
#######################################################
#                                                     #
#                        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_1-D1
# Molecule2: number of CA atoms  132 ( 1043),  selected  132 , name T0312_D1.pdb
# PARAMETERS: T0312TS599_1-D1.T0312_D1.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    G       9      G       9           -
LGA    K      10      -       -           -
LGA    G      11      -       -           -
LGA    F      12      -       -           -
LGA    L      13      -       -           -
LGA    L      14      -       -           -
LGA    R      15      -       -           -
LGA    L      16      -       -           -
LGA    D      17      -       -           -
LGA    Y      18      -       -           -
LGA    G      19      -       -           -
LGA    K      20      -       -           -
LGA    D      21      K      10          4.557
LGA    L      22      G      11          5.257
LGA    V      23      F      12          0.735
LGA    R      24      L      13           #
LGA    Q      25      -       -           -
LGA    I      26      L      14          2.848
LGA    E      27      R      15           #
LGA    E      28      -       -           -
LGA    F      29      -       -           -
LGA    L      30      -       -           -
LGA    E      31      -       -           -
LGA    E      32      -       -           -
LGA    K      33      -       -           -
LGA    G      34      -       -           -
LGA    I      35      -       -           -
LGA    H      36      -       -           -
LGA    A      37      -       -           -
LGA    A      38      L      16          3.764
LGA    H      39      D      17           #
LGA    -       -      Y      18           -
LGA    -       -      G      19           -
LGA    -       -      K      20           -
LGA    -       -      D      21           -
LGA    -       -      L      22           -
LGA    -       -      V      23           -
LGA    -       -      R      24           -
LGA    -       -      Q      25           -
LGA    I      40      I      26          3.212
LGA    S      41      E      27          3.282
LGA    -       -      E      28           -
LGA    -       -      F      29           -
LGA    A      42      L      30          1.302
LGA    I      43      E      31          2.058
LGA    G      44      E      32           #
LGA    A      45      K      33           #
LGA    V      46      G      34          4.045
LGA    R      47      I      35          4.374
LGA    -       -      H      36           -
LGA    S      48      A      37          4.672
LGA    A      49      A      38          4.155
LGA    V      50      H      39          5.106
LGA    I      51      I      40          4.600
LGA    G      52      S      41          4.522
LGA    Y      53      A      42          4.043
LGA    -       -      I      43           -
LGA    Y      54      G      44          2.603
LGA    D      55      A      45          2.807
LGA    Q      56      V      46          3.775
LGA    E      57      R      47          3.355
LGA    K      58      S      48          2.764
LGA    -       -      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    K      59      M      67           #
LGA    E      60      E      68           -
LGA    Y      61      P      69           -
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      -       -           -
LGA    L      73      -       -           -
LGA    S      74      -       -           -
LGA    L      75      -       -           -
LGA    S      76      -       -           -
LGA    G      77      -       -           -
LGA    N      78      -       -           -
LGA    V      79      -       -           -
LGA    S      80      -       -           -
LGA    M      81      L      70           #
LGA    K      82      E      71          2.038
LGA    D      83      I      72           #
LGA    S      84      -       -           -
LGA    K      85      -       -           -
LGA    P      86      L      73          4.242
LGA    F      87      S      74          2.041
LGA    C      88      L      75          3.692
LGA    H      89      S      76          2.039
LGA    I      90      G      77          2.180
LGA    H      91      N      78          2.254
LGA    V      92      V      79          2.899
LGA    L      93      S      80          1.459
