
#######################################################
#                                                     #
#                        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  130 (  130),  selected  130 , name T0354TS599_2
# Molecule2: number of CA atoms  122 (  928),  selected  122 , name T0354.pdb
# PARAMETERS: T0354TS599_2.T0354.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    E       2      E       2           -
LGA    I       3      I       3           -
LGA    Q       4      Q       4           -
LGA    E       5      E       5           -
LGA    I       6      I       6           -
LGA    S       7      S       7           -
LGA    K       8      K       8           -
LGA    L       9      L       9           -
LGA    A      10      A      10           -
LGA    I      11      I      11           -
LGA    E      12      E      12           -
LGA    A      13      A      13           -
LGA    L      14      L      14           -
LGA    E      15      E      15           -
LGA    D      16      D      16           -
LGA    I      17      I      17           -
LGA    K      18      K      18           -
LGA    G      19      -       -           -
LGA    K      20      G      19           #
LGA    D      21      K      20          0.822
LGA    I      22      D      21          1.316
LGA    I      23      I      22          0.894
LGA    E      24      I      23          2.250
LGA    L      25      E      24          1.673
LGA    D      26      L      25          1.792
LGA    T      27      D      26          1.924
LGA    S      28      T      27          4.741
LGA    K      29      S      28          5.214
LGA    L      30      K      29          2.521
LGA    T      31      L      30           #
LGA    S      32      T      31          4.000
LGA    L      33      S      32           -
LGA    F      34      L      33           -
LGA    Q      35      F      34          3.380
LGA    R      36      Q      35          3.502
LGA    -       -      R      36           -
LGA    M      37      M      37          1.149
LGA    I      38      I      38          1.018
LGA    V      39      V      39          1.202
LGA    A      40      A      40          1.516
LGA    T      41      T      41          1.517
LGA    G      42      G      42          1.647
LGA    D      43      D      43          1.966
LGA    S      44      S      44          2.167
LGA    N      45      N      45          2.342
LGA    R      46      R      46          2.753
LGA    Q      47      Q      47          2.209
LGA    V      48      V      48          1.572
LGA    K      49      K      49          2.385
LGA    A      50      A      50          2.290
LGA    L      51      L      51          1.349
LGA    A      52      A      52          1.441
LGA    N      53      N      53          1.931
LGA    S      54      S      54          1.323
LGA    V      55      V      55          0.625
LGA    Q      56      Q      56          1.382
LGA    V      57      V      57          1.376
LGA    K      58      K      58          1.286
LGA    L      59      L      59          1.508
LGA    K      60      K      60          0.913
LGA    E      61      E      61          1.489
LGA    A      62      A      62          2.429
LGA    G      63      G      63          2.137
LGA    V      64      V      64          2.378
LGA    -       -      D      65           -
LGA    D      65      I      66          3.079
LGA    I      66      V      67           #
LGA    V      67      G      68          1.523
LGA    G      68      S      69          1.515
LGA    S      69      E      70          1.069
LGA    E      70      G      71          1.442
LGA    G      71      H      72          6.726
LGA    H      72      E      73           -
LGA    E      73      S      74          5.131
LGA    S      74      -       -           -
LGA    G      75      -       -           -
LGA    E      76      G      75          5.035
LGA    -       -      E      76           -
LGA    W      77      W      77          1.097
LGA    V      78      V      78          0.711
LGA    L      79      L      79          0.994
LGA    V      80      V      80          0.704
LGA    D      81      D      81          1.518
LGA    A      82      A      82          1.745
LGA    G      83      G      83          2.636
LGA    -       -      D      84           -
LGA    D      84      V      85          0.858
LGA    V      85      V      86          0.919
LGA    V      86      V      87          1.135
LGA    V      87      H      88          1.194
LGA    H      88      V      89          1.251
LGA    V      89      M      90          0.940
LGA    M      90      L      91          1.613
LGA    L      91      P      92          2.418
LGA    P      92      A      93          2.748
