
#######################################################
#                                                     #
#                        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 T0352TS599_5
# Molecule2: number of CA atoms  109 ( 1766),  selected  109 , name T0352.pdb
# PARAMETERS: T0352TS599_5.T0352.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    T       3      -       -           -
LGA    H       4      M       1          4.142
LGA    D       5      T       2          1.840
LGA    R       6      T       3          1.380
LGA    V       7      H       4          2.099
LGA    R       8      D       5          1.455
LGA    L       9      R       6          0.504
LGA    Q      10      V       7          0.845
LGA    L      11      R       8          0.574
LGA    Q      12      L       9          0.711
LGA    A      13      Q      10          1.115
LGA    L      14      L      11          1.404
LGA    E      15      Q      12          1.317
LGA    A      16      A      13          1.729
LGA    L      17      L      14          1.875
LGA    L      18      E      15          1.223
LGA    R      19      A      16          1.247
LGA    E      20      L      17          1.887
LGA    H      21      L      18          1.744
LGA    Q      22      R      19          0.912
LGA    -       -      E      20           -
LGA    -       -      H      21           -
LGA    -       -      Q      22           -
LGA    H      23      H      23           #
LGA    W      24      W      24           #
LGA    R      25      R      25          2.163
LGA    N      26      N      26           #
LGA    D      27      D      27           -
LGA    E      28      E      28           -
LGA    P      29      P      29           -
LGA    Q      30      Q      30           -
LGA    P      31      P      31           -
LGA    H      32      H      32           -
LGA    Q      33      -       -           -
LGA    F      34      -       -           -
LGA    N      35      -       -           -
LGA    S      36      -       -           -
LGA    T      37      -       -           -
LGA    Q      38      -       -           -
LGA    P      39      -       -           -
LGA    F      40      Q      33          3.289
LGA    F      41      F      34          3.323
LGA    M      42      N      35          2.422
LGA    D      43      S      36           #
LGA    T      44      -       -           -
LGA    M      45      -       -           -
LGA    E      46      -       -           -
LGA    P      47      -       -           -
LGA    L      48      -       -           -
LGA    E      49      -       -           -
LGA    W      50      T      37           #
LGA    L      51      Q      38           -
LGA    Q      52      P      39           -
LGA    -       -      F      40           -
LGA    -       -      F      41           -
LGA    -       -      M      42           -
LGA    -       -      D      43           -
LGA    W      53      T      44           #
LGA    V      54      M      45           #
LGA    L      55      -       -           -
LGA    I      56      -       -           -
LGA    P      57      -       -           -
LGA    R      58      -       -           -
LGA    M      59      -       -           -
LGA    H      60      -       -           -
LGA    D      61      -       -           -
LGA    L      62      -       -           -
LGA    L      63      -       -           -
LGA    D      64      -       -           -
LGA    N      65      -       -           -
LGA    K      66      -       -           -
LGA    Q      67      -       -           -
LGA    P      68      -       -           -
LGA    L      69      -       -           -
LGA    P      70      -       -           -
LGA    G      71      -       -           -
LGA    A      72      -       -           -
LGA    F      73      -       -           -
LGA    A      74      -       -           -
LGA    V      75      -       -           -
LGA    A      76      -       -           -
LGA    P      77      E      46           #
LGA    Y      78      P      47          1.712
LGA    Y      79      L      48          4.712
LGA    E      80      E      49          1.049
LGA    -       -      W      50           -
LGA    M      81      L      51           #
LGA    A      82      Q      52           #
LGA    L      83      W      53           #
LGA    A      84      V      54          0.797
