
#######################################################
#                                                     #
#                        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  117 (  117),  selected  117 , name T0350TS599_2
# Molecule2: number of CA atoms  109 ( 1798),  selected  109 , name T0350.pdb
# PARAMETERS: T0350TS599_2.T0350.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    N       2      N       2           -
LGA    I       3      I       3           -
LGA    E       4      E       4           -
LGA    R       5      R       5           -
LGA    L       6      L       6           -
LGA    T       7      T       7           -
LGA    T       8      T       8           -
LGA    L       9      L       9           -
LGA    Q      10      Q      10           -
LGA    P      11      P      11           -
LGA    V      12      V      12           -
LGA    W      13      W      13           -
LGA    D      14      D      14           -
LGA    R      15      R      15           -
LGA    Y      16      Y      16           -
LGA    D      17      D      17           -
LGA    T      18      T      18           -
LGA    Q      19      Q      19           -
LGA    I      20      I      20           -
LGA    H      21      H      21           -
LGA    N      22      N      22           -
LGA    Q      23      Q      23           -
LGA    K      24      K      24           -
LGA    D      25      D      25           -
LGA    N      26      -       -           -
LGA    D      27      -       -           -
LGA    N      28      -       -           -
LGA    E      29      -       -           -
LGA    V      30      -       -           -
LGA    P      31      -       -           -
LGA    V      32      -       -           -
LGA    H      33      -       -           -
LGA    Q      34      N      26          4.487
LGA    V      35      D      27          0.839
LGA    S      36      N      28          3.172
LGA    Y      37      E      29          3.489
LGA    T      38      -       -           -
LGA    N      39      -       -           -
LGA    L      40      V      30          2.292
LGA    A      41      -       -           -
LGA    E      42      -       -           -
LGA    M      43      -       -           -
LGA    V      44      P      31          4.661
LGA    G      45      V      32           -
LGA    E      46      H      33           -
LGA    M      47      Q      34           -
LGA    -       -      V      35           -
LGA    -       -      S      36           -
LGA    -       -      Y      37           -
LGA    -       -      T      38           -
LGA    -       -      N      39           -
LGA    -       -      L      40           -
LGA    -       -      A      41           -
LGA    -       -      E      42           -
LGA    N      48      M      43           #
LGA    K      49      V      44           -
LGA    L      50      G      45           -
LGA    -       -      E      46           -
LGA    L      51      M      47          2.705
LGA    E      52      N      48          3.499
LGA    -       -      K      49           -
LGA    -       -      L      50           -
LGA    P      53      L      51          4.663
LGA    S      54      -       -           -
LGA    Q      55      -       -           -
LGA    V      56      E      52           #
LGA    -       -      P      53           -
LGA    -       -      S      54           -
LGA    -       -      Q      55           -
LGA    -       -      V      56           -
LGA    -       -      H      57           -
LGA    H      57      L      58          4.377
LGA    -       -      K      59           -
LGA    L      58      F      60          1.076
LGA    K      59      E      61          0.947
LGA    F      60      L      62          0.748
LGA    E      61      H      63          0.819
LGA    L      62      D      64          1.512
LGA    H      63      K      65          2.688
LGA    D      64      -       -           -
LGA    K      65      -       -           -
LGA    L      66      L      66          2.175
LGA    N      67      N      67          2.003
LGA    E      68      E      68          0.794
LGA    Y      69      Y      69          0.633
LGA    Y      70      Y      70          2.691