LGA    A      93      -       -           -
LGA    V      94      V      94          4.547
LGA    R      95      R      95           #
LGA    -       -      D      96           -
LGA    -       -      Y      97           -
LGA    -       -      Y      98           -
LGA    -       -      D      99           -
LGA    -       -      I     100           -
LGA    -       -      E     101           -
LGA    -       -      A     102           -
LGA    -       -      L     103           -
LGA    -       -      W     104           -
LGA    -       -      G     105           -
LGA    -       -      G     106           -
LGA    -       -      Q     107           -
LGA    -       -      K     108           -
LGA    -       -      P     109           -
LGA    -       -      S     110           -
LGA    -       -      F     111           -
LGA    -       -      A     112           -
LGA    -       -      V     113           -
LGA    -       -      G     114           -
LGA    D      96      A     115          1.873
LGA    -       -      A     116           -
LGA    Y      97      K     117          1.867
LGA    Y      98      P     118          2.617
LGA    D      99      W     119          5.395
LGA    I     100      S     120           -
LGA    E     101      A     121           -
LGA    A     102      V     122           -
LGA    L     103      -       -           -
LGA    W     104      -       -           -
LGA    G     105      -       -           -
LGA    G     106      -       -           -
LGA    Q     107      -       -           -
LGA    K     108      -       -           -
LGA    P     109      -       -           -
LGA    S     110      -       -           -
LGA    F     111      -       -           -
LGA    A     112      -       -           -
LGA    V     113      -       -           -
LGA    G     114      -       -           -
LGA    A     115      -       -           -
LGA    A     116      -       -           -
LGA    K     117      -       -           -
LGA    P     118      -       -           -
LGA    W     119      -       -           -
LGA    S     120      -       -           -
LGA    A     121      -       -           -
LGA    V     122      -       -           -
LGA    L     123      -       -           -
LGA    E     124      -       -           -
LGA    H     125      -       -           -
LGA    H     126      -       -           -
LGA    H     127      -       -           -
LGA    H     128      -       -           -
LGA    H     129      -       -           -
LGA    H     130      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  130  122    5.0     70    2.44    55.71     41.934     2.754

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =  -0.672794 * X  +  -0.678742 * Y  +  -0.294375 * Z  +  37.051060
  Y_new =  -0.342181 * X  +   0.638262 * Y  +  -0.689590 * Z  +  26.400833
  Z_new =   0.655942 * X  +  -0.363223 * Y  +  -0.661671 * Z  +  24.134441 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.639558    0.502034  [ DEG:  -151.2355     28.7645 ]
  Theta =  -0.715430   -2.426162  [ DEG:   -40.9911   -139.0089 ]
  Phi   =  -2.671092    0.470501  [ DEG:  -153.0423     26.9577 ]
 
# 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: T0354TS599_2                                  
REMARK     2: T0354.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0354TS599_2.T0354.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  130  122   5.0   70   2.44   55.71  41.934
REMARK  ---------------------------------------------------------- 
MOLECULE T0354TS599_2
PFRMAT TS                                                                       
TARGET T0354                                                                    
MODEL  2                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1      29.207  24.665  17.223  1.00  0.00              
ATOM      2  CA  GLU     2      26.692  22.335  16.184  1.00  0.00              
ATOM      3  CA  ILE     3      28.908  24.128  18.367  1.00  0.00              
ATOM      4  CA  GLN     4      25.587  24.211  20.981  1.00  0.00              
ATOM      5  CA  GLU     5      25.839  20.469  21.168  1.00  0.00              
ATOM      6  CA  ILE     6      29.529  20.412  21.912  1.00  0.00              
ATOM      7  CA  SER     7      29.186  23.003  24.622  1.00  0.00              
ATOM      8  CA  LYS     8      26.358  21.118  26.280  1.00  0.00              
ATOM      9  CA  LEU     9      28.149  17.836  26.203  1.00  0.00              
ATOM     10  CA  ALA    10      31.288  19.271  27.700  1.00  0.00              
ATOM     11  CA  ILE    11      29.412  21.040  30.430  1.00  0.00              
ATOM     12  CA  GLU    12      27.552  17.911  31.344  1.00  0.00              
ATOM     13  CA  ALA    13      30.712  15.751  31.551  1.00  0.00              
