
#######################################################
#                                                     #
#                        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  133 (  133),  selected  133 , name T0307TS599_4
# Molecule2: number of CA atoms  132 ( 1005),  selected  132 , name T0307.pdb
# PARAMETERS: T0307TS599_4.T0307.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      M       1           -
LGA    G       2      G       2           -
LGA    L       3      L       3           -
LGA    G       4      G       4           -
LGA    -       -      R       5           -
LGA    R       5      Q       6           #
LGA    Q       6      S       7          2.021
LGA    S       7      -       -           -
LGA    L       8      L       8          2.352
LGA    N       9      N       9          2.302
LGA    I      10      I      10          1.483
LGA    M      11      M      11          2.771
LGA    T      12      T      12          2.423
LGA    F      13      F      13          3.158
LGA    S      14      S      14          1.315
LGA    G      15      G      15          1.633
LGA    Q      16      Q      16          1.135
LGA    E      17      E      17          0.658
LGA    L      18      L      18          1.146
LGA    T      19      T      19          0.849
LGA    A      20      A      20          0.266
LGA    I      21      I      21          1.256
LGA    I      22      I      22          1.599
LGA    K      23      K      23          0.458
LGA    M      24      M      24          1.682
LGA    A      25      A      25          2.291
LGA    K      26      K      26          1.652
LGA    S      27      S      27          2.007
LGA    M      28      M      28          3.251
LGA    V      29      V      29          3.547
LGA    -       -      M      30           -
LGA    -       -      A      31           -
LGA    -       -      D      32           -
LGA    -       -      G      33           -
LGA    -       -      K      34           -
LGA    -       -      I      35           -
LGA    M      30      K      36           #
LGA    A      31      P      37          3.169
LGA    D      32      A      38          2.910
LGA    -       -      E      39           -
LGA    -       -      I      40           -
LGA    G      33      A      41          2.415
LGA    K      34      V      42          1.388
LGA    I      35      M      43          1.139
LGA    K      36      T      44          0.997
LGA    P      37      R      45           -
LGA    A      38      E      46           -
LGA    E      39      F      47          2.726
LGA    -       -      M      48           -
LGA    -       -      R      49           -
LGA    I      40      F      50          4.478
LGA    A      41      G      51          5.316
LGA    -       -      I      52           -
LGA    -       -      L      53           -
LGA    -       -      Q      54           -
LGA    -       -      D      55           -
LGA    -       -      Q      56           -
LGA    -       -      V      57           -
LGA    -       -      D      58           -
LGA    -       -      L      59           -
LGA    -       -      L      60           -
LGA    -       -      L      61           -
LGA    -       -      K      62           -
LGA    -       -      A      63           -
LGA    -       -      S      64           -
LGA    -       -      D      65           -
LGA    -       -      S      66           -
LGA    -       -      I      67           -
LGA    -       -      E      68           -
LGA    -       -      A      69           -
LGA    -       -      S      70           -
LGA    -       -      Q      71           -
LGA    -       -      A      72           -
LGA    -       -      V      73           -
LGA    -       -      A      74           -
LGA    V      42      L      75           #
LGA    -       -      I      76           -
LGA    -       -      A      77           -
LGA    -       -      R      78           -
LGA    M      43      M      79           #
LGA    T      44      -       -           -