LGA    T      85      L      55          4.855
LGA    D      86      I      56          3.512
LGA    H      87      P      57          4.184
LGA    P      88      R      58          2.514
LGA    Q      89      -       -           -
LGA    R      90      M      59          1.034
LGA    A      91      H      60          2.239
LGA    L      92      D      61          1.958
LGA    I      93      L      62          1.983
LGA    L      94      L      63          2.466
LGA    A      95      D      64          1.648
LGA    E      96      N      65          4.376
LGA    L      97      K      66           -
LGA    E      98      Q      67           -
LGA    K      99      P      68           -
LGA    L     100      L      69           -
LGA    D     101      P      70           -
LGA    A     102      G      71           -
LGA    L     103      A      72           -
LGA    F     104      F      73           -
LGA    A     105      A      74           -
LGA    D     106      V      75           -
LGA    D     107      A      76           -
LGA    A     108      P      77           -
LGA    S     109      Y      78           -
LGA    L     110      Y      79           -
LGA    E     111      E      80           -
LGA    H     112      M      81           -
LGA    H     113      A      82           -
LGA    H     114      L      83           -
LGA    H     115      A      84           -
LGA    H     116      T      85           -
LGA    H     117      D      86           -
LGA    -       -      H      87           -
LGA    -       -      P      88           -
LGA    -       -      Q      89           -
LGA    -       -      R      90           -
LGA    -       -      A      91           -
LGA    -       -      L      92           -
LGA    -       -      I      93           -
LGA    -       -      L      94           -
LGA    -       -      A      95           -
LGA    -       -      E      96           -
LGA    -       -      L      97           -
LGA    -       -      E      98           -
LGA    -       -      K      99           -
LGA    -       -      L     100           -
LGA    -       -      D     101           -
LGA    -       -      A     102           -
LGA    -       -      L     103           -
LGA    -       -      F     104           -
LGA    -       -      A     105           -
LGA    -       -      D     106           -
LGA    -       -      D     107           -
LGA    -       -      A     108           -
LGA    -       -      S     109           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  117  109    5.0     38    2.37    18.42     26.171     1.538

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.742437 * X  +  -0.056676 * Y  +  -0.667514 * Z  +   0.230562
  Y_new =  -0.659651 * X  +   0.235614 * Y  +   0.713686 * Z  +  11.571993
  Z_new =   0.116826 * X  +   0.970193 * Y  +  -0.212315 * Z  +  -4.496557 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.786238   -1.355355  [ DEG:   102.3439    -77.6561 ]
  Theta =  -0.117094   -3.024499  [ DEG:    -6.7090   -173.2910 ]
  Phi   =  -2.415171    0.726422  [ DEG:  -138.3791     41.6209 ]
 
# 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: T0352TS599_5                                  
REMARK     2: T0352.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0352TS599_5.T0352.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  117  109   5.0   38   2.37   18.42  26.171
REMARK  ---------------------------------------------------------- 
MOLECULE T0352TS599_5
PFRMAT TS                                                                       
TARGET T0352                                                                    
MODEL  5                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       2.160  -2.832   2.919  1.00  0.00              
ATOM      2  CA  THR     2       0.017  -5.139   0.203  1.00  0.00              
ATOM      3  CA  THR     3       1.025  -7.198  -2.548  1.00  0.00              
ATOM      4  CA  HIS     4       2.161  -4.859  -5.709  1.00  0.00              
ATOM      5  CA  ASP     5      -0.571  -6.441  -7.709  1.00  0.00              
ATOM      6  CA  ARG     6      -3.165  -5.833  -5.031  1.00  0.00              
ATOM      7  CA  VAL     7      -2.111  -2.143  -4.762  1.00  0.00              
ATOM      8  CA  ARG     8      -2.288  -1.708  -8.529  1.00  0.00              
ATOM      9  CA  LEU     9      -5.803  -3.278  -8.455  1.00  0.00              