ATOM     14  CA  LEU    14      32.415  18.348  33.739  1.00  0.00              
ATOM     15  CA  GLU    15      29.440  18.552  36.069  1.00  0.00              
ATOM     16  CA  ASP    16      29.238  14.805  36.426  1.00  0.00              
ATOM     17  CA  ILE    17      32.880  14.558  37.395  1.00  0.00              
ATOM     18  CA  LYS    18      32.668  17.428  39.910  1.00  0.00              
ATOM     19  CA  GLY    19      35.033  19.606  37.928  1.00  0.00              
ATOM     20  CA  LYS    20      35.077  23.287  38.714  1.00  0.00              
ATOM     21  CA  ASP    21      37.772  23.948  36.057  1.00  0.00              
ATOM     22  CA  ILE    22      36.751  21.968  33.042  1.00  0.00              
ATOM     23  CA  ILE    23      38.869  21.427  29.925  1.00  0.00              
ATOM     24  CA  GLU    24      37.212  20.377  26.729  1.00  0.00              
ATOM     25  CA  LEU    25      39.189  19.196  23.698  1.00  0.00              
ATOM     26  CA  ASP    26      37.570  19.089  20.312  1.00  0.00              
ATOM     27  CA  THR    27      38.848  16.445  17.946  1.00  0.00              
ATOM     28  CA  SER    28      35.615  15.801  15.942  1.00  0.00              
ATOM     29  CA  LYS    29      36.388  16.760  12.373  1.00  0.00              
ATOM     30  CA  LEU    30      39.897  15.238  12.458  1.00  0.00              
ATOM     31  CA  THR    31      41.644  17.815  10.309  1.00  0.00              
ATOM     32  CA  SER    32      40.176  20.649  12.377  1.00  0.00              
ATOM     33  CA  LEU    33      41.289  18.919  15.568  1.00  0.00              
ATOM     34  CA  PHE    34      44.867  18.922  14.273  1.00  0.00              
ATOM     35  CA  GLN    35      44.741  22.720  14.001  1.00  0.00              
ATOM     36  CA  ARG    36      43.364  22.733  17.485  1.00  0.00              
ATOM     37  CA  MET    37      40.319  23.929  19.386  1.00  0.00              
ATOM     38  CA  ILE    38      40.513  24.005  23.116  1.00  0.00              
ATOM     39  CA  VAL    39      37.606  24.873  25.170  1.00  0.00              
ATOM     40  CA  ALA    40      38.125  25.945  28.674  1.00  0.00              
ATOM     41  CA  THR    41      35.445  26.192  31.042  1.00  0.00              
ATOM     42  CA  GLY    42      36.096  28.146  34.132  1.00  0.00              
ATOM     43  CA  ASP    43      33.587  28.581  36.735  1.00  0.00              
ATOM     44  CA  SER    44      34.172  32.052  38.019  1.00  0.00              
ATOM     45  CA  ASN    45      35.294  35.305  36.558  1.00  0.00              
ATOM     46  CA  ARG    46      38.517  35.348  38.621  1.00  0.00              
ATOM     47  CA  GLN    47      39.404  31.833  37.448  1.00  0.00              
ATOM     48  CA  VAL    48      38.764  32.789  33.841  1.00  0.00              
ATOM     49  CA  LYS    49      40.920  35.883  34.072  1.00  0.00              
ATOM     50  CA  ALA    50      43.706  33.916  35.620  1.00  0.00              
ATOM     51  CA  LEU    51      43.501  31.314  32.815  1.00  0.00              
ATOM     52  CA  ALA    52      43.508  33.989  30.091  1.00  0.00              
ATOM     53  CA  ASN    53      46.521  35.633  31.608  1.00  0.00              
ATOM     54  CA  SER    54      48.330  32.259  31.726  1.00  0.00              
ATOM     55  CA  VAL    55      47.430  31.568  28.098  1.00  0.00              
ATOM     56  CA  GLN    56      48.636  34.956  27.020  1.00  0.00              
ATOM     57  CA  VAL    57      51.951  34.343  28.794  1.00  0.00              
ATOM     58  CA  LYS    58      52.296  30.909  27.167  1.00  0.00              
ATOM     59  CA  LEU    59      51.637  32.377  23.717  1.00  0.00              
ATOM     60  CA  LYS    60      54.133  35.124  24.237  1.00  0.00              
ATOM     61  CA  GLU    61      56.787  32.674  25.294  1.00  0.00              
ATOM     62  CA  ALA    62      56.296  30.640  22.110  1.00  0.00              
ATOM     63  CA  GLY    63      56.459  33.752  19.846  1.00  0.00              
ATOM     64  CA  VAL    64      52.773  33.683  19.058  1.00  0.00              
ATOM     65  CA  ASP    65      50.606  36.721  18.860  1.00  0.00              
ATOM     66  CA  ILE    66      47.720  36.568  21.240  1.00  0.00              
ATOM     67  CA  VAL    67      44.779  37.780  19.461  1.00  0.00              
ATOM     68  CA  GLY    68      42.108  38.574  21.987  1.00  0.00              
ATOM     69  CA  SER    69      38.480  38.424  21.150  1.00  0.00              
ATOM     70  CA  GLU    70      35.873  39.542  23.699  1.00  0.00              
ATOM     71  CA  GLY    71      32.381  38.178  23.241  1.00  0.00              
ATOM     72  CA  HIS    72      30.152  41.222  23.489  1.00  0.00              