LGA    R      45      -       -           -
LGA    E      46      -       -           -
LGA    F      47      -       -           -
LGA    M      48      -       -           -
LGA    R      49      -       -           -
LGA    F      50      -       -           -
LGA    G      51      -       -           -
LGA    I      52      -       -           -
LGA    L      53      -       -           -
LGA    Q      54      -       -           -
LGA    D      55      -       -           -
LGA    Q      56      -       -           -
LGA    V      57      -       -           -
LGA    D      58      D      80          3.952
LGA    L      59      E      81          4.025
LGA    L      60      E      82          2.993
LGA    L      61      R      83          1.711
LGA    K      62      K      84          2.411
LGA    A      63      K      85          1.673
LGA    S      64      Y      86          0.959
LGA    D      65      V      87          1.830
LGA    S      66      A      88          1.971
LGA    I      67      S      89          1.771
LGA    E      68      Y      90          1.856
LGA    A      69      L      91          2.018
LGA    S      70      G      92          2.257
LGA    Q      71      V      93          2.361
LGA    A      72      I      94          2.201
LGA    V      73      M      95          3.441
LGA    A      74      A      96          3.994
LGA    L      75      S      97          4.621
LGA    I      76      D      98           -
LGA    -       -      G      99           -
LGA    -       -      D     100           -
LGA    -       -      I     101           -
LGA    -       -      D     102           -
LGA    -       -      D     103           -
LGA    -       -      N     104           -
LGA    A      77      E     105           #
LGA    R      78      L     106           -
LGA    M      79      A     107           -
LGA    D      80      L     108           -
LGA    E      81      W     109           -
LGA    E      82      T     110           -
LGA    R      83      L     111           -
LGA    K      84      I     112           -
LGA    K      85      S     113           -
LGA    Y      86      T     114           -
LGA    V      87      L     115           -
LGA    A      88      C     116           -
LGA    S      89      G     117           -
LGA    Y      90      L     118           -
LGA    L      91      P     119           -
LGA    G      92      T     120           -
LGA    V      93      M     121           -
LGA    I      94      T     122           -
LGA    M      95      V     123           -
LGA    A      96      M     124           -
LGA    S      97      E     125           -
LGA    D      98      A     126           -
LGA    G      99      I     127           -
LGA    D     100      N     128           -
LGA    I     101      N     129           -
LGA    D     102      M     130           -
LGA    D     103      K     131           -
LGA    N     104      N     132           -
LGA    E     105      -       -           -
LGA    L     106      -       -           -
LGA    A     107      -       -           -
LGA    L     108      -       -           -
LGA    W     109      -       -           -
LGA    T     110      -       -           -
LGA    L     111      -       -           -
LGA    I     112      -       -           -
LGA    S     113      -       -           -
LGA    T     114      -       -           -
LGA    L     115      -       -           -
LGA    C     116      -       -           -
LGA    G     117      -       -           -
LGA    L     118      -       -           -
LGA    P     119      -       -           -
LGA    T     120      -       -           -
LGA    M     121      -       -           -
LGA    T     122      -       -           -
LGA    V     123      -       -           -
LGA    M     124      -       -           -
LGA    E     125      -       -           -
LGA    A     126      -       -           -
LGA    I     127      -       -           -
LGA    N     128      -       -           -
LGA    N     129      -       -           -
