
#######################################################
#                                                     #
#                        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  123 (  123),  selected  123 , name T0382TS599_2
# Molecule2: number of CA atoms  121 (  929),  selected  121 , name T0382.pdb
# PARAMETERS: T0382TS599_2.T0382.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      K       3           -
LGA    S       2      L       4           -
LGA    -       -      D       5           -
LGA    -       -      L       6           -
LGA    -       -      H       7           -
LGA    -       -      Q       8           -
LGA    -       -      M       9           -
LGA    -       -      T      10           -
LGA    -       -      T      11           -
LGA    -       -      Q      12           -
LGA    -       -      D      13           -
LGA    -       -      L      14           -
LGA    -       -      V      15           -
LGA    -       -      A      16           -
LGA    -       -      L      17           -
LGA    -       -      F      18           -
LGA    -       -      A      19           -
LGA    -       -      K      20           -
LGA    -       -      V      21           -
LGA    -       -      T      22           -
LGA    K       3      V      23          4.085
LGA    L       4      E      24          2.498
LGA    -       -      Q      25           -
LGA    -       -      D      26           -
LGA    D       5      D      27          2.436
LGA    -       -      A      28           -
LGA    L       6      L      29          4.404
LGA    H       7      L      30          2.997
LGA    Q       8      G      31          2.894
LGA    M       9      N      32           #
LGA    T      10      Q      33          0.978
LGA    T      11      I      34          0.776
LGA    Q      12      S      35          1.130
LGA    D      13      R      36          0.924
LGA    L      14      F      37          0.761
LGA    V      15      N      38          0.905
LGA    A      16      R      39          1.130
LGA    L      17      L      40          1.115
LGA    F      18      F      41          1.237
LGA    A      19      G      42          1.552
LGA    K      20      V      43          1.544
LGA    V      21      M      44          1.362
LGA    T      22      A      45          1.617
LGA    V      23      E      46          2.031
LGA    E      24      I      47          1.755
LGA    Q      25      A      48          1.280
LGA    D      26      D      49          1.942
LGA    D      27      E      50          2.885
LGA    A      28      L      51          2.659
LGA    L      29      K      52          1.662
LGA    L      30      A      53          2.549
LGA    G      31      R      54          3.713
LGA    N      32      D      55          1.844
LGA    Q      33      -       -           -
LGA    I      34      G      56           #
LGA    S      35      D      57           -
LGA    R      36      -       -           -
LGA    F      37      Q      58          2.750
LGA    N      38      -       -           -
LGA    R      39      -       -           -
LGA    L      40      R      59          4.907
LGA    F      41      T      60          3.221
LGA    G      42      A      61          3.200
LGA    V      43      L      62          3.309
LGA    M      44      L      63          3.844
LGA    A      45      S      64          2.992
LGA    E      46      L      65          1.124
LGA    I      47      F      66          3.433
LGA    A      48      E      67           #
LGA    D      49      Y      68           #
LGA    -       -      P      69           -
LGA    -       -      N      70           -
LGA    -       -      M      71           -
LGA    -       -      Q      72           -
LGA    -       -      V      73           -
LGA    E      50      R      74          4.396
LGA    L      51      L      75           #
