
#######################################################
#                                                     #
#                        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   87 (   87),  selected   87 , name T0358TS168_5
# Molecule2: number of CA atoms   66 ( 1047),  selected   66 , name T0358.pdb
# PARAMETERS: T0358TS168_5.T0358.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      G      10           #
LGA    T       2      P      11           #
LGA    Q       3      F      12          3.505
LGA    -       -      T      13           -
LGA    -       -      R      14           -
LGA    -       -      R      15           -
LGA    S       4      Q      16          2.521
LGA    V       5      A      17          2.754
LGA    -       -      Q      18           -
LGA    -       -      A      19           -
LGA    L       6      V      20          2.304
LGA    -       -      T      21           -
LGA    L       7      T      22          4.387
LGA    P       8      T      23          2.720
LGA    P       9      -       -           -
LGA    G      10      -       -           -
LGA    P      11      -       -           -
LGA    F      12      -       -           -
LGA    T      13      Y      24           #
LGA    R      14      S      25          4.388
LGA    R      15      N      26           -
LGA    Q      16      I      27           -
LGA    A      17      -       -           -
LGA    Q      18      -       -           -
LGA    A      19      -       -           -
LGA    V      20      -       -           -
LGA    T      21      T      28          2.871
LGA    T      22      L      29          1.742
LGA    T      23      E      30          3.137
LGA    Y      24      -       -           -
LGA    S      25      D      31          2.834
LGA    N      26      -       -           -
LGA    I      27      -       -           -
LGA    T      28      -       -           -
LGA    L      29      -       -           -
LGA    E      30      -       -           -
LGA    D      31      -       -           -
LGA    D      32      -       -           -
LGA    Q      33      -       -           -
LGA    G      34      -       -           -
LGA    S      35      -       -           -
LGA    H      36      -       -           -
LGA    F      37      -       -           -
LGA    R      38      -       -           -
LGA    L      39      -       -           -
LGA    V      40      -       -           -
LGA    V      41      -       -           -
LGA    R      42      -       -           -
LGA    D      43      D      32          3.885
LGA    T      44      Q      33          3.845
LGA    E      45      G      34          3.156
LGA    G      46      S      35           #
LGA    R      47      H      36          3.001
LGA    M      48      F      37          1.698
LGA    V      49      R      38          1.873
LGA    -       -      L      39           -
LGA    W      50      V      40          2.578
LGA    R      51      V      41          2.616
LGA    A      52      R      42          2.250
LGA    W      53      D      43          3.522
LGA    N      54      T      44          3.173
LGA    F      55      -       -           -
LGA    E      56      E      45           #
LGA    P      57      G      46           -
LGA    D      58      -       -           -
LGA    A      59      R      47          4.027
LGA    G      60      M      48          4.088
LGA    E      61      V      49          3.604
LGA    G      62      -       -           -
LGA    L      63      W      50          4.616
LGA    N      64      R      51          4.307
LGA    -       -      A      52           -
LGA    -       -      W      53           -
LGA    -       -      N      54           -
LGA    -       -      F      55           -
LGA    -       -      E      56           -
LGA    -       -      P      57           -
LGA    -       -      D      58           -
LGA    -       -      A      59           -
LGA    -       -      G      60           -
LGA    -       -      E      61           -
LGA    -       -      G      62           -
LGA    R      65      L      63          4.086
LGA    -       -      N      64           -
LGA    Y      66      R      65          3.832
LGA    I      67      Y      66          5.008
LGA    R      68      I      67           #
LGA    T      69      R      68           #
