Phi   =   0.598310   -2.543283  [ DEG:    34.2806   -145.7193 ]
 
# 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_1                                  
REMARK     2: T0288                                         
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0288TS393_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   2.00   97.70  86.620
REMARK  ---------------------------------------------------------- 
MOLECULE T0288TS393_1
PFRMAT TS
TARGET T0288
MODEL 1
PARENT N/A
ATOM      1  CA  SER     1      23.404   7.828  31.730  1.00 25.00           C
ATOM      2  CA  MET     2      25.620  10.394  29.968  1.00 25.00           C
ATOM      3  CA  VAL     3      23.607  12.401  27.438  1.00 25.00           C
ATOM      4  CA  PRO     4      24.364  13.314  23.874  1.00 25.00           C
ATOM      5  CA  GLY     5      22.874  16.834  24.297  1.00 25.00           C
ATOM      6  CA  LYS     6      20.683  17.496  21.226  1.00 25.00           C
ATOM      7  CA  VAL     7      21.331  20.604  19.052  1.00 25.00           C
ATOM      8  CA  THR     8      18.273  22.103  17.423  1.00 25.00           C
ATOM      9  CA  LEU     9      20.683  23.626  14.822  1.00 25.00           C
ATOM     10  CA  GLN    10      17.892  24.968  12.558  1.00 25.00           C
ATOM     11  CA  LYS    11      18.720  26.188   9.114  1.00 25.00           C
ATOM     12  CA  ASP    12      16.701  27.964   6.363  1.00 25.00           C
ATOM     13  CA  ALA    13      18.756  30.003   3.899  1.00 25.00           C
ATOM     14  CA  GLN    14      20.838  28.098   1.347  1.00 25.00           C
ATOM     15  CA  ASN    15      23.686  27.788   3.761  1.00 25.00           C
ATOM     16  CA  LEU    16      22.838  24.378   5.168  1.00 25.00           C
ATOM     17  CA  ILE    17      23.958  23.965   8.808  1.00 25.00           C
ATOM     18  CA  GLY    18      27.352  25.185   7.546  1.00 25.00           C
ATOM     19  CA  ILE    19      29.318  22.072   8.709  1.00 25.00           C
ATOM     20  CA  SER    20      31.798  20.613   6.209  1.00 25.00           C
ATOM     21  CA  ILE    21      32.163  17.135   7.710  1.00 25.00           C
ATOM     22  CA  GLY    22      35.188  15.008   8.500  1.00 25.00           C
ATOM     23  CA  GLY    23      36.903  12.139  10.347  1.00 25.00           C
ATOM     24  CA  GLY    24      37.236   8.929   8.360  1.00 25.00           C
ATOM     25  CA  ALA    25      37.573   5.482   6.747  1.00 25.00           C
ATOM     26  CA  GLN    26      41.228   4.883   7.804  1.00 25.00           C
ATOM     27  CA  TYR    27      39.766   5.279  11.331  1.00 25.00           C
ATOM     28  CA  CYS    28      36.588   4.149  13.112  1.00 25.00           C
ATOM     29  CA  PRO    29      35.872   7.909  13.458  1.00 25.00           C
ATOM     30  CA  CYS    30      32.471   9.437  14.213  1.00 25.00           C
ATOM     31  CA  LEU    31      31.993  12.605  12.148  1.00 25.00           C
ATOM     32  CA  TYR    32      32.371  16.287  12.894  1.00 25.00           C
ATOM     33  CA  ILE    33      32.448  20.028  13.286  1.00 25.00           C
ATOM     34  CA  VAL    34      34.974  21.225  10.726  1.00 25.00           C
ATOM     35  CA  GLN    35      34.653  24.949  11.231  1.00 25.00           C
ATOM     36  CA  VAL    36      31.384  26.846  11.929  1.00 25.00           C
ATOM     37  CA  PHE    37      31.524  29.578   9.236  1.00 25.00           C
ATOM     38  CA  ASP    38      30.991  33.322   9.648  1.00 25.00           C
ATOM     39  CA  ASN    39      27.406  34.640   9.334  1.00 25.00           C
ATOM     40  CA  THR    40      26.004  31.237   8.346  1.00 25.00           C
ATOM     41  CA  PRO    41      23.964  28.754  10.328  1.00 25.00           C
ATOM     42  CA  ALA    42      25.325  27.404  13.671  1.00 25.00           C
ATOM     43  CA  ALA    43      26.255  31.064  14.313  1.00 25.00           C
