
#######################################################
#                                                     #
#                        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  132 (  132),  selected  132 , name T0312TS599_4-D1
# Molecule2: number of CA atoms  132 ( 1043),  selected  132 , name T0312_D1.pdb
# PARAMETERS: T0312TS599_4-D1.T0312_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    -       -      G       9           -
LGA    -       -      K      10           -
LGA    -       -      G      11           -
LGA    G       9      F      12          0.942
LGA    K      10      L      13          4.233
LGA    G      11      L      14          1.096
LGA    F      12      R      15          2.974
LGA    L      13      L      16          1.794
LGA    L      14      D      17          1.323
LGA    R      15      Y      18          0.840
LGA    L      16      G      19          1.143
LGA    D      17      -       -           -
LGA    Y      18      -       -           -
LGA    G      19      -       -           -
LGA    K      20      -       -           -
LGA    D      21      -       -           -
LGA    L      22      K      20          0.863
LGA    V      23      D      21          1.368
LGA    R      24      L      22           #
LGA    Q      25      V      23           -
LGA    I      26      R      24           #
LGA    E      27      Q      25          1.688
LGA    E      28      I      26           #
LGA    F      29      E      27           -
LGA    L      30      E      28          4.564
LGA    E      31      F      29          2.620
LGA    E      32      L      30           -
LGA    K      33      E      31           -
LGA    G      34      E      32          3.607
LGA    I      35      K      33          5.472
LGA    H      36      G      34           #
LGA    -       -      I      35           -
LGA    -       -      H      36           -
LGA    -       -      A      37           -
LGA    -       -      A      38           -
LGA    -       -      H      39           -
LGA    A      37      I      40           #
LGA    A      38      S      41           -
LGA    H      39      A      42           #
LGA    I      40      I      43           -
LGA    -       -      G      44           -
LGA    S      41      A      45          5.048
LGA    A      42      V      46          3.318
LGA    I      43      R      47          2.375
LGA    G      44      S      48           #
LGA    A      45      A      49           -
LGA    -       -      V      50           -
LGA    -       -      I      51           -
LGA    -       -      G      52           -
LGA    -       -      Y      53           -
LGA    -       -      Y      54           -
LGA    -       -      D      55           -
LGA    -       -      Q      56           -
LGA    -       -      E      57           -
LGA    -       -      K      58           -
LGA    -       -      K      59           -
LGA    -       -      E      60           -
LGA    -       -      Y      61           -
LGA    -       -      V      62           -
LGA    -       -      K      63           -
LGA    -       -      K      64           -
LGA    -       -      E      65           -
LGA    -       -      L      66           -
LGA    V      46      M      67           #
LGA    R      47      -       -           -
LGA    S      48      -       -           -
LGA    A      49      E      68          2.149
LGA    V      50      P      69          1.894
LGA    I      51      -       -           -
LGA    G      52      -       -           -
LGA    Y      53      -       -           -
LGA    Y      54      -       -           -
LGA    D      55      -       -           -
LGA    Q      56      -       -           -
LGA    E      57      -       -           -
LGA    K      58      -       -           -
LGA    K      59      -       -           -
LGA    E      60      -       -           -
LGA    Y      61      -       -           -
LGA    V      62      -       -           -
LGA    K      63      -       -           -
LGA    K      64      -       -           -
LGA    E      65      -       -           -