ATOM     73  CA  GLU    73      28.720  40.710  26.939  1.00  0.00              
ATOM     74  CA  SER    74      25.802  38.520  25.895  1.00  0.00              
ATOM     75  CA  GLY    75      26.631  35.553  28.165  1.00  0.00              
ATOM     76  CA  GLU    76      30.438  35.693  28.300  1.00  0.00              
ATOM     77  CA  TRP    77      32.677  34.059  25.680  1.00  0.00              
ATOM     78  CA  VAL    78      36.280  34.975  25.368  1.00  0.00              
ATOM     79  CA  LEU    79      38.233  33.984  22.342  1.00  0.00              
ATOM     80  CA  VAL    80      41.908  33.702  22.485  1.00  0.00              
ATOM     81  CA  ASP    81      43.882  32.992  19.453  1.00  0.00              
ATOM     82  CA  ALA    82      47.078  31.379  19.957  1.00  0.00              
ATOM     83  CA  GLY    83      47.805  29.122  17.037  1.00  0.00              
ATOM     84  CA  ASP    84      45.367  26.341  18.088  1.00  0.00              
ATOM     85  CA  VAL    85      42.376  28.353  19.134  1.00  0.00              
ATOM     86  CA  VAL    86      41.423  28.626  22.666  1.00  0.00              
ATOM     87  CA  VAL    87      37.988  29.388  23.750  1.00  0.00              
ATOM     88  CA  HIS    88      37.072  30.438  27.115  1.00  0.00              
ATOM     89  CA  VAL    89      33.758  30.027  28.481  1.00  0.00              
ATOM     90  CA  MET    90      32.706  31.414  31.800  1.00  0.00              
ATOM     91  CA  LEU    91      29.874  29.878  33.702  1.00  0.00              
ATOM     92  CA  PRO    92      26.553  28.733  34.937  1.00  0.00              
ATOM     93  CA  ALA    93      24.938  32.170  35.443  1.00  0.00              
ATOM     94  CA  VAL    94      26.045  33.281  32.005  1.00  0.00              
ATOM     95  CA  ARG    95      24.655  30.167  30.282  1.00  0.00              
ATOM     96  CA  ASP    96      21.254  30.555  31.855  1.00  0.00              
ATOM     97  CA  TYR    97      21.018  34.247  30.906  1.00  0.00              
ATOM     98  CA  TYR    98      22.029  33.947  27.297  1.00  0.00              
ATOM     99  CA  ASP    99      20.130  30.833  26.132  1.00  0.00              
ATOM    100  CA  ILE   100      22.689  28.435  24.744  1.00  0.00              
ATOM    101  CA  GLU   101      21.449  28.637  21.117  1.00  0.00              
ATOM    102  CA  ALA   102      21.924  32.420  21.000  1.00  0.00              
ATOM    103  CA  LEU   103      25.419  32.255  22.376  1.00  0.00              
ATOM    104  CA  TRP   104      26.489  29.580  19.933  1.00  0.00              
ATOM    105  CA  GLY   105      25.343  31.670  17.016  1.00  0.00              
ATOM    106  CA  GLY   106      27.496  34.600  18.166  1.00  0.00              
ATOM    107  CA  GLN   107      30.734  32.635  18.569  1.00  0.00              
ATOM    108  CA  LYS   108      30.834  31.258  15.074  1.00  0.00              
ATOM    109  CA  PRO   109      32.901  28.124  15.158  1.00  0.00              
ATOM    110  CA  SER   110      35.305  28.538  12.318  1.00  0.00              
ATOM    111  CA  PHE   111      36.202  25.675  10.055  1.00  0.00              
ATOM    112  CA  ALA   112      39.913  26.124   9.617  1.00  0.00              
ATOM    113  CA  VAL   113      40.858  23.654   6.906  1.00  0.00              
ATOM    114  CA  GLY   114      44.596  24.399   6.628  1.00  0.00              
ATOM    115  CA  ALA   115      45.756  21.415   4.678  1.00  0.00              
ATOM    116  CA  ALA   116      43.728  18.440   5.696  1.00  0.00              
ATOM    117  CA  LYS   117      46.445  15.890   6.628  1.00  0.00              
ATOM    118  CA  PRO   118      46.309  15.252  10.331  1.00  0.00              
ATOM    119  CA  TRP   119      45.096  11.752  10.974  1.00  0.00              
ATOM    120  CA  SER   120      46.395  11.100  14.434  1.00  0.00              
ATOM    121  CA  ALA   121      43.520   9.056  15.940  1.00  0.00              
ATOM    122  CA  VAL   122      43.142  10.657  19.338  1.00  0.00              
ATOM    123  CA  LEU   123      39.545  11.296  20.523  1.00  0.00              
ATOM    124  CA  GLU   124      39.573   9.270  23.680  1.00  0.00              
ATOM    125  CA  HIS   125      38.498  11.892  26.209  1.00  0.00              
ATOM    126  CA  HIS   126      35.815  10.695  28.592  1.00  0.00              
ATOM    127  CA  HIS   127      35.414  14.299  29.826  1.00  0.00              
ATOM    128  CA  HIS   128      38.701  16.866  29.251  1.00  0.00              
ATOM    129  CA  HIS   129      41.941  16.793  26.867  1.00  0.00              
ATOM    130  CA  HIS   130      43.776  20.576  26.844  1.00  0.00              
TER                                                                             
END