LGA    -       -      Q      76           -
LGA    -       -      A      77           -
LGA    -       -      A      78           -
LGA    -       -      K      79           -
LGA    -       -      L      80           -
LGA    -       -      T      81           -
LGA    -       -      L      82           -
LGA    -       -      A      83           -
LGA    -       -      V      84           -
LGA    -       -      A      85           -
LGA    -       -      P      86           -
LGA    -       -      V      87           -
LGA    -       -      K      88           -
LGA    -       -      A      89           -
LGA    -       -      R      90           -
LGA    -       -      E      91           -
LGA    K      52      Q      92          3.904
LGA    A      53      L      93           -
LGA    R      54      E      94           -
LGA    -       -      A      95           -
LGA    D      55      I      96           #
LGA    G      56      V      97           #
LGA    D      57      S      98          3.748
LGA    Q      58      S      99          3.158
LGA    R      59      K     100          4.252
LGA    T      60      W     101           -
LGA    A      61      F     102          5.878
LGA    L      62      P     103          3.985
LGA    L      63      Q     104          5.006
LGA    S      64      A     105          5.549
LGA    L      65      G     106          2.617
LGA    F      66      D     107          2.433
LGA    -       -      A     108           -
LGA    E      67      G     109           #
LGA    Y      68      M     110           #
LGA    P      69      -       -           -
LGA    N      70      -       -           -
LGA    M      71      -       -           -
LGA    Q      72      -       -           -
LGA    V      73      -       -           -
LGA    R      74      -       -           -
LGA    L      75      -       -           -
LGA    Q      76      -       -           -
LGA    A      77      -       -           -
LGA    A      78      -       -           -
LGA    K      79      -       -           -
LGA    L      80      -       -           -
LGA    T      81      -       -           -
LGA    L      82      -       -           -
LGA    A      83      C     111           #
LGA    V      84      L     112           -
LGA    A      85      D     113           -
LGA    P      86      L     114           -
LGA    -       -      L     115           -
LGA    -       -      D     116           -
LGA    -       -      D     117           -
LGA    -       -      G     118           -
LGA    -       -      T     119           -
LGA    -       -      F     120           -
LGA    -       -      K     121           -
LGA    V      87      P     122          5.286
LGA    K      88      K     123           -
LGA    A      89      -       -           -
LGA    R      90      -       -           -
LGA    E      91      -       -           -
LGA    Q      92      -       -           -
LGA    L      93      -       -           -
LGA    E      94      -       -           -
LGA    A      95      -       -           -
LGA    I      96      -       -           -
LGA    V      97      -       -           -
LGA    S      98      -       -           -
LGA    S      99      -       -           -
LGA    K     100      -       -           -
LGA    W     101      -       -           -
LGA    F     102      -       -           -
LGA    P     103      -       -           -
LGA    Q     104      -       -           -
LGA    A     105      -       -           -
LGA    G     106      -       -           -
LGA    D     107      -       -           -
LGA    A     108      -       -           -
LGA    G     109      -       -           -
LGA    M     110      -       -           -
LGA    C     111      -       -           -
LGA    L     112      -       -           -
LGA    D     113      -       -           -