LGA    L      66      -       -           -
LGA    M      67      -       -           -
LGA    E      68      -       -           -
LGA    P      69      -       -           -
LGA    L      70      -       -           -
LGA    E      71      -       -           -
LGA    I      72      L      70          2.236
LGA    L      73      E      71           #
LGA    S      74      I      72          3.105
LGA    -       -      L      73           -
LGA    L      75      S      74           #
LGA    S      76      L      75          2.852
LGA    G      77      S      76           #
LGA    N      78      G      77          2.392
LGA    V      79      N      78          2.938
LGA    S      80      V      79          2.501
LGA    M      81      S      80          2.280
LGA    K      82      M      81           #
LGA    D      83      -       -           -
LGA    S      84      -       -           -
LGA    K      85      -       -           -
LGA    P      86      K      82           #
LGA    -       -      D      83           -
LGA    -       -      S      84           -
LGA    -       -      K      85           -
LGA    -       -      P      86           -
LGA    -       -      F      87           -
LGA    F      87      C      88          4.179
LGA    C      88      H      89          2.457
LGA    H      89      I      90          2.118
LGA    I      90      H      91          0.382
LGA    H      91      V      92          2.585
LGA    V      92      L      93          0.879
LGA    L      93      L      94          3.226
LGA    L      94      G      95          2.175
LGA    G      95      K      96          3.662
LGA    K      96      D      97          3.855
LGA    D      97      G      98          3.963
LGA    G      98      E      99           #
LGA    E      99      V     100           #
LGA    V     100      -       -           -
LGA    Y     101      Y     101          5.280
LGA    G     102      G     102          4.623
LGA    G     103      -       -           -
LGA    H     104      -       -           -
LGA    L     105      -       -           -
LGA    F     106      -       -           -
LGA    S     107      -       -           -
LGA    A     108      -       -           -
LGA    E     109      -       -           -
LGA    V     110      -       -           -
LGA    F     111      -       -           -
LGA    A     112      -       -           -
LGA    C     113      -       -           -
LGA    E     114      -       -           -
LGA    V     115      -       -           -
LGA    F     116      -       -           -
LGA    V     117      -       -           -
LGA    L     118      G     103          1.698
LGA    P     119      H     104           #
LGA    L     120      L     105           -
LGA    S     121      F     106           -
LGA    G     122      S     107           -
LGA    E     123      A     108           -
LGA    A     124      E     109           -
LGA    P     125      V     110           -
LGA    E     126      F     111           -
LGA    R     127      A     112           -
LGA    A     128      C     113           -
LGA    F     129      E     114           -
LGA    D     130      V     115           -
LGA    E     131      F     116           -
LGA    Q     132      V     117           -
LGA    T     133      L     118           -
LGA    G     134      P     119           -
LGA    -       -      L     120           -
LGA    -       -      S     121           -
LGA    -       -      G     122           -
LGA    -       -      E     123           -
LGA    -       -      A     124           -
LGA    -       -      P     125           -
LGA    -       -      E     126           -
LGA    -       -      R     127           -
LGA    -       -      A     128           -
LGA    -       -      F     129           -
LGA    -       -      D     130           -
LGA    -       -      E     131           -
LGA    L     135      Q     132           #
LGA    F     136      T     133          3.582
LGA    L     137      G     134          1.931
LGA    W     138      L     135          1.827