ATOM     44  CA  LEU    44      22.644  31.829  15.332  1.00 25.00           C
ATOM     45  CA  ASP    45      23.584  30.020  18.536  1.00 25.00           C
ATOM     46  CA  GLY    46      27.277  29.322  19.143  1.00 25.00           C
ATOM     47  CA  THR    47      27.009  25.494  19.510  1.00 25.00           C
ATOM     48  CA  VAL    48      28.614  23.433  16.736  1.00 25.00           C
ATOM     49  CA  ALA    49      32.048  23.131  18.300  1.00 25.00           C
ATOM     50  CA  ALA    50      35.428  22.611  16.666  1.00 25.00           C
ATOM     51  CA  GLY    51      35.568  18.894  17.398  1.00 25.00           C
ATOM     52  CA  ASP    52      32.089  17.467  17.803  1.00 25.00           C
ATOM     53  CA  GLU    53      32.085  13.660  17.597  1.00 25.00           C
ATOM     54  CA  ILE    54      28.595  13.019  16.301  1.00 25.00           C
ATOM     55  CA  THR    55      25.562  10.712  15.736  1.00 25.00           C
ATOM     56  CA  GLY    56      22.795  11.887  13.428  1.00 25.00           C
ATOM     57  CA  VAL    57      20.083  12.684  10.825  1.00 25.00           C
ATOM     58  CA  ASN    58      17.053  12.847  13.185  1.00 25.00           C
ATOM     59  CA  GLY    59      17.717   9.142  12.945  1.00 25.00           C
ATOM     60  CA  ARG    60      20.533   7.492  10.937  1.00 25.00           C
ATOM     61  CA  SER    61      23.755   6.740  12.745  1.00 25.00           C
ATOM     62  CA  ILE    62      27.073   7.766  11.238  1.00 25.00           C
ATOM     63  CA  LYS    63      29.035   5.117  13.169  1.00 25.00           C
ATOM     64  CA  GLY    64      29.743   2.881  10.134  1.00 25.00           C
ATOM     65  CA  LYS    65      29.455   5.440   7.300  1.00 25.00           C
ATOM     66  CA  THR    66      32.355   7.822   6.659  1.00 25.00           C
ATOM     67  CA  LYS    67      32.298  11.504   5.647  1.00 25.00           C
ATOM     68  CA  VAL    68      30.703  11.525   2.165  1.00 25.00           C
ATOM     69  CA  GLU    69      27.683   9.591   3.509  1.00 25.00           C
ATOM     70  CA  VAL    70      27.333  12.091   6.390  1.00 25.00           C
ATOM     71  CA  ALA    71      27.480  15.005   3.910  1.00 25.00           C
ATOM     72  CA  LYS    72      24.786  13.342   1.757  1.00 25.00           C
ATOM     73  CA  MET    73      22.581  12.854   4.849  1.00 25.00           C
ATOM     74  CA  ILE    74      23.047  16.535   5.795  1.00 25.00           C
ATOM     75  CA  GLN    75      22.097  17.594   2.239  1.00 25.00           C
ATOM     76  CA  GLU    76      18.966  15.393   2.395  1.00 25.00           C
ATOM     77  CA  VAL    77      17.626  17.800   5.099  1.00 25.00           C
ATOM     78  CA  LYS    78      15.930  20.881   3.608  1.00 25.00           C
ATOM     79  CA  GLY    79      15.518  22.101   7.206  1.00 25.00           C
ATOM     80  CA  GLU    80      14.977  20.148  10.424  1.00 25.00           C
ATOM     81  CA  VAL    81      18.534  19.370  11.524  1.00 25.00           C
ATOM     82  CA  THR    82      20.401  17.888  14.451  1.00 25.00           C
ATOM     83  CA  ILE    83      23.989  16.780  14.282  1.00 25.00           C
ATOM     84  CA  HIS    84      23.364  14.929  17.602  1.00 25.00           C
ATOM     85  CA  TYR    85      26.154  16.325  19.703  1.00 25.00           C
ATOM     86  CA  ASN    86      29.166  15.081  21.658  1.00 25.00           C
ATOM     87  CA  LYS    87      32.019  17.063  23.246  1.00 25.00           C
ATOM     88  CA  LEU    88      35.419  15.546  22.940  1.00 25.00           C
ATOM     89  CA  GLN    89      37.019  14.954  26.313  1.00 25.00           C
ATOM     90  CA  TYR    90      40.458  14.529  27.827  1.00 25.00           C
ATOM     91  CA  TYR    91      42.049  15.155  31.260  1.00 25.00           C
ATOM     92  CA  LYS    92      45.691  14.251  30.706  1.00 25.00           C
ATOM     93  CA  VAL    93      46.272  17.810  31.791  1.00 25.00           C
TER
END