LGA    V      71      V      71          1.827
LGA    K      72      K      72          1.657
LGA    V      73      V      73          1.169
LGA    I      74      I      74          1.120
LGA    E      75      E      75          2.643
LGA    D      76      D      76          2.311
LGA    S      77      -       -           -
LGA    T      78      S      77          0.496
LGA    N      79      T      78          2.242
LGA    E      80      N      79           #
LGA    V      81      E      80           #
LGA    I      82      -       -           -
LGA    R      83      V      81          4.627
LGA    E      84      I      82          3.464
LGA    I      85      R      83          3.506
LGA    P      86      -       -           -
LGA    P      87      -       -           -
LGA    K      88      -       -           -
LGA    R      89      -       -           -
LGA    W      90      E      84          1.630
LGA    L      91      I      85          3.452
LGA    D      92      -       -           -
LGA    F      93      P      86          5.559
LGA    Y      94      P      87          4.150
LGA    A      95      K      88          2.639
LGA    A      96      R      89          1.649
LGA    M      97      W      90          1.389
LGA    T      98      L      91          4.531
LGA    E      99      D      92           #
LGA    F     100      F      93           #
LGA    L     101      Y      94           #
LGA    G     102      A      95           -
LGA    L     103      A      96           -
LGA    F     104      M      97           -
LGA    V     105      T      98           -
LGA    D     106      E      99           -
LGA    E     107      F     100           -
LGA    K     108      L     101           -
LGA    K     109      G     102           -
LGA    L     110      L     103           -
LGA    E     111      F     104           -
LGA    H     112      V     105           -
LGA    H     113      D     106           -
LGA    H     114      E     107           -
LGA    H     115      K     108           -
LGA    H     116      K     109           -
LGA    H     117      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117  109    5.0     40    2.86    27.50     24.037     1.351

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.529823 * X  +  -0.845849 * Y  +   0.061866 * Z  +   0.951415
  Y_new =   0.593465 * X  +  -0.421868 * Y  +  -0.685439 * Z  +   4.288627
  Z_new =   0.605877 * X  +  -0.326446 * Y  +   0.725497 * Z  + -26.930826 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.422823    2.718770  [ DEG:   -24.2260    155.7740 ]
  Theta =  -0.650868   -2.490724  [ DEG:   -37.2920   -142.7080 ]
  Phi   =   2.299598   -0.841994  [ DEG:   131.7573    -48.2427 ]
 
# 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_2                                  
REMARK     2: T0350.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0350TS599_2.T0350.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117  109   5.0   40   2.86   27.50  24.037
REMARK  ---------------------------------------------------------- 
MOLECULE T0350TS599_2
PFRMAT TS                                                                       
TARGET T0350                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       8.182   6.954 -29.606  1.00  0.00              
ATOM      2  CA  ASN     2       5.302   6.348 -31.648  1.00  0.00              
ATOM      3  CA  ILE     3       6.788   9.740 -33.629  1.00  0.00              
ATOM      4  CA  GLU     4       3.872   7.293 -33.080  1.00  0.00              
ATOM      5  CA  ARG     5       1.335  10.168 -32.638  1.00  0.00              
ATOM      6  CA  LEU     6       2.237  12.154 -35.704  1.00  0.00              
ATOM      7  CA  THR     7       2.120   9.414 -38.389  1.00  0.00              
ATOM      8  CA  THR     8      -1.291   8.332 -37.051  1.00  0.00              
ATOM      9  CA  LEU     9      -2.859  11.819 -37.013  1.00  0.00              
ATOM     10  CA  GLN    10      -1.845  12.595 -40.599  1.00  0.00              
ATOM     11  CA  PRO    11      -3.632   9.409 -41.744  1.00  0.00              
ATOM     12  CA  VAL    12      -6.678  10.488 -39.734  1.00  0.00              
ATOM     13  CA  TRP    13      -6.722  13.990 -41.219  1.00  0.00              
