
#######################################################
#                                                     #
#                        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   91 (   91),  selected   91 , name T0350TS599_5-D1
# Molecule2: number of CA atoms   91 ( 1511),  selected   91 , name T0350_D1.pdb
# PARAMETERS: T0350TS599_5-D1.T0350_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    N       2      -       -           -
LGA    I       3      -       -           -
LGA    E       4      -       -           -
LGA    R       5      -       -           -
LGA    L       6      -       -           -
LGA    T       7      -       -           -
LGA    T       8      -       -           -
LGA    L       9      -       -           -
LGA    Q      10      -       -           -
LGA    P      11      -       -           -
LGA    V      12      -       -           -
LGA    W      13      -       -           -
LGA    D      14      -       -           -
LGA    R      15      -       -           -
LGA    Y      16      -       -           -
LGA    D      17      -       -           -
LGA    T      18      -       -           -
LGA    Q      19      -       -           -
LGA    I      20      -       -           -
LGA    H      21      -       -           -
LGA    S      36      -       -           -
LGA    Y      37      -       -           -
LGA    T      38      -       -           -
LGA    N      39      -       -           -
LGA    L      40      M       1          5.424
LGA    -       -      N       2           -
LGA    -       -      I       3           -
LGA    -       -      E       4           -
LGA    A      41      R       5           #
LGA    E      42      -       -           -
LGA    M      43      L       6          6.088
LGA    V      44      T       7          4.683
LGA    G      45      T       8          1.704
LGA    E      46      L       9          1.481
LGA    -       -      Q      10           -
LGA    -       -      P      11           -
LGA    -       -      V      12           -
LGA    -       -      W      13           -
LGA    -       -      D      14           -
LGA    -       -      R      15           -
LGA    -       -      Y      16           -
LGA    -       -      D      17           -
LGA    -       -      T      18           -
LGA    -       -      Q      19           -
LGA    -       -      I      20           -
LGA    -       -      H      21           -
LGA    -       -      S      36           -
LGA    -       -      Y      37           -
LGA    -       -      T      38           -
LGA    -       -      N      39           -
LGA    -       -      L      40           -
LGA    -       -      A      41           -
LGA    -       -      E      42           -
LGA    -       -      M      43           -
LGA    -       -      V      44           -
LGA    -       -      G      45           -
LGA    -       -      E      46           -
LGA    -       -      M      47           -
LGA    -       -      N      48           -
LGA    -       -      K      49           -
LGA    -       -      L      50           -
LGA    -       -      L      51           -
LGA    -       -      E      52           -
LGA    -       -      P      53           -
LGA    -       -      S      54           -
LGA    -       -      Q      55           -
LGA    M      47      V      56          4.878
LGA    N      48      -       -           -
LGA    K      49      -       -           -
LGA    L      50      -       -           -
LGA    L      51      H      57          3.956
LGA    E      52      L      58          2.181
LGA    P      53      -       -           -
LGA    S      54      -       -           -
LGA    Q      55      K      59          0.870
LGA    V      56      F      60           #
LGA    H      57      -       -           -
LGA    L      58      E      61          2.629
LGA    K      59      L      62          3.796
LGA    F      60      H      63           -
LGA    E      61      D      64           -
LGA    L      62      K      65           -
LGA    H      63      L      66           -
LGA    D      64      N      67           -
LGA    K      65      E      68           -
LGA    L      66      Y      69           -
LGA    N      67      Y      70           -
LGA    E      68      -       -           -
LGA    Y      69      -       -           -
LGA    Y      70      -       -           -
LGA    V      71      -       -           -
LGA    K      72      V      71          2.859
LGA    V      73      K      72          2.910
LGA    I      74      -       -           -
LGA    E      75      V      73           #
LGA    D      76      I      74           -
LGA    -       -      E      75           -
LGA    -       -      D      76           -
LGA    -       -      S      77           -
LGA    -       -      T      78           -
LGA    -       -      N      79           -
LGA    S      77      E      80           #