LGA    L     139      F     136          2.598
LGA    E     140      L     137           -
LGA    -       -      W     138           -
LGA    -       -      L     139           -
LGA    -       -      E     140           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  132  132    5.0     45    2.92     8.89     21.444     1.489

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.234028 * X  +   0.831267 * Y  +  -0.504209 * Z  +  52.471962
  Y_new =  -0.531205 * X  +  -0.325028 * Y  +  -0.782418 * Z  +   5.102502
  Z_new =  -0.814280 * X  +   0.450946 * Y  +   0.365507 * Z  +  14.829140 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =   0.889665   -2.251928  [ DEG:    50.9740   -129.0260 ]
  Theta =   0.951488    2.190105  [ DEG:    54.5162    125.4837 ]
  Phi   =  -1.155819    1.985773  [ DEG:   -66.2236    113.7764 ]
 
# 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: T0312TS599_4-D1                               
REMARK     2: T0312_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0312TS599_4-D1.T0312_D1.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  132  132   5.0   45   2.92    8.89  21.444
REMARK  ---------------------------------------------------------- 
MOLECULE T0312TS599_4-D1
PFRMAT TS                                                                       
TARGET T0312                                                                    
MODEL  4                                                                        
PARENT N/A                                                                      
ATOM      9  CA  GLY     9      62.432  19.985  20.421  1.00  0.00              
ATOM     10  CA  LYS    10      62.215  21.527  16.999  1.00  0.00              
ATOM     11  CA  GLY    11      59.251  20.368  14.993  1.00  0.00              
ATOM     12  CA  PHE    12      59.587  19.208  11.396  1.00  0.00              
ATOM     13  CA  LEU    13      56.494  18.372   9.452  1.00  0.00              
ATOM     14  CA  LEU    14      56.666  15.898   6.618  1.00  0.00              
ATOM     15  CA  ARG    15      53.730  15.393   4.293  1.00  0.00              
ATOM     16  CA  LEU    16      53.514  12.251   2.241  1.00  0.00              
ATOM     17  CA  ASP    17      50.872  11.640  -0.397  1.00  0.00              
ATOM     18  CA  TYR    18      49.829   8.055  -0.983  1.00  0.00              
ATOM     19  CA  GLY    19      52.567   5.664  -2.235  1.00  0.00              
ATOM     20  CA  LYS    20      55.386   7.837  -1.041  1.00  0.00              
ATOM     21  CA  ASP    21      58.427   7.828   1.248  1.00  0.00              
ATOM     22  CA  LEU    22      57.847  10.977   3.267  1.00  0.00              
ATOM     23  CA  VAL    23      58.453   9.396   6.686  1.00  0.00              
ATOM     24  CA  ARG    24      61.945   8.319   5.717  1.00  0.00              
ATOM     25  CA  GLN    25      62.750  11.870   4.524  1.00  0.00              
ATOM     26  CA  ILE    26      61.355  13.480   7.659  1.00  0.00              
ATOM     27  CA  GLU    27      63.387  11.119   9.880  1.00  0.00              
ATOM     28  CA  GLU    28      66.461  11.960   7.936  1.00  0.00              
ATOM     29  CA  PHE    29      65.803  15.693   8.224  1.00  0.00              
ATOM     30  CA  LEU    30      65.227  15.630  11.933  1.00  0.00              
ATOM     31  CA  GLU    31      68.350  13.667  12.490  1.00  0.00              
ATOM     32  CA  GLU    32      70.504  15.919  10.273  1.00  0.00              
ATOM     33  CA  LYS    33      69.480  19.081  11.985  1.00  0.00              
ATOM     34  CA  GLY    34      69.751  17.595  15.504  1.00  0.00              
ATOM     35  CA  ILE    35      66.079  18.323  16.273  1.00  0.00              
ATOM     36  CA  HIS    36      63.893  16.352  18.442  1.00  0.00              
ATOM     37  CA  ALA    37      60.542  15.927  16.812  1.00  0.00              
ATOM     38  CA  ALA    38      59.386  14.861  13.362  1.00  0.00              
ATOM     39  CA  HIS    39      55.681  14.936  12.383  1.00  0.00              
ATOM     40  CA  ILE    40      54.630  12.771   9.506  1.00  0.00              