ATOM     14  CA  ASP    14      -6.926  12.387 -44.609  1.00  0.00              
ATOM     15  CA  ARG    15      -9.829  10.038 -43.631  1.00  0.00              
ATOM     16  CA  TYR    16     -12.405  12.564 -42.618  1.00  0.00              
ATOM     17  CA  ASP    17     -12.338  13.572 -39.005  1.00  0.00              
ATOM     18  CA  THR    18     -15.950  12.381 -38.464  1.00  0.00              
ATOM     19  CA  GLN    19     -15.150   9.030 -40.085  1.00  0.00              
ATOM     20  CA  ILE    20     -12.060   8.602 -37.877  1.00  0.00              
ATOM     21  CA  HIS    21     -13.888   9.404 -34.632  1.00  0.00              
ATOM     22  CA  ASN    22     -16.418   6.770 -35.534  1.00  0.00              
ATOM     23  CA  GLN    23     -13.664   4.324 -36.266  1.00  0.00              
ATOM     24  CA  LYS    24     -11.990   4.959 -32.896  1.00  0.00              
ATOM     25  CA  ASP    25     -15.339   4.503 -31.058  1.00  0.00              
ATOM     26  CA  ASN    26     -16.027   1.137 -32.708  1.00  0.00              
ATOM     27  CA  ASP    27     -12.493  -0.020 -32.132  1.00  0.00              
ATOM     28  CA  ASN    28     -13.132   0.788 -28.437  1.00  0.00              
ATOM     29  CA  GLU    29     -16.463  -0.858 -27.903  1.00  0.00              
ATOM     30  CA  VAL    30     -15.577  -4.294 -29.307  1.00  0.00              
ATOM     31  CA  PRO    31     -12.345  -4.037 -27.358  1.00  0.00              
ATOM     32  CA  VAL    32     -14.236  -3.567 -24.164  1.00  0.00              
ATOM     33  CA  HIS    33     -16.624  -6.370 -24.769  1.00  0.00              
ATOM     34  CA  GLN    34     -14.004  -8.869 -25.859  1.00  0.00              
ATOM     35  CA  VAL    35     -11.755  -8.173 -22.862  1.00  0.00              
ATOM     36  CA  SER    36     -14.341  -6.935 -20.435  1.00  0.00              
ATOM     37  CA  TYR    37     -14.749  -3.396 -19.227  1.00  0.00              
ATOM     38  CA  THR    38     -13.142  -4.039 -15.813  1.00  0.00              
ATOM     39  CA  ASN    39     -10.157  -5.783 -17.434  1.00  0.00              
ATOM     40  CA  LEU    40      -9.706  -2.923 -19.982  1.00  0.00              
ATOM     41  CA  ALA    41      -9.703  -0.335 -17.213  1.00  0.00              
ATOM     42  CA  GLU    42      -7.069  -2.390 -15.358  1.00  0.00              
ATOM     43  CA  MET    43      -4.909  -2.515 -18.525  1.00  0.00              
ATOM     44  CA  VAL    44      -5.211   1.301 -18.761  1.00  0.00              
ATOM     45  CA  GLY    45      -4.107   1.797 -15.145  1.00  0.00              
ATOM     46  CA  GLU    46      -1.079  -0.479 -15.674  1.00  0.00              
ATOM     47  CA  MET    47      -0.210   1.403 -18.874  1.00  0.00              
ATOM     48  CA  ASN    48      -0.460   4.744 -17.076  1.00  0.00              
ATOM     49  CA  LYS    49       2.070   3.409 -14.572  1.00  0.00              
ATOM     50  CA  LEU    50       4.333   2.307 -17.423  1.00  0.00              
ATOM     51  CA  LEU    51       4.108   5.770 -18.994  1.00  0.00              
ATOM     52  CA  GLU    52       5.012   7.488 -15.710  1.00  0.00              
ATOM     53  CA  PRO    53       8.030   5.183 -15.378  1.00  0.00              
ATOM     54  CA  SER    54       9.099   5.992 -19.006  1.00  0.00              
ATOM     55  CA  GLN    55       8.701   9.691 -18.256  1.00  0.00              
ATOM     56  CA  VAL    56      11.523   9.251 -15.693  1.00  0.00              
ATOM     57  CA  HIS    57      13.937   8.643 -18.585  1.00  0.00              
ATOM     58  CA  LEU    58      12.336   7.751 -21.835  1.00  0.00              
ATOM     59  CA  LYS    59      14.149   7.878 -25.087  1.00  0.00              
ATOM     60  CA  PHE    60      12.053   7.714 -28.280  1.00  0.00              
ATOM     61  CA  GLU    61      13.558   6.779 -31.602  1.00  0.00              
ATOM     62  CA  LEU    62      11.495   7.038 -34.735  1.00  0.00              
ATOM     63  CA  HIS    63      12.613   5.352 -37.823  1.00  0.00              
ATOM     64  CA  ASP    64      11.362   7.147 -40.875  1.00  0.00              
ATOM     65  CA  LYS    65      12.087   4.440 -43.358  1.00  0.00              