LGA    M     130      -       -           -
LGA    K     131      -       -           -
LGA    N     132      -       -           -
LGA    L     133      -       -           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  133  132    5.0     50    2.50    50.00     27.429     1.927

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.183763 * X  +   0.757146 * Y  +  -0.626866 * Z  +  21.110821
  Y_new =  -0.771013 * X  +   0.506601 * Y  +   0.385868 * Z  +  13.779627
  Z_new =   0.609729 * X  +   0.412414 * Y  +   0.676864 * Z  +  18.693401 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.547231   -2.594362  [ DEG:    31.3540   -148.6460 ]
  Theta =  -0.655719   -2.485873  [ DEG:   -37.5699   -142.4301 ]
  Phi   =  -1.336822    1.804771  [ DEG:   -76.5943    103.4057 ]
 
# 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: T0307TS599_4                                  
REMARK     2: T0307.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0307TS599_4.T0307.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  133  132   5.0   50   2.50   50.00  27.429
REMARK  ---------------------------------------------------------- 
MOLECULE T0307TS599_4
PFRMAT TS                                                                       
TARGET T0307                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      1  CA  MET     1       8.589  21.504  39.316  1.00  0.00              
ATOM      2  CA  GLY     2       6.780  22.297  42.317  1.00  0.00              
ATOM      3  CA  LEU     3       2.901  21.086  42.597  1.00  0.00              
ATOM      4  CA  GLY     4       0.844  20.802  45.841  1.00  0.00              
ATOM      5  CA  ARG     5       1.053  17.683  48.007  1.00  0.00              
ATOM      6  CA  GLN     6      -2.175  16.099  46.645  1.00  0.00              
ATOM      7  CA  SER     7      -0.947  16.719  43.059  1.00  0.00              
ATOM      8  CA  LEU     8       2.777  16.202  43.172  1.00  0.00              
ATOM      9  CA  ASN     9       4.997  17.150  40.322  1.00  0.00              
ATOM     10  CA  ILE    10       8.525  17.697  41.494  1.00  0.00              
ATOM     11  CA  MET    11      11.651  17.002  39.375  1.00  0.00              
ATOM     12  CA  THR    12      14.981  17.417  41.068  1.00  0.00              
ATOM     13  CA  PHE    13      18.235  17.711  39.220  1.00  0.00              
ATOM     14  CA  SER    14      20.861  16.545  41.642  1.00  0.00              
ATOM     15  CA  GLY    15      24.433  16.364  40.478  1.00  0.00              
ATOM     16  CA  GLN    16      24.540  12.576  40.037  1.00  0.00              
ATOM     17  CA  GLU    17      21.355  12.284  37.975  1.00  0.00              
ATOM     18  CA  LEU    18      22.456  15.051  35.615  1.00  0.00              
ATOM     19  CA  THR    19      25.905  13.455  35.065  1.00  0.00              
ATOM     20  CA  ALA    20      24.346  10.052  34.335  1.00  0.00              
ATOM     21  CA  ILE    21      21.939  11.629  31.815  1.00  0.00              
ATOM     22  CA  ILE    22      24.874  13.434  30.115  1.00  0.00              
ATOM     23  CA  LYS    23      26.891  10.253  29.885  1.00  0.00              
ATOM     24  CA  MET    24      23.853   8.510  28.316  1.00  0.00              
ATOM     25  CA  ALA    25      23.322  11.331  25.796  1.00  0.00              
ATOM     26  CA  LYS    26      26.900  11.332  24.628  1.00  0.00              
ATOM     27  CA  SER    27      27.062   7.518  24.093  1.00  0.00              
ATOM     28  CA  MET    28      23.789   7.764  22.065  1.00  0.00              
ATOM     29  CA  VAL    29      24.624  10.761  19.829  1.00  0.00              
ATOM     30  CA  MET    30      21.889  13.268  19.028  1.00  0.00              
ATOM     31  CA  ALA    31      21.890  14.837  15.491  1.00  0.00              
ATOM     32  CA  ASP    32      18.245  15.991  15.147  1.00  0.00              
ATOM     33  CA  GLY    33      18.454  17.844  18.470  1.00  0.00              
ATOM     34  CA  LYS    34      16.717  15.317  20.671  1.00  0.00              