ATOM     41  CA  SER    41      51.373  13.281   7.729  1.00  0.00              
ATOM     42  CA  ALA    42      50.375  10.696   5.192  1.00  0.00              
ATOM     43  CA  ILE    43      47.347  11.340   3.029  1.00  0.00              
ATOM     44  CA  GLY    44      45.948   8.544   0.910  1.00  0.00              
ATOM     45  CA  ALA    45      42.963   9.010  -1.167  1.00  0.00              
ATOM     46  CA  VAL    46      41.257   5.659  -1.434  1.00  0.00              
ATOM     47  CA  ARG    47      37.857   6.515   0.131  1.00  0.00              
ATOM     48  CA  SER    48      39.632   8.745   2.638  1.00  0.00              
ATOM     49  CA  ALA    49      42.721   7.378   4.458  1.00  0.00              
ATOM     50  CA  VAL    50      44.620   9.720   6.692  1.00  0.00              
ATOM     51  CA  ILE    51      47.726   8.525   8.402  1.00  0.00              
ATOM     52  CA  GLY    52      49.200  10.586  11.146  1.00  0.00              
ATOM     53  CA  TYR    53      52.703   9.769  12.525  1.00  0.00              
ATOM     54  CA  TYR    54      53.828  11.449  15.658  1.00  0.00              
ATOM     55  CA  ASP    55      57.293  11.061  17.159  1.00  0.00              
ATOM     56  CA  GLN    56      57.395  11.235  20.901  1.00  0.00              
ATOM     57  CA  GLU    57      57.033  14.585  22.560  1.00  0.00              
ATOM     58  CA  LYS    58      53.404  14.850  23.763  1.00  0.00              
ATOM     59  CA  LYS    59      52.388  18.237  22.356  1.00  0.00              
ATOM     60  CA  GLU    60      49.398  17.259  20.294  1.00  0.00              
ATOM     61  CA  TYR    61      49.680  18.417  16.628  1.00  0.00              
ATOM     62  CA  VAL    62      46.464  16.903  15.399  1.00  0.00              
ATOM     63  CA  LYS    63      44.467  18.585  12.702  1.00  0.00              
ATOM     64  CA  LYS    64      43.365  16.372   9.904  1.00  0.00              
ATOM     65  CA  GLU    65      41.613  16.996   6.663  1.00  0.00              
ATOM     66  CA  LEU    66      39.684  13.980   5.259  1.00  0.00              
ATOM     67  CA  MET    67      37.895  14.192   1.956  1.00  0.00              
ATOM     68  CA  GLU    68      36.116  10.910   1.599  1.00  0.00              
ATOM     69  CA  PRO    69      34.624   8.620   4.299  1.00  0.00              
ATOM     70  CA  LEU    70      37.289   8.901   6.932  1.00  0.00              
ATOM     71  CA  GLU    71      39.632   6.527   8.454  1.00  0.00              
ATOM     72  CA  ILE    72      42.238   7.982  10.654  1.00  0.00              
ATOM     73  CA  LEU    73      45.177   6.104  11.528  1.00  0.00              
ATOM     74  CA  SER    74      47.361   7.500  14.150  1.00  0.00              
ATOM     75  CA  LEU    75      50.824   6.107  14.674  1.00  0.00              
ATOM     76  CA  SER    76      52.758   7.119  17.684  1.00  0.00              
ATOM     77  CA  GLY    77      56.406   6.273  17.806  1.00  0.00              
ATOM     78  CA  ASN    78      58.304   6.636  21.004  1.00  0.00              
ATOM     79  CA  VAL    79      61.933   6.236  21.090  1.00  0.00              
ATOM     80  CA  SER    80      63.626   5.929  24.433  1.00  0.00              
ATOM     81  CA  MET    81      67.336   5.218  24.815  1.00  0.00              
ATOM     82  CA  LYS    82      68.191   3.076  27.799  1.00  0.00              
ATOM     83  CA  ASP    83      71.366   1.306  26.808  1.00  0.00              
ATOM     84  CA  SER    84      69.795  -1.350  24.646  1.00  0.00              
ATOM     85  CA  LYS    85      67.606   0.675  22.365  1.00  0.00              
ATOM     86  CA  PRO    86      64.146   1.360  23.626  1.00  0.00              
ATOM     87  CA  PHE    87      61.570   1.555  21.003  1.00  0.00              
ATOM     88  CA  CYS    88      57.918   1.988  21.764  1.00  0.00              
ATOM     89  CA  HIS    89      55.370   1.855  18.946  1.00  0.00              
ATOM     90  CA  ILE    90      51.840   2.955  19.544  1.00  0.00              