ATOM     66  CA  LEU    66      10.474   1.581 -41.540  1.00  0.00              
ATOM     67  CA  ASN    67       7.764   3.712 -39.956  1.00  0.00              
ATOM     68  CA  GLU    68       8.673   2.152 -36.674  1.00  0.00              
ATOM     69  CA  TYR    69       8.856   3.538 -33.297  1.00  0.00              
ATOM     70  CA  TYR    70      11.712   2.516 -31.005  1.00  0.00              
ATOM     71  CA  VAL    71      11.516   3.177 -27.320  1.00  0.00              
ATOM     72  CA  LYS    72      14.611   3.152 -25.201  1.00  0.00              
ATOM     73  CA  VAL    73      14.278   3.292 -21.453  1.00  0.00              
ATOM     74  CA  ILE    74      17.155   4.777 -19.521  1.00  0.00              
ATOM     75  CA  GLU    75      17.036   5.538 -15.763  1.00  0.00              
ATOM     76  CA  ASP    76      19.266   8.554 -15.462  1.00  0.00              
ATOM     77  CA  SER    77      20.645   7.948 -12.125  1.00  0.00              
ATOM     78  CA  THR    78      21.494   4.285 -12.149  1.00  0.00              
ATOM     79  CA  ASN    79      21.329   3.240 -15.826  1.00  0.00              
ATOM     80  CA  GLU    80      19.306   0.208 -14.938  1.00  0.00              
ATOM     81  CA  VAL    81      16.393  -0.282 -17.288  1.00  0.00              
ATOM     82  CA  ILE    82      18.382   0.237 -20.428  1.00  0.00              
ATOM     83  CA  ARG    83      21.090  -2.163 -19.387  1.00  0.00              
ATOM     84  CA  GLU    84      18.728  -4.937 -18.466  1.00  0.00              
ATOM     85  CA  ILE    85      16.606  -4.924 -21.460  1.00  0.00              
ATOM     86  CA  PRO    86      17.144  -7.186 -24.378  1.00  0.00              
ATOM     87  CA  PRO    87      16.111  -5.339 -27.500  1.00  0.00              
ATOM     88  CA  LYS    88      13.144  -7.647 -28.199  1.00  0.00              
ATOM     89  CA  ARG    89      11.613  -7.105 -24.796  1.00  0.00              
ATOM     90  CA  TRP    90      11.871  -3.310 -25.023  1.00  0.00              
ATOM     91  CA  LEU    91      10.106  -3.365 -28.431  1.00  0.00              
ATOM     92  CA  ASP    92       7.327  -5.584 -26.994  1.00  0.00              
ATOM     93  CA  PHE    93       6.785  -3.297 -24.012  1.00  0.00              
ATOM     94  CA  TYR    94       6.629  -0.311 -26.408  1.00  0.00              
ATOM     95  CA  ALA    95       4.070  -2.158 -28.617  1.00  0.00              
ATOM     96  CA  ALA    96       2.029  -2.864 -25.480  1.00  0.00              
ATOM     97  CA  MET    97       2.210   0.818 -24.440  1.00  0.00              
ATOM     98  CA  THR    98       1.094   2.061 -27.865  1.00  0.00              
ATOM     99  CA  GLU    99      -1.917  -0.164 -27.867  1.00  0.00              
ATOM    100  CA  PHE   100      -2.906   0.976 -24.442  1.00  0.00              
ATOM    101  CA  LEU   101      -2.424   4.795 -24.313  1.00  0.00              
ATOM    102  CA  GLY   102      -3.977   5.178 -27.720  1.00  0.00              
ATOM    103  CA  LEU   103      -6.877   2.928 -27.020  1.00  0.00              
ATOM    104  CA  PHE   104      -7.878   4.318 -23.582  1.00  0.00              
ATOM    105  CA  VAL   105      -7.269   7.995 -24.183  1.00  0.00              
ATOM    106  CA  ASP   106      -8.640  10.267 -21.515  1.00  0.00              
ATOM    107  CA  GLU   107      -9.514  13.462 -23.393  1.00  0.00              
ATOM    108  CA  LYS   108      -7.148  15.493 -21.177  1.00  0.00              
ATOM    109  CA  LYS   109      -4.129  13.322 -22.077  1.00  0.00              
ATOM    110  CA  LEU   110      -5.008  13.436 -25.800  1.00  0.00              
ATOM    111  CA  GLU   111      -5.392  17.245 -25.682  1.00  0.00              
ATOM    112  CA  HIS   112      -2.096  17.678 -23.930  1.00  0.00              
ATOM    113  CA  HIS   113      -0.171  15.483 -26.392  1.00  0.00              
ATOM    114  CA  HIS   114      -1.078  17.612 -29.392  1.00  0.00              
ATOM    115  CA  HIS   115      -3.431  15.580 -31.422  1.00  0.00              
ATOM    116  CA  HIS   116      -6.957  13.760 -32.882  1.00  0.00              
ATOM    117  CA  HIS   117      -7.135  16.824 -35.749  1.00  0.00              
TER                                                                             
END