ATOM     35  CA  ILE    35      19.285  15.135  23.458  1.00  0.00              
ATOM     36  CA  LYS    36      20.729  18.270  24.982  1.00  0.00              
ATOM     37  CA  PRO    37      23.857  18.117  27.131  1.00  0.00              
ATOM     38  CA  ALA    38      22.103  19.494  30.217  1.00  0.00              
ATOM     39  CA  GLU    39      19.156  17.135  30.285  1.00  0.00              
ATOM     40  CA  ILE    40      18.868  16.359  34.021  1.00  0.00              
ATOM     41  CA  ALA    41      15.573  15.554  35.851  1.00  0.00              
ATOM     42  CA  VAL    42      15.433  12.736  38.380  1.00  0.00              
ATOM     43  CA  MET    43      13.461  12.902  41.667  1.00  0.00              
ATOM     44  CA  THR    44      11.545   9.727  42.368  1.00  0.00              
ATOM     45  CA  ARG    45      12.191   9.404  46.094  1.00  0.00              
ATOM     46  CA  GLU    46      11.209  12.999  46.713  1.00  0.00              
ATOM     47  CA  PHE    47       7.944  12.683  44.772  1.00  0.00              
ATOM     48  CA  MET    48       7.012   9.486  46.697  1.00  0.00              
ATOM     49  CA  ARG    49       7.897  11.254  49.953  1.00  0.00              
ATOM     50  CA  PHE    50       5.409  14.108  49.180  1.00  0.00              
ATOM     51  CA  GLY    51       2.695  11.628  48.394  1.00  0.00              
ATOM     52  CA  ILE    52       1.697  12.541  44.897  1.00  0.00              
ATOM     53  CA  LEU    53       0.817   9.000  43.744  1.00  0.00              
ATOM     54  CA  GLN    54       3.796   6.882  44.867  1.00  0.00              
ATOM     55  CA  ASP    55       3.183   4.185  42.222  1.00  0.00              
ATOM     56  CA  GLN    56       2.634   7.030  39.738  1.00  0.00              
ATOM     57  CA  VAL    57       6.021   8.737  40.322  1.00  0.00              
ATOM     58  CA  ASP    58       8.570   5.884  40.174  1.00  0.00              
ATOM     59  CA  LEU    59       6.590   4.529  37.155  1.00  0.00              
ATOM     60  CA  LEU    60       6.759   7.838  35.202  1.00  0.00              
ATOM     61  CA  LEU    61      10.514   7.967  35.874  1.00  0.00              
ATOM     62  CA  LYS    62      11.137   4.379  34.702  1.00  0.00              
ATOM     63  CA  ALA    63       9.111   5.133  31.554  1.00  0.00              
ATOM     64  CA  SER    64      11.033   8.348  30.804  1.00  0.00              
ATOM     65  CA  ASP    65      14.313   6.428  30.645  1.00  0.00              
ATOM     66  CA  SER    66      12.767   3.847  28.277  1.00  0.00              
ATOM     67  CA  ILE    67      11.208   6.113  25.655  1.00  0.00              
ATOM     68  CA  GLU    68      14.344   8.259  25.512  1.00  0.00              
ATOM     69  CA  ALA    69      16.734   5.364  24.875  1.00  0.00              
ATOM     70  CA  SER    70      14.794   3.849  22.048  1.00  0.00              
ATOM     71  CA  GLN    71      14.348   7.155  20.203  1.00  0.00              
ATOM     72  CA  ALA    72      17.999   8.126  20.401  1.00  0.00              
ATOM     73  CA  VAL    73      19.700   5.036  18.974  1.00  0.00              
ATOM     74  CA  ALA    74      17.208   5.080  16.113  1.00  0.00              
ATOM     75  CA  LEU    75      17.781   8.754  15.359  1.00  0.00              
ATOM     76  CA  ILE    76      21.557   8.378  15.248  1.00  0.00              
ATOM     77  CA  ALA    77      21.336   5.449  12.924  1.00  0.00              
ATOM     78  CA  ARG    78      19.040   7.368  10.501  1.00  0.00              
ATOM     79  CA  MET    79      21.235  10.505  10.354  1.00  0.00              
ATOM     80  CA  ASP    80      24.360   8.390   9.631  1.00  0.00              
ATOM     81  CA  GLU    81      22.634   6.406   6.837  1.00  0.00              
ATOM     82  CA  GLU    82      21.427   9.647   5.187  1.00  0.00              
ATOM     83  CA  ARG    83      24.953  11.109   5.387  1.00  0.00              
ATOM     84  CA  LYS    84      26.353   7.902   3.818  1.00  0.00              
