
#######################################################
#                                                     #
#                        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  104 (  104),  selected  104 , name T0343TS599_3
# Molecule2: number of CA atoms   94 (  282),  selected   94 , name T0343.pdb
# PARAMETERS: T0343TS599_3.T0343.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      -       -           -
LGA    T       2      -       -           -
LGA    W       3      -       -           -
LGA    R       4      -       -           -
LGA    E       5      -       -           -
LGA    I       6      -       -           -
LGA    L       7      -       -           -
LGA    R       8      -       -           -
LGA    K       9      -       -           -
LGA    E      10      -       -           -
LGA    G      11      -       -           -
LGA    F      12      -       -           -
LGA    L      13      -       -           -
LGA    D      14      -       -           -
LGA    L      15      T       2          5.496
LGA    G      16      W       3           #
LGA    -       -      R       4           -
LGA    -       -      E       5           -
LGA    -       -      I       6           -
LGA    -       -      L       7           -
LGA    -       -      R       8           -
LGA    -       -      K       9           -
LGA    -       -      E      10           -
LGA    -       -      G      11           -
LGA    -       -      F      12           -
LGA    -       -      L      13           -
LGA    E      17      D      14          5.229
LGA    F      18      L      15          3.330
LGA    I      19      -       -           -
LGA    V      20      G      16          4.561
LGA    E      21      E      17          2.873
LGA    L      22      F      18          1.465
LGA    V      23      I      19          1.011
LGA    Y      24      V      20          1.438
LGA    I      25      E      21          1.488
LGA    D      26      L      22          1.700
LGA    C      27      V      23          2.115
LGA    -       -      Y      24           -
LGA    P      28      I      25          4.674
LGA    C      29      D      26          3.772
LGA    E      30      C      27           -
LGA    -       -      P      28           -
LGA    -       -      C      29           -
LGA    -       -      E      30           -
LGA    P      31      P      31           #
LGA    I      32      I      32          5.314
LGA    P      33      P      33          4.705
LGA    P      34      -       -           -
LGA    T      35      P      34          4.876
LGA    L      36      T      35          2.420
LGA    A      37      L      36          4.391
LGA    I      38      A      37          2.112
LGA    Y      39      I      38          3.065
LGA    D      40      Y      39          2.306
LGA    K      41      D      40          1.939
LGA    K      42      K      41          1.645
LGA    G      43      K      42          1.203
LGA    D      44      G      43          2.303
LGA    E      45      D      44          1.898
LGA    -       -      E      45           -
LGA    W      46      W      46          1.735
LGA    Y      47      Y      47          1.803
LGA    K      48      K      48          3.257
LGA    V      49      V      49          3.640
LGA    E      50      E      50           #
LGA    E      51      -       -           -
LGA    A      52      -       -           -
LGA    P      53      E      51          3.234
LGA    N      54      A      52           -
LGA    V      55      P      53           -
LGA    Q      56      N      54           -
LGA    N      57      V      55           -
LGA    Y      58      Q      56           -
LGA    R      59      -       -           -
LGA    E      60      -       -           -
LGA    A      61      -       -           -
LGA    V      62      -       -           -
LGA    E      63      -       -           -
LGA    W      64      -       -           -
LGA    A      65      -       -           -
LGA    I      66      -       -           -
LGA    E      67      -       -           -
LGA    V      68      -       -           -