LGA    S      70      T      69           -
LGA    G      71      S      70           -
LGA    I      72      G      71           -
LGA    R      73      I      72           -
LGA    T      74      R      73           -
LGA    D      75      T      74           -
LGA    T      76      D      75           -
LGA    A      77      -       -           -
LGA    T      78      -       -           -
LGA    R      79      -       -           -
LGA    L      80      -       -           -
LGA    E      81      -       -           -
LGA    H      82      -       -           -
LGA    H      83      -       -           -
LGA    H      84      -       -           -
LGA    H      85      -       -           -
LGA    H      86      -       -           -
LGA    H      87      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   87   66    5.0     30    3.39     6.67     25.311     0.859

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.382851 * X  +   0.178979 * Y  +  -0.906307 * Z  +  -0.415631
  Y_new =  -0.920151 * X  +  -0.161110 * Y  +   0.356883 * Z  +  -3.957296
  Z_new =  -0.082140 * X  +   0.970572 * Y  +   0.226368 * Z  +   0.996267 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.341661   -1.799932  [ DEG:    76.8715   -103.1285 ]
  Theta =   0.082233    3.059360  [ DEG:     4.7116    175.2884 ]
  Phi   =  -1.965083    1.176510  [ DEG:  -112.5909     67.4091 ]
 
# 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: T0358TS168_5                                  
REMARK     2: T0358.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0358TS168_5.T0358.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   87   66   5.0   30   3.39    6.67  25.311
REMARK  ---------------------------------------------------------- 
MOLECULE T0358TS168_5
PFRMAT TS
TARGET T0358
MODEL 5
PARENT N/A
ATOM      1  CA  MET     1      16.913   1.150  -0.026  1.00 25.00           C
ATOM      2  CA  THR     2      13.199   0.883   0.729  1.00 25.00           C
ATOM      3  CA  GLN     3       9.704   0.833  -0.648  1.00 25.00           C
ATOM      4  CA  SER     4       7.016   0.844  -3.285  1.00 25.00           C
ATOM      5  CA  VAL     5       4.441  -1.945  -3.014  1.00 25.00           C
ATOM      6  CA  LEU     6       2.067  -4.675  -4.194  1.00 25.00           C
ATOM      7  CA  LEU     7       2.543  -8.282  -3.262  1.00 25.00           C
ATOM      8  CA  PRO     8       5.136 -10.539  -4.986  1.00 25.00           C
ATOM      9  CA  PRO     9       4.365 -13.405  -7.408  1.00 25.00           C
ATOM     10  CA  GLY    10       5.017 -13.114 -11.189  1.00 25.00           C
ATOM     11  CA  PRO    11       4.968  -9.611 -12.597  1.00 25.00           C
ATOM     12  CA  PHE    12       2.828  -8.914  -9.463  1.00 25.00           C
ATOM     13  CA  THR    13      -0.303 -10.284 -11.202  1.00 25.00           C
ATOM     14  CA  ARG    14      -2.218  -8.262  -8.695  1.00 25.00           C
ATOM     15  CA  ARG    15      -0.506  -5.212 -10.254  1.00 25.00           C
ATOM     16  CA  GLN    16      -3.825  -4.120 -11.823  1.00 25.00           C
ATOM     17  CA  ALA    17      -5.577  -4.494  -8.438  1.00 25.00           C
ATOM     18  CA  GLN    18      -2.842  -2.401  -6.763  1.00 25.00           C
ATOM     19  CA  ALA    19      -3.232   0.302  -9.449  1.00 25.00           C
ATOM     20  CA  VAL    20      -7.023   0.325  -8.911  1.00 25.00           C
ATOM     21  CA  THR    21      -6.509   0.670  -5.131  1.00 25.00           C
ATOM     22  CA  THR    22      -4.088   3.583  -5.702  1.00 25.00           C
ATOM     23  CA  THR    23      -6.635   5.282  -8.002  1.00 25.00           C
ATOM     24  CA  TYR    24      -9.363   4.835  -5.352  1.00 25.00           C
ATOM     25  CA  SER    25      -7.154   7.092  -3.156  1.00 25.00           C
ATOM     26  CA  ASN    26      -9.237   5.790  -0.253  1.00 25.00           C
ATOM     27  CA  ILE    27      -8.632   2.103  -0.973  1.00 25.00           C
ATOM     28  CA  THR    28     -11.405  -0.196  -2.000  1.00 25.00           C
ATOM     29  CA  LEU    29     -11.153  -3.421  -3.969  1.00 25.00           C
ATOM     30  CA  GLU    30     -14.289  -4.823  -5.664  1.00 25.00           C
ATOM     31  CA  ASP    31     -17.565  -5.243  -3.741  1.00 25.00           C
ATOM     32  CA  ASP    32     -19.540  -4.962  -7.047  1.00 25.00           C