ATOM     10  CA  GLN    10      -6.813  -0.890  -5.636  1.00  0.00              
ATOM     11  CA  LEU    11      -5.552   2.112  -7.645  1.00  0.00              
ATOM     12  CA  GLN    12      -7.488   0.954 -10.699  1.00  0.00              
ATOM     13  CA  ALA    13     -10.676   0.584  -8.602  1.00  0.00              
ATOM     14  CA  LEU    14     -10.164   4.082  -7.175  1.00  0.00              
ATOM     15  CA  GLU    15      -9.643   5.526 -10.682  1.00  0.00              
ATOM     16  CA  ALA    16     -12.870   3.890 -11.889  1.00  0.00              
ATOM     17  CA  LEU    17     -14.776   5.317  -8.877  1.00  0.00              
ATOM     18  CA  LEU    18     -13.506   8.768  -9.283  1.00  0.00              
ATOM     19  CA  ARG    19     -14.483   8.673 -12.986  1.00  0.00              
ATOM     20  CA  GLU    20     -17.975   7.246 -12.390  1.00  0.00              
ATOM     21  CA  HIS    21     -18.774   9.665  -9.640  1.00  0.00              
ATOM     22  CA  GLN    22     -17.635  12.678 -11.697  1.00  0.00              
ATOM     23  CA  HIS    23     -14.730  13.265  -9.275  1.00  0.00              
ATOM     24  CA  TRP    24     -12.005  14.049 -11.850  1.00  0.00              
ATOM     25  CA  ARG    25     -13.637  16.711 -14.098  1.00  0.00              
ATOM     26  CA  ASN    26     -14.701  18.451 -10.875  1.00  0.00              
ATOM     27  CA  ASP    27     -11.645  18.617  -8.559  1.00  0.00              
ATOM     28  CA  GLU    28     -10.873  22.216  -7.877  1.00  0.00              
ATOM     29  CA  PRO    29      -9.008  23.024  -4.807  1.00  0.00              
ATOM     30  CA  GLN    30     -11.061  24.906  -2.311  1.00  0.00              
ATOM     31  CA  PRO    31     -11.499  28.625  -2.260  1.00  0.00              
ATOM     32  CA  HIS    32      -9.624  28.861   1.014  1.00  0.00              
ATOM     33  CA  GLN    33      -6.529  27.214  -0.556  1.00  0.00              
ATOM     34  CA  PHE    34      -6.626  29.626  -3.480  1.00  0.00              
ATOM     35  CA  ASN    35      -6.988  32.694  -1.255  1.00  0.00              
ATOM     36  CA  SER    36      -4.099  31.789   1.054  1.00  0.00              
ATOM     37  CA  THR    37      -1.346  31.127  -1.397  1.00  0.00              
ATOM     38  CA  GLN    38      -0.991  27.341  -1.629  1.00  0.00              
ATOM     39  CA  PRO    39      -1.629  26.057  -5.076  1.00  0.00              
ATOM     40  CA  PHE    40      -5.039  24.564  -5.969  1.00  0.00              
ATOM     41  CA  PHE    41      -5.244  22.529  -9.161  1.00  0.00              
ATOM     42  CA  MET    42      -7.454  19.541  -9.649  1.00  0.00              
ATOM     43  CA  ASP    43      -8.807  19.924 -13.175  1.00  0.00              
ATOM     44  CA  THR    44      -8.916  16.253 -14.316  1.00  0.00              
ATOM     45  CA  MET    45      -5.622  15.431 -12.783  1.00  0.00              
ATOM     46  CA  GLU    46      -3.052  12.798 -13.482  1.00  0.00              
ATOM     47  CA  PRO    47      -1.816  10.795 -10.453  1.00  0.00              
ATOM     48  CA  LEU    48       1.580  12.515 -10.326  1.00  0.00              
ATOM     49  CA  GLU    49      -0.103  15.926 -10.431  1.00  0.00              
ATOM     50  CA  TRP    50      -2.472  14.931  -7.589  1.00  0.00              
ATOM     51  CA  LEU    51       0.444  13.848  -5.390  1.00  0.00              
ATOM     52  CA  GLN    52       2.297  17.138  -6.046  1.00  0.00              
ATOM     53  CA  TRP    53      -0.811  19.143  -5.231  1.00  0.00              
ATOM     54  CA  VAL    54      -1.537  17.379  -1.917  1.00  0.00              
ATOM     55  CA  LEU    55       2.057  17.805  -0.661  1.00  0.00              
ATOM     56  CA  ILE    56       2.840  21.333  -1.776  1.00  0.00              
ATOM     57  CA  PRO    57       6.367  21.131  -3.224  1.00  0.00              
ATOM     58  CA  ARG    58       7.717  24.409  -1.905  1.00  0.00              
ATOM     59  CA  MET    59       6.447  23.377   1.508  1.00  0.00              
ATOM     60  CA  HIS    60       8.201  20.033   1.341  1.00  0.00              
ATOM     61  CA  ASP    61      11.457  21.783   0.400  1.00  0.00              
ATOM     62  CA  LEU    62      11.073  24.230   3.314  1.00  0.00              
ATOM     63  CA  LEU    63      10.394  21.366   5.743  1.00  0.00              