LGA    L      69      -       -           -
LGA    E      70      -       -           -
LGA    R      71      -       -           -
LGA    I      72      -       -           -
LGA    R      73      -       -           -
LGA    D      74      -       -           -
LGA    G      75      -       -           -
LGA    E      76      -       -           -
LGA    N      77      -       -           -
LGA    V      78      -       -           -
LGA    K      79      -       -           -
LGA    L      80      -       -           -
LGA    V      81      -       -           -
LGA    S      82      -       -           -
LGA    L      83      -       -           -
LGA    D      84      -       -           -
LGA    G      85      -       -           -
LGA    P      86      -       -           -
LGA    A      87      -       -           -
LGA    P      88      -       -           -
LGA    P      89      -       -           -
LGA    K      90      E      63          1.840
LGA    V      91      W      64          1.990
LGA    M      92      A      65          1.047
LGA    K      93      I      66          1.304
LGA    R      94      E      67          1.451
LGA    L      95      V      68          1.166
LGA    S      96      L      69          0.419
LGA    L      97      E      70          1.570
LGA    A      98      R      71          1.425
LGA    L      99      I      72          1.822
LGA    Q     100      R      73          2.183
LGA    K     101      D      74          2.756
LGA    L     102      G      75          2.135
LGA    -       -      E      76           -
LGA    -       -      N      77           -
LGA    T     103      V      78          2.466
LGA    E     104      K      79          3.445
LGA    -       -      L      80           -
LGA    -       -      V      81           -
LGA    -       -      S      82           -
LGA    -       -      L      83           -
LGA    -       -      D      84           -
LGA    -       -      G      85           -
LGA    -       -      P      86           -
LGA    -       -      A      87           -
LGA    -       -      P      88           -
LGA    -       -      P      89           -
LGA    -       -      K      90           -
LGA    -       -      V      91           -
LGA    -       -      M      92           -
LGA    -       -      K      93           -
LGA    -       -      R      94           -
LGA    -       -      L      95           -
LGA    -       -      S      96           -
LGA    -       -      L      97           -
LGA    -       -      A      98           -
LGA    -       -      L      99           -
LGA    -       -      Q     100           -
LGA    -       -      K     101           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  104   94    5.0     46    2.88    17.39     30.999     1.545

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.265446 * X  +   0.084271 * Y  +  -0.960436 * Z  +  21.977274
  Y_new =   0.279239 * X  +  -0.960195 * Y  +  -0.007073 * Z  +  15.866683
  Z_new =  -0.922802 * X  +  -0.266314 * Y  +  -0.278412 * Z  +  15.725253 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.378400    0.763193  [ DEG:  -136.2723     43.7277 ]
  Theta =   1.175291    1.966301  [ DEG:    67.3392    112.6608 ]
  Phi   =   0.810716   -2.330877  [ DEG:    46.4506   -133.5494 ]
 
# 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: T0343TS599_3                                  
REMARK     2: T0343.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0343TS599_3.T0343.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  104   94   5.0   46   2.88   17.39  30.999
REMARK  ---------------------------------------------------------- 
MOLECULE T0343TS599_3
PFRMAT TS                                                                       
TARGET T0343                                                                    
MODEL  3                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      32.719   6.632  13.943  1.00  0.00              
ATOM      2  CA  THR     2      36.470   5.542  15.516  1.00  0.00              
ATOM      3  CA  TRP     3      38.973   4.370  17.818  1.00  0.00              