LGA    L      94      M      81          2.464
LGA    G      95      K      82          4.072
LGA    K      96      D      83           #
LGA    D      97      S      84          2.212
LGA    G      98      K      85          4.145
LGA    E      99      P      86           #
LGA    V     100      -       -           -
LGA    Y     101      F      87           #
LGA    G     102      C      88           #
LGA    G     103      H      89          4.494
LGA    H     104      I      90          5.017
LGA    L     105      -       -           -
LGA    F     106      H      91          3.029
LGA    S     107      V      92          4.412
LGA    A     108      L      93           -
LGA    -       -      L      94           -
LGA    -       -      G      95           -
LGA    -       -      K      96           -
LGA    -       -      D      97           -
LGA    -       -      G      98           -
LGA    -       -      E      99           -
LGA    -       -      V     100           -
LGA    -       -      Y     101           -
LGA    -       -      G     102           -
LGA    E     109      G     103           #
LGA    V     110      H     104           #
LGA    F     111      L     105          4.322
LGA    A     112      F     106          3.384
LGA    C     113      S     107          1.647
LGA    E     114      A     108          1.222
LGA    V     115      E     109          4.375
LGA    F     116      V     110           -
LGA    V     117      F     111           -
LGA    L     118      A     112           -
LGA    P     119      C     113           -
LGA    L     120      E     114           -
LGA    S     121      V     115           -
LGA    G     122      F     116           -
LGA    E     123      V     117           -
LGA    A     124      L     118           -
LGA    P     125      P     119           -
LGA    E     126      L     120           -
LGA    R     127      S     121           -
LGA    A     128      G     122           -
LGA    F     129      E     123           -
LGA    D     130      A     124           -
LGA    E     131      P     125           -
LGA    Q     132      E     126           -
LGA    T     133      R     127           -
LGA    G     134      A     128           -
LGA    -       -      F     129           -
LGA    -       -      D     130           -
LGA    -       -      E     131           -
LGA    -       -      Q     132           -
LGA    -       -      T     133           -
LGA    L     135      G     134           #
LGA    F     136      L     135          4.998
LGA    L     137      F     136          4.012
LGA    W     138      L     137          1.298
LGA    L     139      W     138          3.367
LGA    -       -      L     139           -
LGA    E     140      E     140           #

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  132  132    5.0     48    3.52     8.33     19.964     1.325

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.890440 * X  +  -0.260969 * Y  +   0.372842 * Z  +  60.574863
  Y_new =   0.236788 * X  +   0.965298 * Y  +   0.110146 * Z  +   8.260468
  Z_new =  -0.388648 * X  +  -0.009794 * Y  +   0.921334 * Z  +  14.850131 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -0.010629    3.130963  [ DEG:    -0.6090    179.3910 ]
  Theta =   0.399164    2.742429  [ DEG:    22.8704    157.1296 ]
  Phi   =   0.259907   -2.881685  [ DEG:    14.8916   -165.1084 ]
 
# 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_1-D1                               
REMARK     2: T0312_D1.pdb                                  
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0312TS599_1-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   48   3.52    8.33  19.964
REMARK  ---------------------------------------------------------- 
MOLECULE T0312TS599_1-D1
PFRMAT TS                                                                       
TARGET T0312                                                                    
MODEL  1                                                                        
PARENT N/A                                                                      
ATOM      9  CA  GLY     9      52.237  15.554   2.126  1.00  0.00              
ATOM     10  CA  LYS    10      52.976  17.695   5.209  1.00  0.00              
ATOM     11  CA  GLY    11      55.431  15.705   7.393  1.00  0.00              