ATOM     64  CA  ASP    64      13.363  19.394   4.425  1.00  0.00              
ATOM     65  CA  ASN    65      15.678  22.420   4.737  1.00  0.00              
ATOM     66  CA  LYS    66      14.678  23.269   8.316  1.00  0.00              
ATOM     67  CA  GLN    67      13.053  26.636   7.448  1.00  0.00              
ATOM     68  CA  PRO    68       9.842  27.116   9.321  1.00  0.00              
ATOM     69  CA  LEU    69       6.596  26.948   7.352  1.00  0.00              
ATOM     70  CA  PRO    70       5.592  30.202   5.756  1.00  0.00              
ATOM     71  CA  GLY    71       2.912  32.125   7.578  1.00  0.00              
ATOM     72  CA  ALA    72       0.582  32.593   4.575  1.00  0.00              
ATOM     73  CA  PHE    73       0.796  28.834   3.760  1.00  0.00              
ATOM     74  CA  ALA    74       0.652  27.124   7.207  1.00  0.00              
ATOM     75  CA  VAL    75       2.817  24.167   6.450  1.00  0.00              
ATOM     76  CA  ALA    76       2.202  21.773   9.344  1.00  0.00              
ATOM     77  CA  PRO    77      -1.594  21.724   8.786  1.00  0.00              
ATOM     78  CA  TYR    78      -1.280  21.212   5.069  1.00  0.00              
ATOM     79  CA  TYR    79       1.200  18.283   5.286  1.00  0.00              
ATOM     80  CA  GLU    80      -0.888  16.419   7.820  1.00  0.00              
ATOM     81  CA  MET    81      -4.015  16.814   5.749  1.00  0.00              
ATOM     82  CA  ALA    82      -2.409  15.634   2.531  1.00  0.00              
ATOM     83  CA  LEU    83      -0.916  12.546   4.049  1.00  0.00              
ATOM     84  CA  ALA    84      -4.121  11.465   5.697  1.00  0.00              
ATOM     85  CA  THR    85      -6.308  11.836   2.579  1.00  0.00              
ATOM     86  CA  ASP    86      -3.981   9.887   0.372  1.00  0.00              
ATOM     87  CA  HIS    87      -3.979   6.794   2.633  1.00  0.00              
ATOM     88  CA  PRO    88      -0.362   6.650   3.623  1.00  0.00              
ATOM     89  CA  GLN    89      -0.098   2.980   2.585  1.00  0.00              
ATOM     90  CA  ARG    90      -1.655   3.935  -0.788  1.00  0.00              
ATOM     91  CA  ALA    91       0.967   6.654  -1.348  1.00  0.00              
ATOM     92  CA  LEU    92       3.811   4.226  -0.549  1.00  0.00              
ATOM     93  CA  ILE    93       2.303   1.723  -3.026  1.00  0.00              
ATOM     94  CA  LEU    94       2.079   4.332  -5.827  1.00  0.00              
ATOM     95  CA  ALA    95       5.678   5.358  -5.180  1.00  0.00              
ATOM     96  CA  GLU    96       6.851   1.765  -5.311  1.00  0.00              
ATOM     97  CA  LEU    97       4.931   1.084  -8.567  1.00  0.00              
ATOM     98  CA  GLU    98       6.429   4.205 -10.154  1.00  0.00              
ATOM     99  CA  LYS    99       9.921   3.041  -9.121  1.00  0.00              
ATOM    100  CA  LEU   100       9.333  -0.382 -10.626  1.00  0.00              
ATOM    101  CA  ASP   101       8.131   1.213 -13.842  1.00  0.00              
ATOM    102  CA  ALA   102      11.406   3.115 -14.164  1.00  0.00              
ATOM    103  CA  LEU   103      13.288  -0.168 -13.571  1.00  0.00              
ATOM    104  CA  PHE   104      11.186  -1.918 -16.270  1.00  0.00              
ATOM    105  CA  ALA   105      11.931   0.856 -18.763  1.00  0.00              
ATOM    106  CA  ASP   106      15.676   0.718 -18.067  1.00  0.00              
ATOM    107  CA  ASP   107      15.823  -3.097 -18.422  1.00  0.00              
ATOM    108  CA  ALA   108      16.941  -3.788 -14.885  1.00  0.00              
ATOM    109  CA  SER   109      14.678  -6.434 -13.250  1.00  0.00              
ATOM    110  CA  LEU   110      13.085  -5.107 -10.058  1.00  0.00              
ATOM    111  CA  GLU   111      10.104  -7.460  -9.878  1.00  0.00              
ATOM    112  CA  HIS   112      10.126  -9.020  -6.406  1.00  0.00              
ATOM    113  CA  HIS   113       8.388 -12.295  -7.276  1.00  0.00              
ATOM    114  CA  HIS   114      12.034 -12.184  -8.371  1.00  0.00              
ATOM    115  CA  HIS   115      11.085 -12.499 -12.456  1.00  0.00              
ATOM    116  CA  HIS   116      14.062 -11.969 -15.067  1.00  0.00              
ATOM    117  CA  HIS   117      14.292  -8.754 -16.670  1.00  0.00              
TER                                                                             
END