ATOM      4  CA  ARG     4      34.850   5.151  18.119  1.00  0.00              
ATOM      5  CA  GLU     5      34.383   1.452  17.592  1.00  0.00              
ATOM      6  CA  ILE     6      36.926   0.620  20.327  1.00  0.00              
ATOM      7  CA  LEU     7      35.202   3.054  22.694  1.00  0.00              
ATOM      8  CA  ARG     8      31.801   1.471  21.886  1.00  0.00              
ATOM      9  CA  LYS     9      32.977  -2.056  22.501  1.00  0.00              
ATOM     10  CA  GLU    10      34.359  -0.943  25.845  1.00  0.00              
ATOM     11  CA  GLY    11      31.188   0.788  26.960  1.00  0.00              
ATOM     12  CA  PHE    12      32.528   4.322  26.839  1.00  0.00              
ATOM     13  CA  LEU    13      30.105   6.636  25.088  1.00  0.00              
ATOM     14  CA  ASP    14      31.439  10.095  24.408  1.00  0.00              
ATOM     15  CA  LEU    15      29.079  12.900  23.572  1.00  0.00              
ATOM     16  CA  GLY    16      31.390  14.324  20.899  1.00  0.00              
ATOM     17  CA  GLU    17      31.527  10.876  19.322  1.00  0.00              
ATOM     18  CA  PHE    18      27.721  10.372  19.290  1.00  0.00              
ATOM     19  CA  ILE    19      27.262  13.803  17.685  1.00  0.00              
ATOM     20  CA  VAL    20      29.910  12.889  15.086  1.00  0.00              
ATOM     21  CA  GLU    21      27.930   9.766  14.079  1.00  0.00              
ATOM     22  CA  LEU    22      24.816  11.963  13.772  1.00  0.00              
ATOM     23  CA  VAL    23      25.848  15.382  12.673  1.00  0.00              
ATOM     24  CA  TYR    24      23.566  18.369  13.040  1.00  0.00              
ATOM     25  CA  ILE    25      24.693  21.631  11.637  1.00  0.00              
ATOM     26  CA  ASP    26      22.840  24.741  12.552  1.00  0.00              
ATOM     27  CA  CYS    27      24.688  27.976  11.735  1.00  0.00              
ATOM     28  CA  PRO    28      24.515  30.677  14.438  1.00  0.00              
ATOM     29  CA  CYS    29      23.427  33.869  12.966  1.00  0.00              
ATOM     30  CA  GLU    30      20.124  34.661  14.734  1.00  0.00              
ATOM     31  CA  PRO    31      17.693  33.591  12.046  1.00  0.00              
ATOM     32  CA  ILE    32      19.371  30.440  10.753  1.00  0.00              
ATOM     33  CA  PRO    33      16.361  28.212  10.134  1.00  0.00              
ATOM     34  CA  PRO    34      16.471  28.404   6.277  1.00  0.00              
ATOM     35  CA  THR    35      19.702  26.560   6.175  1.00  0.00              
ATOM     36  CA  LEU    36      19.659  23.698   8.456  1.00  0.00              
ATOM     37  CA  ALA    37      22.060  20.836   7.661  1.00  0.00              
ATOM     38  CA  ILE    38      21.379  17.328   8.752  1.00  0.00              
ATOM     39  CA  TYR    39      24.004  14.702   8.273  1.00  0.00              
ATOM     40  CA  ASP    40      23.358  11.101   9.020  1.00  0.00              
ATOM     41  CA  LYS    41      26.400   9.060   9.916  1.00  0.00              
ATOM     42  CA  LYS    42      25.026   5.656   9.092  1.00  0.00              
ATOM     43  CA  GLY    43      23.815   6.320   5.579  1.00  0.00              
ATOM     44  CA  ASP    44      26.309   9.081   4.646  1.00  0.00              
ATOM     45  CA  GLU    45      23.566  11.321   3.425  1.00  0.00              
ATOM     46  CA  TRP    46      23.346  14.972   3.768  1.00  0.00              
ATOM     47  CA  TYR    47      19.965  16.488   4.269  1.00  0.00              
ATOM     48  CA  LYS    48      19.326  20.120   3.781  1.00  0.00              
ATOM     49  CA  VAL    49      16.511  21.654   5.575  1.00  0.00              
ATOM     50  CA  GLU    50      15.281  24.843   4.330  1.00  0.00              
ATOM     51  CA  GLU    51      12.606  26.900   5.953  1.00  0.00              
ATOM     52  CA  ALA    52       9.361  25.326   4.596  1.00  0.00              
ATOM     53  CA  PRO    53      10.283  21.841   5.854  1.00  0.00              
ATOM     54  CA  ASN    54       8.375  19.198   3.857  1.00  0.00              