ATOM     91  CA  HIS    91      49.128   2.289  17.034  1.00  0.00              
ATOM     92  CA  VAL    92      45.901   4.300  17.349  1.00  0.00              
ATOM     93  CA  LEU    93      42.885   3.605  15.130  1.00  0.00              
ATOM     94  CA  LEU    94      40.322   6.283  14.615  1.00  0.00              
ATOM     95  CA  GLY    95      37.024   5.524  12.868  1.00  0.00              
ATOM     96  CA  LYS    96      35.270   8.205  10.753  1.00  0.00              
ATOM     97  CA  ASP    97      32.859   9.009  13.547  1.00  0.00              
ATOM     98  CA  GLY    98      35.630   9.809  16.070  1.00  0.00              
ATOM     99  CA  GLU    99      35.509   6.688  18.111  1.00  0.00              
ATOM    100  CA  VAL   100      38.921   5.776  19.128  1.00  0.00              
ATOM    101  CA  TYR   101      39.904   2.211  19.116  1.00  0.00              
ATOM    102  CA  GLY   102      43.063   1.061  20.961  1.00  0.00              
ATOM    103  CA  GLY   103      44.103  -2.645  20.979  1.00  0.00              
ATOM    104  CA  HIS   104      46.154  -3.041  23.969  1.00  0.00              
ATOM    105  CA  LEU   105      46.139  -6.765  24.531  1.00  0.00              
ATOM    106  CA  PHE   106      47.131  -7.970  21.040  1.00  0.00              
ATOM    107  CA  SER   107      49.970  -5.514  20.629  1.00  0.00              
ATOM    108  CA  ALA   108      51.791  -5.613  24.019  1.00  0.00              
ATOM    109  CA  GLU   109      51.797  -9.411  23.656  1.00  0.00              
ATOM    110  CA  VAL   110      53.308 -10.038  20.156  1.00  0.00              
ATOM    111  CA  PHE   111      56.421  -7.782  20.241  1.00  0.00              
ATOM    112  CA  ALA   112      57.732  -7.603  23.691  1.00  0.00              
ATOM    113  CA  CYS   113      61.241  -6.301  24.069  1.00  0.00              
ATOM    114  CA  GLU   114      60.345  -3.367  21.822  1.00  0.00              
ATOM    115  CA  VAL   115      56.885  -2.562  23.088  1.00  0.00              
ATOM    116  CA  PHE   116      54.260  -2.770  20.553  1.00  0.00              
ATOM    117  CA  VAL   117      50.767  -1.522  21.257  1.00  0.00              
ATOM    118  CA  LEU   118      48.247  -2.218  18.479  1.00  0.00              
ATOM    119  CA  PRO   119      45.060  -0.511  17.508  1.00  0.00              
ATOM    120  CA  LEU   120      42.203  -3.046  17.164  1.00  0.00              
ATOM    121  CA  SER   121      39.009  -2.250  15.582  1.00  0.00              
ATOM    122  CA  GLY   122      36.413  -4.530  17.068  1.00  0.00              
ATOM    123  CA  GLU   123      38.559  -7.672  17.617  1.00  0.00              
ATOM    124  CA  ALA   124      39.049  -9.126  21.081  1.00  0.00              
ATOM    125  CA  PRO   125      42.810  -9.084  21.804  1.00  0.00              
ATOM    126  CA  GLU   126      43.427 -12.754  22.491  1.00  0.00              
ATOM    127  CA  ARG   127      41.362 -13.626  19.367  1.00  0.00              
ATOM    128  CA  ALA   128      43.108 -11.264  17.038  1.00  0.00              
ATOM    129  CA  PHE   129      46.689 -12.274  17.912  1.00  0.00              
ATOM    130  CA  ASP   130      46.442 -16.079  18.074  1.00  0.00              
ATOM    131  CA  GLU   131      46.450 -16.632  21.785  1.00  0.00              
ATOM    132  CA  GLN   132      48.614 -19.712  21.664  1.00  0.00              
ATOM    133  CA  THR   133      51.379 -18.211  19.445  1.00  0.00              
ATOM    134  CA  GLY   134      51.239 -15.081  21.494  1.00  0.00              
ATOM    135  CA  LEU   135      54.681 -14.910  22.929  1.00  0.00              
ATOM    136  CA  PHE   136      56.021 -11.413  23.068  1.00  0.00              
ATOM    137  CA  LEU   137      59.799 -11.093  22.633  1.00  0.00              
ATOM    138  CA  TRP   138      61.017  -8.283  20.428  1.00  0.00              
ATOM    139  CA  LEU   139      64.836  -8.361  20.386  1.00  0.00              
ATOM    140  CA  GLU   140      65.009 -12.144  20.043  1.00  0.00              
TER                                                                             
END