ATOM     85  CA  LYS    85      23.859   7.967   0.964  1.00  0.00              
ATOM     86  CA  TYR    86      24.662  11.641   0.238  1.00  0.00              
ATOM     87  CA  VAL    87      28.392  10.933   0.289  1.00  0.00              
ATOM     88  CA  ALA    88      28.153   7.960  -2.164  1.00  0.00              
ATOM     89  CA  SER    89      26.092  10.040  -4.559  1.00  0.00              
ATOM     90  CA  TYR    90      28.538  12.931  -4.394  1.00  0.00              
ATOM     91  CA  LEU    91      31.666  10.756  -4.903  1.00  0.00              
ATOM     92  CA  GLY    92      29.907   9.014  -7.765  1.00  0.00              
ATOM     93  CA  VAL    93      29.324  12.459  -9.362  1.00  0.00              
ATOM     94  CA  ILE    94      32.491  14.505  -8.758  1.00  0.00              
ATOM     95  CA  MET    95      31.896  18.211  -8.616  1.00  0.00              
ATOM     96  CA  ALA    96      34.699  20.705  -8.713  1.00  0.00              
ATOM     97  CA  SER    97      33.955  24.455  -8.905  1.00  0.00              
ATOM     98  CA  ASP    98      34.759  25.318 -12.547  1.00  0.00              
ATOM     99  CA  GLY    99      32.699  22.474 -13.951  1.00  0.00              
ATOM    100  CA  ASP   100      35.499  20.450 -15.552  1.00  0.00              
ATOM    101  CA  ILE   101      34.998  17.266 -13.694  1.00  0.00              
ATOM    102  CA  ASP   102      34.661  13.946 -15.392  1.00  0.00              
ATOM    103  CA  ASP   103      31.637  11.910 -14.375  1.00  0.00              
ATOM    104  CA  ASN   104      33.571   9.457 -12.124  1.00  0.00              
ATOM    105  CA  GLU   105      35.852  12.016 -10.597  1.00  0.00              
ATOM    106  CA  LEU   106      36.685  15.069  -8.719  1.00  0.00              
ATOM    107  CA  ALA   107      34.734  16.584  -5.898  1.00  0.00              
ATOM    108  CA  LEU   108      35.787  20.062  -4.698  1.00  0.00              
ATOM    109  CA  TRP   109      34.165  20.322  -1.263  1.00  0.00              
ATOM    110  CA  THR   110      35.267  16.698  -0.838  1.00  0.00              
ATOM    111  CA  LEU   111      38.911  17.649  -1.395  1.00  0.00              
ATOM    112  CA  ILE   112      38.735  20.599   1.007  1.00  0.00              
ATOM    113  CA  SER   113      36.817  18.529   3.546  1.00  0.00              
ATOM    114  CA  THR   114      39.500  15.907   3.510  1.00  0.00              
ATOM    115  CA  LEU   115      42.313  18.347   4.016  1.00  0.00              
ATOM    116  CA  CYS   116      40.436  20.301   6.734  1.00  0.00              
ATOM    117  CA  GLY   117      38.945  17.381   8.540  1.00  0.00              
ATOM    118  CA  LEU   118      35.336  18.359   7.645  1.00  0.00              
ATOM    119  CA  PRO   119      33.155  15.344   7.996  1.00  0.00              
ATOM    120  CA  THR   120      31.673  14.057   4.817  1.00  0.00              
ATOM    121  CA  MET   121      27.920  14.349   5.736  1.00  0.00              
ATOM    122  CA  THR   122      28.549  18.050   6.507  1.00  0.00              
ATOM    123  CA  VAL   123      30.597  18.850   3.372  1.00  0.00              
ATOM    124  CA  MET   124      28.071  17.212   1.096  1.00  0.00              
ATOM    125  CA  GLU   125      25.296  19.312   2.705  1.00  0.00              
ATOM    126  CA  ALA   126      27.295  22.478   2.227  1.00  0.00              
ATOM    127  CA  ILE   127      27.979  21.781  -1.442  1.00  0.00              
ATOM    128  CA  ASN   128      24.278  21.063  -2.024  1.00  0.00              
ATOM    129  CA  ASN   129      23.285  24.311  -0.426  1.00  0.00              
ATOM    130  CA  MET   130      25.745  26.408  -2.518  1.00  0.00              
ATOM    131  CA  LYS   131      24.163  24.449  -5.905  1.00  0.00              
ATOM    132  CA  ASN   132      25.364  27.289  -4.081  1.00  0.00              
ATOM    133  CA  LEU   133      26.551  29.423  -1.445  1.00  0.00              
TER                                                                             
END