ATOM     12  CA  PHE    12      58.434  17.389   8.881  1.00  0.00              
ATOM     13  CA  LEU    13      61.499  15.319   9.715  1.00  0.00              
ATOM     14  CA  LEU    14      63.920  16.894  12.114  1.00  0.00              
ATOM     15  CA  ARG    15      67.466  15.621  12.488  1.00  0.00              
ATOM     16  CA  LEU    16      69.217  16.602  15.574  1.00  0.00              
ATOM     17  CA  ASP    17      73.003  16.975  15.976  1.00  0.00              
ATOM     18  CA  TYR    18      74.650  16.764  19.337  1.00  0.00              
ATOM     19  CA  GLY    19      73.747  19.613  21.631  1.00  0.00              
ATOM     20  CA  LYS    20      70.459  20.582  19.948  1.00  0.00              
ATOM     21  CA  ASP    21      67.267  21.059  21.978  1.00  0.00              
ATOM     22  CA  LEU    22      65.065  18.564  20.171  1.00  0.00              
ATOM     23  CA  VAL    23      61.683  19.500  21.171  1.00  0.00              
ATOM     24  CA  ARG    24      62.165  23.224  20.861  1.00  0.00              
ATOM     25  CA  GLN    25      63.710  22.972  17.471  1.00  0.00              
ATOM     26  CA  ILE    26      61.033  20.747  16.068  1.00  0.00              
ATOM     27  CA  GLU    27      58.077  22.741  17.203  1.00  0.00              
ATOM     28  CA  GLU    28      59.491  25.807  15.788  1.00  0.00              
ATOM     29  CA  PHE    29      60.340  24.385  12.448  1.00  0.00              
ATOM     30  CA  LEU    30      57.033  22.676  11.947  1.00  0.00              
ATOM     31  CA  GLU    31      55.060  25.750  12.805  1.00  0.00              
ATOM     32  CA  GLU    32      57.128  27.956  10.578  1.00  0.00              
ATOM     33  CA  LYS    33      56.762  25.825   7.522  1.00  0.00              
ATOM     34  CA  GLY    34      53.111  25.014   8.020  1.00  0.00              
ATOM     35  CA  ILE    35      53.882  21.286   8.367  1.00  0.00              
ATOM     36  CA  HIS    36      51.624  19.050  10.350  1.00  0.00              
ATOM     37  CA  ALA    37      53.506  16.225  12.076  1.00  0.00              
ATOM     38  CA  ALA    38      56.977  16.540  13.509  1.00  0.00              
ATOM     39  CA  HIS    39      59.393  13.616  13.622  1.00  0.00              
ATOM     40  CA  ILE    40      62.623  13.892  15.537  1.00  0.00              
ATOM     41  CA  SER    41      65.712  11.907  14.666  1.00  0.00              
ATOM     42  CA  ALA    42      68.629  11.906  16.968  1.00  0.00              
ATOM     43  CA  ILE    43      72.209  11.456  15.870  1.00  0.00              
ATOM     44  CA  GLY    44      74.790  10.987  18.624  1.00  0.00              
ATOM     45  CA  ALA    45      73.720  10.410  22.253  1.00  0.00              
ATOM     46  CA  VAL    46      70.568  12.468  22.426  1.00  0.00              
ATOM     47  CA  ARG    47      68.702  11.341  25.341  1.00  0.00              
ATOM     48  CA  SER    48      65.217  12.751  25.402  1.00  0.00              
ATOM     49  CA  ALA    49      63.603  13.415  22.086  1.00  0.00              
ATOM     50  CA  VAL    50      59.854  13.953  21.612  1.00  0.00              
ATOM     51  CA  ILE    51      58.344  13.283  18.210  1.00  0.00              
ATOM     52  CA  GLY    52      54.803  14.088  17.353  1.00  0.00              
ATOM     53  CA  TYR    53      53.053  12.207  14.524  1.00  0.00              
ATOM     54  CA  TYR    54      49.505  13.075  13.416  1.00  0.00              
ATOM     55  CA  ASP    55      47.676  10.520  11.260  1.00  0.00              
ATOM     56  CA  GLN    56      45.355  12.340   8.817  1.00  0.00              
ATOM     57  CA  GLU    57      44.952   9.778   6.079  1.00  0.00              
ATOM     58  CA  LYS    58      48.496   8.427   5.794  1.00  0.00              
ATOM     59  CA  LYS    59      48.720   8.849   1.976  1.00  0.00              
ATOM     60  CA  GLU    60      52.038  10.175   1.145  1.00  0.00              
ATOM     61  CA  TYR    61      54.644   7.789   2.426  1.00  0.00              
ATOM     62  CA  VAL    62      57.802   9.892   2.204  1.00  0.00              
ATOM     63  CA  LYS    63      60.728   7.588   2.548  1.00  0.00              
ATOM     64  CA  LYS    64      63.523   8.551   4.862  1.00  0.00              
ATOM     65  CA  GLU    65      66.966   7.122   4.400  1.00  0.00              