LGA    L     114      -       -           -
LGA    L     115      -       -           -
LGA    D     116      -       -           -
LGA    D     117      -       -           -
LGA    G     118      -       -           -
LGA    T     119      -       -           -
LGA    F     120      -       -           -
LGA    K     121      -       -           -
LGA    P     122      -       -           -
LGA    K     123      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  123  121    5.0     50    3.04    10.00     28.600     1.592

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.566599 * X  +  -0.290441 * Y  +   0.771109 * Z  + -12.273265
  Y_new =   0.823948 * X  +   0.209567 * Y  +  -0.526490 * Z  +  44.632896
  Z_new =  -0.008684 * X  +   0.933663 * Y  +   0.358049 * Z  +   9.291683 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   1.204605   -1.936988  [ DEG:    69.0188   -110.9812 ]
  Theta =   0.008684    3.132908  [ DEG:     0.4976    179.5024 ]
  Phi   =   0.968398   -2.173195  [ DEG:    55.4851   -124.5149 ]
 
# 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: T0382TS599_2                                  
REMARK     2: T0382.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0382TS599_2.T0382.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  123  121   5.0   50   3.04   10.00  28.600
REMARK  ---------------------------------------------------------- 
MOLECULE T0382TS599_2
PFRMAT TS                                                                       
TARGET T0382                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1     -18.215  39.654   8.374  1.00  0.00              
ATOM      2  CA  SER     2     -19.913  36.243   6.584  1.00  0.00              
ATOM      3  CA  LYS     3     -18.181  32.416   6.731  1.00  0.00              
ATOM      4  CA  LEU     4     -14.627  32.754   8.488  1.00  0.00              
ATOM      5  CA  ASP     5     -15.234  31.858  12.102  1.00  0.00              
ATOM      6  CA  LEU     6     -13.532  34.476  14.333  1.00  0.00              
ATOM      7  CA  HIS     7     -12.588  32.108  17.172  1.00  0.00              
ATOM      8  CA  GLN     8     -10.552  29.898  14.793  1.00  0.00              
ATOM      9  CA  MET     9      -8.764  32.561  12.841  1.00  0.00              
ATOM     10  CA  THR    10      -5.001  32.829  13.151  1.00  0.00              
ATOM     11  CA  THR    11      -3.314  36.170  12.609  1.00  0.00              
ATOM     12  CA  GLN    12      -1.664  34.923   9.468  1.00  0.00              
ATOM     13  CA  ASP    13      -4.926  33.797   7.996  1.00  0.00              
ATOM     14  CA  LEU    14      -6.651  37.048   8.730  1.00  0.00              
ATOM     15  CA  VAL    15      -3.815  39.116   7.398  1.00  0.00              
ATOM     16  CA  ALA    16      -3.607  37.221   4.140  1.00  0.00              
ATOM     17  CA  LEU    17      -7.355  37.478   3.577  1.00  0.00              
ATOM     18  CA  PHE    18      -7.414  41.182   4.231  1.00  0.00              
ATOM     19  CA  ALA    19      -4.465  41.774   1.897  1.00  0.00              
ATOM     20  CA  LYS    20      -6.103  39.834  -0.862  1.00  0.00              
ATOM     21  CA  VAL    21      -9.319  41.854  -0.609  1.00  0.00              
ATOM     22  CA  THR    22      -7.435  45.168  -0.705  1.00  0.00              
ATOM     23  CA  VAL    23      -5.477  43.965  -3.712  1.00  0.00              
ATOM     24  CA  GLU    24      -8.472  42.748  -5.706  1.00  0.00              
ATOM     25  CA  GLN    25     -10.410  45.967  -5.342  1.00  0.00              
ATOM     26  CA  ASP    26      -7.583  48.198  -6.355  1.00  0.00              
ATOM     27  CA  ASP    27      -6.534  46.303  -9.443  1.00  0.00              
ATOM     28  CA  ALA    28      -9.975  45.825 -10.906  1.00  0.00              