LGA    T      78      V      81           -
LGA    N      79      I      82           -
LGA    -       -      R      83           -
LGA    E      80      E      84          6.100
LGA    V      81      -       -           -
LGA    I      82      -       -           -
LGA    R      83      -       -           -
LGA    E      84      -       -           -
LGA    I      85      I      85          3.634
LGA    P      86      P      86          4.016
LGA    P      87      P      87          3.485
LGA    K      88      K      88           #
LGA    R      89      R      89          2.843
LGA    W      90      W      90          2.486
LGA    L      91      L      91          2.108
LGA    D      92      D      92          1.450
LGA    F      93      F      93          1.542
LGA    Y      94      Y      94          2.089
LGA    A      95      A      95          1.823
LGA    A      96      A      96          1.797
LGA    M      97      M      97          1.806
LGA    T      98      T      98          2.165
LGA    E      99      E      99          2.371
LGA    F     100      F     100          2.089
LGA    L     101      L     101          2.038
LGA    G     102      G     102          2.171
LGA    L     103      L     103          1.837
LGA    F     104      F     104          0.733
LGA    V     105      V     105          2.193

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)   91   91    5.0     34    3.09    61.76     26.910     1.066

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.698832 * X  +   0.624900 * Y  +   0.348043 * Z  +  -0.032311
  Y_new =  -0.531438 * X  +  -0.779281 * Y  +   0.332107 * Z  +   3.958095
  Z_new =   0.478757 * X  +   0.047123 * Y  +   0.876682 * Z  + -16.382072 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.053700   -3.087892  [ DEG:     3.0768   -176.9232 ]
  Theta =  -0.499238   -2.642354  [ DEG:   -28.6043   -151.3958 ]
  Phi   =  -2.491427    0.650166  [ DEG:  -142.7483     37.2517 ]
 
# 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: T0350TS599_5-D1                               
REMARK     2: T0350_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS599_5-D1.T0350_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:   91   91   5.0   34   3.09   61.76  26.910
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS599_5-D1
PFRMAT TS                                                                       
TARGET T0350                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      -2.772   4.746 -26.163  1.00  0.00              
ATOM      2  CA  ASN     2      -4.813   1.549 -25.270  1.00  0.00              
ATOM      3  CA  ILE     3      -8.251  -0.580 -26.434  1.00  0.00              
ATOM      4  CA  GLU     4      -9.180  -1.673 -22.503  1.00  0.00              
ATOM      5  CA  ARG     5      -9.403   2.021 -21.667  1.00  0.00              
ATOM      6  CA  LEU     6     -11.926   2.981 -24.387  1.00  0.00              
ATOM      7  CA  THR     7     -14.318   0.137 -23.476  1.00  0.00              
ATOM      8  CA  THR     8     -14.284   1.001 -19.754  1.00  0.00              
ATOM      9  CA  LEU     9     -15.138   4.661 -20.356  1.00  0.00              
ATOM     10  CA  GLN    10     -18.071   3.690 -22.571  1.00  0.00              
ATOM     11  CA  PRO    11     -19.565   1.381 -19.924  1.00  0.00              
ATOM     12  CA  VAL    12     -19.241   4.209 -17.381  1.00  0.00              
ATOM     13  CA  TRP    13     -20.937   6.600 -19.866  1.00  0.00              
ATOM     14  CA  ASP    14     -23.842   4.204 -20.149  1.00  0.00              
ATOM     15  CA  ARG    15     -24.277   3.858 -16.369  1.00  0.00              
ATOM     16  CA  TYR    16     -24.969   7.414 -15.396  1.00  0.00              
ATOM     17  CA  ASP    17     -21.859   9.510 -15.416  1.00  0.00              
ATOM     18  CA  THR    18     -21.919  10.396 -11.686  1.00  0.00              
ATOM     19  CA  GLN    19     -22.512   6.771 -10.720  1.00  0.00              
ATOM     20  CA  ILE    20     -19.647   5.345 -12.863  1.00  0.00              
ATOM     21  CA  HIS    21     -17.182   7.937 -11.663  1.00  0.00              
ATOM     36  CA  SER    36       0.349  -3.491   2.461  1.00  0.00              
ATOM     37  CA  TYR    37       4.023  -2.591   3.105  1.00  0.00              
ATOM     38  CA  THR    38       5.499  -5.507   1.255  1.00  0.00              
ATOM     39  CA  ASN    39       3.390  -4.875  -1.799  1.00  0.00              
ATOM     40  CA  LEU    40       4.334  -1.218  -1.765  1.00  0.00              
ATOM     41  CA  ALA    41       8.018  -1.843  -1.539  1.00  0.00              
ATOM     42  CA  GLU    42       7.787  -4.313  -4.470  1.00  0.00              
ATOM     43  CA  MET    43       5.828  -1.826  -6.474  1.00  0.00              
ATOM     44  CA  VAL    44       8.326   1.011  -5.814  1.00  0.00              
ATOM     45  CA  GLY    45      11.125  -1.245  -7.031  1.00  0.00              