ATOM     33  CA  GLN    33     -20.266  -8.685  -6.661  1.00 25.00           C
ATOM     34  CA  GLY    34     -17.057 -10.288  -5.390  1.00 25.00           C
ATOM     35  CA  SER    35     -13.797  -9.801  -3.536  1.00 25.00           C
ATOM     36  CA  HIS    36     -10.644  -8.155  -2.144  1.00 25.00           C
ATOM     37  CA  PHE    37      -7.362  -6.926  -3.586  1.00 25.00           C
ATOM     38  CA  ARG    38      -3.722  -6.059  -2.816  1.00 25.00           C
ATOM     39  CA  LEU    39      -1.834  -3.200  -1.056  1.00 25.00           C
ATOM     40  CA  VAL    40      -0.548   0.394  -0.655  1.00 25.00           C
ATOM     41  CA  VAL    41       0.373   2.255  -3.855  1.00 25.00           C
ATOM     42  CA  ARG    42       1.169   5.315  -6.037  1.00 25.00           C
ATOM     43  CA  ASP    43       0.591   8.261  -8.374  1.00 25.00           C
ATOM     44  CA  THR    44       1.740  11.891  -8.541  1.00 25.00           C
ATOM     45  CA  GLU    45      -0.939  13.775 -10.418  1.00 25.00           C
ATOM     46  CA  GLY    46      -3.277  13.797  -7.469  1.00 25.00           C
ATOM     47  CA  ARG    47      -1.825  11.278  -5.037  1.00 25.00           C
ATOM     48  CA  MET    48      -2.112   7.963  -3.264  1.00 25.00           C
ATOM     49  CA  VAL    49      -2.809   4.989  -0.931  1.00 25.00           C
ATOM     50  CA  TRP    50      -4.652   3.230   1.939  1.00 25.00           C
ATOM     51  CA  ARG    51      -5.560  -0.277   0.780  1.00 25.00           C
ATOM     52  CA  ALA    52      -7.787  -3.293  -0.015  1.00 25.00           C
ATOM     53  CA  TRP    53      -5.713  -5.748   2.032  1.00 25.00           C
ATOM     54  CA  ASN    54      -6.597  -9.234   0.878  1.00 25.00           C
ATOM     55  CA  PHE    55      -6.544 -10.966   4.320  1.00 25.00           C
ATOM     56  CA  GLU    56      -8.054  -9.274   7.366  1.00 25.00           C
ATOM     57  CA  PRO    57     -11.546  -7.896   8.001  1.00 25.00           C
ATOM     58  CA  ASP    58      -9.618  -4.637   8.723  1.00 25.00           C
ATOM     59  CA  ALA    59      -9.598  -2.623   5.488  1.00 25.00           C
ATOM     60  CA  GLY    60     -10.670   0.241   7.721  1.00 25.00           C
ATOM     61  CA  GLU    61      -7.078   0.910   8.727  1.00 25.00           C
ATOM     62  CA  GLY    62      -5.108  -1.938  10.365  1.00 25.00           C
ATOM     63  CA  LEU    63      -4.771  -3.687   6.974  1.00 25.00           C
ATOM     64  CA  ASN    64      -3.527  -0.430   5.390  1.00 25.00           C
ATOM     65  CA  ARG    65      -0.965  -0.010   8.206  1.00 25.00           C
ATOM     66  CA  TYR    66       0.231  -3.611   7.687  1.00 25.00           C
ATOM     67  CA  ILE    67       0.585  -2.979   3.927  1.00 25.00           C
ATOM     68  CA  ARG    68       2.596   0.205   4.626  1.00 25.00           C
ATOM     69  CA  THR    69       4.875  -1.731   7.019  1.00 25.00           C
ATOM     70  CA  SER    70       5.012   1.530   8.949  1.00 25.00           C
ATOM     71  CA  GLY    71       6.275   1.497  12.512  1.00 25.00           C
ATOM     72  CA  ILE    72       7.129  -2.115  11.639  1.00 25.00           C
ATOM     73  CA  ARG    73       8.869  -3.027  14.865  1.00 25.00           C
ATOM     74  CA  THR    74       8.851  -3.981  18.597  1.00 25.00           C
ATOM     75  CA  ASP    75       8.428  -6.637  21.266  1.00 25.00           C
ATOM     76  CA  THR    76       7.997 -10.233  19.983  1.00 25.00           C
ATOM     77  CA  ALA    77      11.358 -10.059  18.124  1.00 25.00           C
ATOM     78  CA  THR    78      14.984  -9.848  17.107  1.00 25.00           C
ATOM     79  CA  ARG    79      17.185 -12.933  16.541  1.00 25.00           C
ATOM     80  CA  LEU    80      19.766 -15.681  16.575  1.00 25.00           C
ATOM     81  CA  GLU    81      20.296 -16.988  13.061  1.00 25.00           C
ATOM     82  CA  HIS    82      18.039 -20.038  13.508  1.00 25.00           C
ATOM     83  CA  HIS    83      14.979 -22.207  14.314  1.00 25.00           C
ATOM     84  CA  HIS    84      13.875 -23.011  10.735  1.00 25.00           C
ATOM     85  CA  HIS    85      12.264 -21.437   7.666  1.00 25.00           C
ATOM     86  CA  HIS    86      10.676 -19.930   4.535  1.00 25.00           C
ATOM     87  CA  HIS    87      14.141 -20.124   3.119  1.00 25.00           C
TER
END