ATOM     29  CA  LEU    29     -11.004  49.420 -10.583  1.00  0.00              
ATOM     30  CA  LEU    30      -7.774  50.748 -12.182  1.00  0.00              
ATOM     31  CA  GLY    31      -8.098  48.492 -15.215  1.00  0.00              
ATOM     32  CA  ASN    32     -11.761  49.324 -15.768  1.00  0.00              
ATOM     33  CA  GLN    33     -13.088  45.844 -16.234  1.00  0.00              
ATOM     34  CA  ILE    34     -16.828  46.281 -16.698  1.00  0.00              
ATOM     35  CA  SER    35     -18.009  42.752 -15.786  1.00  0.00              
ATOM     36  CA  ARG    36     -15.535  42.007 -13.075  1.00  0.00              
ATOM     37  CA  PHE    37     -16.026  45.594 -11.773  1.00  0.00              
ATOM     38  CA  ASN    38     -19.727  45.073 -11.406  1.00  0.00              
ATOM     39  CA  ARG    39     -19.039  41.846  -9.484  1.00  0.00              
ATOM     40  CA  LEU    40     -16.552  43.669  -7.220  1.00  0.00              
ATOM     41  CA  PHE    41     -19.102  46.442  -6.614  1.00  0.00              
ATOM     42  CA  GLY    42     -21.850  43.954  -5.724  1.00  0.00              
ATOM     43  CA  VAL    43     -19.633  42.321  -3.087  1.00  0.00              
ATOM     44  CA  MET    44     -18.732  45.736  -1.622  1.00  0.00              
ATOM     45  CA  ALA    45     -22.422  46.704  -1.621  1.00  0.00              
ATOM     46  CA  GLU    46     -23.353  43.521   0.286  1.00  0.00              
ATOM     47  CA  ILE    47     -20.593  44.259   2.858  1.00  0.00              
ATOM     48  CA  ALA    48     -21.815  47.856   3.253  1.00  0.00              
ATOM     49  CA  ASP    49     -25.377  46.667   3.754  1.00  0.00              
ATOM     50  CA  GLU    50     -24.241  44.219   6.490  1.00  0.00              
ATOM     51  CA  LEU    51     -22.266  46.921   8.253  1.00  0.00              
ATOM     52  CA  LYS    52     -25.184  49.390   7.998  1.00  0.00              
ATOM     53  CA  ALA    53     -27.496  46.784   9.532  1.00  0.00              
ATOM     54  CA  ARG    54     -25.319  46.291  12.639  1.00  0.00              
ATOM     55  CA  ASP    55     -27.172  47.815  15.538  1.00  0.00              
ATOM     56  CA  GLY    56     -26.135  51.443  16.090  1.00  0.00              
ATOM     57  CA  ASP    57     -24.385  51.100  19.323  1.00  0.00              
ATOM     58  CA  GLN    58     -22.226  48.116  18.226  1.00  0.00              
ATOM     59  CA  ARG    59     -21.155  49.085  14.765  1.00  0.00              
ATOM     60  CA  THR    60     -20.061  52.514  15.875  1.00  0.00              
ATOM     61  CA  ALA    61     -18.002  51.006  18.758  1.00  0.00              
ATOM     62  CA  LEU    62     -16.358  48.550  16.381  1.00  0.00              
ATOM     63  CA  LEU    63     -15.455  51.233  13.858  1.00  0.00              
ATOM     64  CA  SER    64     -13.968  53.303  16.603  1.00  0.00              
ATOM     65  CA  LEU    65     -11.896  50.445  17.900  1.00  0.00              
ATOM     66  CA  PHE    66     -10.359  49.812  14.408  1.00  0.00              
ATOM     67  CA  GLU    67      -9.148  53.406  14.278  1.00  0.00              
ATOM     68  CA  TYR    68      -7.313  53.110  17.534  1.00  0.00              
ATOM     69  CA  PRO    69      -3.558  53.352  17.469  1.00  0.00              
ATOM     70  CA  ASN    70      -2.932  50.373  19.729  1.00  0.00              
ATOM     71  CA  MET    71      -4.407  51.348  23.100  1.00  0.00              
ATOM     72  CA  GLN    72      -5.709  47.774  23.809  1.00  0.00              
ATOM     73  CA  VAL    73      -5.743  46.031  20.486  1.00  0.00              
ATOM     74  CA  ARG    74      -7.921  43.172  19.527  1.00  0.00              
ATOM     75  CA  LEU    75      -7.271  41.288  16.323  1.00  0.00              
ATOM     76  CA  GLN    76     -10.182  38.858  15.773  1.00  0.00              