ATOM     46  CA  GLU    46       9.111  -1.962 -10.200  1.00  0.00              
ATOM     47  CA  MET    47       8.496   1.771 -10.713  1.00  0.00              
ATOM     48  CA  ASN    48      12.167   2.554 -10.291  1.00  0.00              
ATOM     49  CA  LYS    49      13.045   0.033 -12.962  1.00  0.00              
ATOM     50  CA  LEU    50      10.413   1.569 -15.280  1.00  0.00              
ATOM     51  CA  LEU    51      11.776   5.073 -14.653  1.00  0.00              
ATOM     52  CA  GLU    52      15.336   4.159 -15.460  1.00  0.00              
ATOM     53  CA  PRO    53      14.393   2.524 -18.724  1.00  0.00              
ATOM     54  CA  SER    54      12.194   5.550 -19.732  1.00  0.00              
ATOM     55  CA  GLN    55      15.000   7.980 -18.896  1.00  0.00              
ATOM     56  CA  VAL    56      17.275   6.392 -21.545  1.00  0.00              
ATOM     57  CA  HIS    57      15.452   8.487 -24.201  1.00  0.00              
ATOM     58  CA  LEU    58      11.823   8.955 -23.334  1.00  0.00              
ATOM     59  CA  LYS    59       9.253   9.829 -25.920  1.00  0.00              
ATOM     60  CA  PHE    60       5.797  10.974 -24.707  1.00  0.00              
ATOM     61  CA  GLU    61       2.759  10.662 -26.908  1.00  0.00              
ATOM     62  CA  LEU    62      -0.495  12.153 -25.830  1.00  0.00              
ATOM     63  CA  HIS    63      -3.657  11.061 -27.373  1.00  0.00              
ATOM     64  CA  ASP    64      -6.253  13.789 -27.240  1.00  0.00              
ATOM     65  CA  LYS    65      -9.213  11.719 -28.146  1.00  0.00              
ATOM     66  CA  LEU    66      -8.787   8.950 -25.807  1.00  0.00              
ATOM     67  CA  ASN    67      -7.127  10.921 -22.944  1.00  0.00              
ATOM     68  CA  GLU    68      -4.542   8.198 -22.964  1.00  0.00              
ATOM     69  CA  TYR    69      -0.845   8.721 -22.472  1.00  0.00              
ATOM     70  CA  TYR    70       1.567   6.682 -24.487  1.00  0.00              
ATOM     71  CA  VAL    71       5.160   6.451 -23.448  1.00  0.00              
ATOM     72  CA  LYS    72       7.719   5.207 -25.904  1.00  0.00              
ATOM     73  CA  VAL    73      11.142   4.268 -24.636  1.00  0.00              
ATOM     74  CA  ILE    74      14.045   4.657 -26.981  1.00  0.00              
ATOM     75  CA  GLU    75      17.722   4.519 -25.967  1.00  0.00              
ATOM     76  CA  ASP    76      19.167   7.346 -28.064  1.00  0.00              
ATOM     77  CA  SER    77      22.515   5.885 -28.917  1.00  0.00              
ATOM     78  CA  THR    78      21.446   2.511 -30.161  1.00  0.00              
ATOM     79  CA  ASN    79      17.668   2.808 -30.724  1.00  0.00              
ATOM     80  CA  GLU    80      17.151  -0.490 -29.047  1.00  0.00              
ATOM     81  CA  VAL    81      14.099  -0.351 -26.861  1.00  0.00              
ATOM     82  CA  ILE    82      11.820   1.070 -29.492  1.00  0.00              
ATOM     83  CA  ARG    83      12.855  -1.487 -32.160  1.00  0.00              
ATOM     84  CA  GLU    84      12.363  -4.486 -29.957  1.00  0.00              
ATOM     85  CA  ILE    85       9.047  -3.696 -28.712  1.00  0.00              
ATOM     86  CA  PRO    86       5.859  -5.001 -30.240  1.00  0.00              
ATOM     87  CA  PRO    87       3.180  -2.310 -29.668  1.00  0.00              
ATOM     88  CA  LYS    88       1.123  -4.493 -27.396  1.00  0.00              
ATOM     89  CA  ARG    89       3.950  -5.234 -25.027  1.00  0.00              
ATOM     90  CA  TRP    90       4.975  -1.616 -24.678  1.00  0.00              
ATOM     91  CA  LEU    91       1.452  -0.507 -23.953  1.00  0.00              
ATOM     92  CA  ASP    92       1.006  -3.218 -21.308  1.00  0.00              
ATOM     93  CA  PHE    93       4.231  -2.265 -19.583  1.00  0.00              
ATOM     94  CA  TYR    94       3.220   1.431 -19.537  1.00  0.00              
ATOM     95  CA  ALA    95      -0.177   0.442 -18.160  1.00  0.00              
ATOM     96  CA  ALA    96       1.274  -1.685 -15.379  1.00  0.00              
ATOM     97  CA  MET    97       3.620   1.124 -14.374  1.00  0.00              
ATOM     98  CA  THR    98       0.844   3.658 -14.346  1.00  0.00              
ATOM     99  CA  GLU    99      -1.416   1.467 -12.192  1.00  0.00              
ATOM    100  CA  PHE   100       1.396   0.877  -9.666  1.00  0.00              
ATOM    101  CA  LEU   101       2.854   4.353  -9.127  1.00  0.00              
ATOM    102  CA  GLY   102      -0.771   5.594  -8.795  1.00  0.00              
ATOM    103  CA  LEU   103      -1.851   3.013  -6.282  1.00  0.00              
ATOM    104  CA  PHE   104       0.979   3.476  -3.876  1.00  0.00              
ATOM    105  CA  VAL   105       1.604   7.147  -4.236  1.00  0.00              
TER                                                                             
END