ATOM     55  CA  VAL    55       6.751  16.977   6.480  1.00  0.00              
ATOM     56  CA  GLN    56       8.175  13.623   5.450  1.00  0.00              
ATOM     57  CA  ASN    57      11.726  15.002   5.283  1.00  0.00              
ATOM     58  CA  TYR    58      11.516  16.625   8.678  1.00  0.00              
ATOM     59  CA  ARG    59       9.878  13.570  10.298  1.00  0.00              
ATOM     60  CA  GLU    60      12.449  11.144   8.923  1.00  0.00              
ATOM     61  CA  ALA    61      15.315  13.325  10.172  1.00  0.00              
ATOM     62  CA  VAL    62      13.679  13.507  13.627  1.00  0.00              
ATOM     63  CA  GLU    63      13.145   9.751  13.953  1.00  0.00              
ATOM     64  CA  TRP    64      16.784   8.993  13.129  1.00  0.00              
ATOM     65  CA  ALA    65      17.959  11.579  15.688  1.00  0.00              
ATOM     66  CA  ILE    66      15.680  10.196  18.467  1.00  0.00              
ATOM     67  CA  GLU    67      16.754   6.615  17.964  1.00  0.00              
ATOM     68  CA  VAL    68      20.435   7.642  18.133  1.00  0.00              
ATOM     69  CA  LEU    69      19.917   9.652  21.314  1.00  0.00              
ATOM     70  CA  GLU    70      18.075   6.747  22.968  1.00  0.00              
ATOM     71  CA  ARG    71      20.815   4.340  22.082  1.00  0.00              
ATOM     72  CA  ILE    72      23.417   6.760  23.518  1.00  0.00              
ATOM     73  CA  ARG    73      21.516   7.193  26.782  1.00  0.00              
ATOM     74  CA  ASP    74      21.571   3.436  27.080  1.00  0.00              
ATOM     75  CA  GLY    75      25.199   2.729  26.188  1.00  0.00              
ATOM     76  CA  GLU    76      27.270   4.550  28.754  1.00  0.00              
ATOM     77  CA  ASN    77      25.891   8.041  28.819  1.00  0.00              
ATOM     78  CA  VAL    78      27.138  10.788  26.571  1.00  0.00              
ATOM     79  CA  LYS    79      24.429  12.447  24.389  1.00  0.00              
ATOM     80  CA  LEU    80      25.675  14.542  21.524  1.00  0.00              
ATOM     81  CA  VAL    81      24.046  17.635  20.027  1.00  0.00              
ATOM     82  CA  SER    82      25.676  19.185  16.922  1.00  0.00              
ATOM     83  CA  LEU    83      25.310  22.870  16.262  1.00  0.00              
ATOM     84  CA  ASP    84      27.406  24.814  13.839  1.00  0.00              
ATOM     85  CA  GLY    85      28.351  28.212  14.826  1.00  0.00              
ATOM     86  CA  PRO    86      29.004  30.585  17.514  1.00  0.00              
ATOM     87  CA  ALA    87      26.990  30.361  20.690  1.00  0.00              
ATOM     88  CA  PRO    88      24.409  33.042  21.181  1.00  0.00              
ATOM     89  CA  PRO    89      21.875  31.757  23.593  1.00  0.00              
ATOM     90  CA  LYS    90      18.729  32.203  21.474  1.00  0.00              
ATOM     91  CA  VAL    91      20.076  30.020  18.729  1.00  0.00              
ATOM     92  CA  MET    92      21.194  27.220  21.066  1.00  0.00              
ATOM     93  CA  LYS    93      17.830  27.201  22.744  1.00  0.00              
ATOM     94  CA  ARG    94      16.026  26.975  19.383  1.00  0.00              
ATOM     95  CA  LEU    95      18.246  24.085  18.218  1.00  0.00              
ATOM     96  CA  SER    96      17.745  22.151  21.456  1.00  0.00              
ATOM     97  CA  LEU    97      13.932  22.601  21.199  1.00  0.00              
ATOM     98  CA  ALA    98      13.898  21.426  17.567  1.00  0.00              
ATOM     99  CA  LEU    99      15.813  18.259  18.499  1.00  0.00              
ATOM    100  CA  GLN   100      13.416  17.502  21.378  1.00  0.00              
ATOM    101  CA  LYS   101      10.395  17.933  19.068  1.00  0.00              
ATOM    102  CA  LEU   102      11.683  15.790  16.476  1.00  0.00              
ATOM    103  CA  THR   103      10.929  13.828  19.386  1.00  0.00              
ATOM    104  CA  GLU   104       8.010  15.727  18.488  1.00  0.00              
TER                                                                             
END