ATOM     77  CA  ALA    77     -13.001  41.193  16.713  1.00  0.00              
ATOM     78  CA  ALA    78     -11.774  43.981  14.457  1.00  0.00              
ATOM     79  CA  LYS    79     -11.476  41.514  11.546  1.00  0.00              
ATOM     80  CA  LEU    80     -14.899  40.036  12.220  1.00  0.00              
ATOM     81  CA  THR    81     -16.602  43.396  12.401  1.00  0.00              
ATOM     82  CA  LEU    82     -15.207  44.743   9.180  1.00  0.00              
ATOM     83  CA  ALA    83     -16.699  47.435   6.856  1.00  0.00              
ATOM     84  CA  VAL    84     -15.488  47.267   3.312  1.00  0.00              
ATOM     85  CA  ALA    85     -14.277  50.466   1.578  1.00  0.00              
ATOM     86  CA  PRO    86     -11.184  49.867  -0.571  1.00  0.00              
ATOM     87  CA  VAL    87      -9.029  52.698   0.742  1.00  0.00              
ATOM     88  CA  LYS    88      -9.798  52.124   4.423  1.00  0.00              
ATOM     89  CA  ALA    89      -9.343  48.410   4.100  1.00  0.00              
ATOM     90  CA  ARG    90      -5.871  48.865   2.520  1.00  0.00              
ATOM     91  CA  GLU    91      -4.817  51.235   5.257  1.00  0.00              
ATOM     92  CA  GLN    92      -5.935  48.857   8.078  1.00  0.00              
ATOM     93  CA  LEU    93      -4.184  45.892   6.538  1.00  0.00              
ATOM     94  CA  GLU    94      -0.995  47.891   6.195  1.00  0.00              
ATOM     95  CA  ALA    95      -1.130  49.050   9.748  1.00  0.00              
ATOM     96  CA  ILE    96      -1.627  45.501  11.037  1.00  0.00              
ATOM     97  CA  VAL    97       1.217  44.202   9.009  1.00  0.00              
ATOM     98  CA  SER    98       3.524  46.942  10.227  1.00  0.00              
ATOM     99  CA  SER    99       2.738  46.619  13.882  1.00  0.00              
ATOM    100  CA  LYS   100       3.761  42.931  14.039  1.00  0.00              
ATOM    101  CA  TRP   101       0.499  41.295  14.051  1.00  0.00              
ATOM    102  CA  PHE   102       0.322  40.262  17.646  1.00  0.00              
ATOM    103  CA  PRO   103      -2.305  42.537  19.088  1.00  0.00              
ATOM    104  CA  GLN   104      -4.423  40.278  21.331  1.00  0.00              
ATOM    105  CA  ALA   105      -5.089  42.055  24.599  1.00  0.00              
ATOM    106  CA  GLY   106      -8.795  42.134  24.936  1.00  0.00              
ATOM    107  CA  ASP   107     -10.098  38.796  23.843  1.00  0.00              
ATOM    108  CA  ALA   108     -12.663  39.306  21.050  1.00  0.00              
ATOM    109  CA  GLY   109     -15.715  37.752  22.839  1.00  0.00              
ATOM    110  CA  MET   110     -14.882  39.923  25.874  1.00  0.00              
ATOM    111  CA  CYS   111     -14.602  43.139  23.841  1.00  0.00              
ATOM    112  CA  LEU   112     -17.901  42.773  22.009  1.00  0.00              
ATOM    113  CA  ASP   113     -19.662  42.082  25.341  1.00  0.00              
ATOM    114  CA  LEU   114     -18.035  45.116  27.010  1.00  0.00              
ATOM    115  CA  LEU   115     -18.914  47.502  24.189  1.00  0.00              
ATOM    116  CA  ASP   116     -22.543  46.361  24.144  1.00  0.00              
ATOM    117  CA  ASP   117     -22.865  46.626  27.958  1.00  0.00              
ATOM    118  CA  GLY   118     -21.461  50.125  28.222  1.00  0.00              
ATOM    119  CA  THR   119     -18.262  49.078  30.016  1.00  0.00              
ATOM    120  CA  PHE   120     -15.431  49.142  27.538  1.00  0.00              
ATOM    121  CA  LYS   121     -12.327  50.824  28.189  1.00  0.00              
ATOM    122  CA  PRO   122      -9.976  49.844  24.839  1.00  0.00              
ATOM    123  CA  LYS   123      -9.073  53.165  23.138  1.00  0.00              
TER                                                                             
END