ATOM     66  CA  LEU    66      69.224   7.002   7.421  1.00  0.00              
ATOM     67  CA  MET    67      72.771   5.984   6.848  1.00  0.00              
ATOM     68  CA  GLU    68      75.000   5.556   9.731  1.00  0.00              
ATOM     69  CA  PRO    69      75.091   4.326  13.180  1.00  0.00              
ATOM     70  CA  LEU    70      72.862   6.792  15.003  1.00  0.00              
ATOM     71  CA  GLU    71      72.828   7.066  18.756  1.00  0.00              
ATOM     72  CA  ILE    72      69.607   7.945  20.243  1.00  0.00              
ATOM     73  CA  LEU    73      69.026   7.438  23.816  1.00  0.00              
ATOM     74  CA  SER    74      65.305   7.737  24.718  1.00  0.00              
ATOM     75  CA  LEU    75      62.897   8.869  22.020  1.00  0.00              
ATOM     76  CA  SER    76      59.329   9.323  22.655  1.00  0.00              
ATOM     77  CA  GLY    77      56.968   9.034  19.813  1.00  0.00              
ATOM     78  CA  ASN    78      53.449  10.121  20.008  1.00  0.00              
ATOM     79  CA  VAL    79      51.034   8.925  17.541  1.00  0.00              
ATOM     80  CA  SER    80      47.736  10.498  17.340  1.00  0.00              
ATOM     81  CA  MET    81      44.953   9.302  15.075  1.00  0.00              
ATOM     82  CA  LYS    82      43.240  12.327  13.445  1.00  0.00              
ATOM     83  CA  ASP    83      39.651  11.639  13.484  1.00  0.00              
ATOM     84  CA  SER    84      38.874   9.151  16.197  1.00  0.00              
ATOM     85  CA  LYS    85      41.220  10.296  19.023  1.00  0.00              
ATOM     86  CA  PRO    86      42.934   7.102  20.024  1.00  0.00              
ATOM     87  CA  PHE    87      46.422   8.066  21.135  1.00  0.00              
ATOM     88  CA  CYS    88      49.344   5.729  20.643  1.00  0.00              
ATOM     89  CA  HIS    89      52.556   6.110  22.679  1.00  0.00              
ATOM     90  CA  ILE    90      55.686   4.624  21.323  1.00  0.00              
ATOM     91  CA  HIS    91      58.911   4.519  23.151  1.00  0.00              
ATOM     92  CA  VAL    92      62.051   4.324  20.930  1.00  0.00              
ATOM     93  CA  LEU    93      65.478   3.434  22.149  1.00  0.00              
ATOM     94  CA  LEU    94      68.362   3.247  19.639  1.00  0.00              
ATOM     95  CA  GLY    95      71.731   2.121  20.831  1.00  0.00              
ATOM     96  CA  LYS    96      75.011   3.258  19.293  1.00  0.00              
ATOM     97  CA  ASP    97      75.592  -0.261  17.853  1.00  0.00              
ATOM     98  CA  GLY    98      72.360  -0.068  15.956  1.00  0.00              
ATOM     99  CA  GLU    99      70.192  -2.254  18.120  1.00  0.00              
ATOM    100  CA  VAL   100      66.776  -0.957  18.179  1.00  0.00              
ATOM    101  CA  TYR   101      64.596  -1.318  21.046  1.00  0.00              
ATOM    102  CA  GLY   102      60.898  -0.611  20.322  1.00  0.00              
ATOM    103  CA  GLY   103      58.327  -0.539  23.027  1.00  0.00              
ATOM    104  CA  HIS   104      54.804   0.478  22.479  1.00  0.00              
ATOM    105  CA  LEU   105      53.471  -1.928  19.933  1.00  0.00              
ATOM    106  CA  PHE   106      50.854   0.469  18.431  1.00  0.00              
ATOM    107  CA  SER   107      53.455   3.184  18.070  1.00  0.00              
ATOM    108  CA  ALA   108      56.126   0.964  16.467  1.00  0.00              
ATOM    109  CA  GLU   109      53.655  -0.504  14.028  1.00  0.00              
ATOM    110  CA  VAL   110      51.706   2.594  12.862  1.00  0.00              
ATOM    111  CA  PHE   111      54.300   5.296  12.573  1.00  0.00              
ATOM    112  CA  ALA   112      57.067   3.324  10.815  1.00  0.00              
ATOM    113  CA  CYS   113      54.789   1.940   8.105  1.00  0.00              
ATOM    114  CA  GLU   114      53.311   5.377   7.295  1.00  0.00              
ATOM    115  CA  VAL   115      56.746   7.028   7.288  1.00  0.00              
ATOM    116  CA  PHE   116      59.118   4.515   5.694  1.00  0.00              
ATOM    117  CA  VAL   117      62.591   4.535   7.162  1.00  0.00              
ATOM    118  CA  LEU   118      65.587   3.004   5.526  1.00  0.00              
ATOM    119  CA  PRO   119      68.756   2.268   7.554  1.00  0.00              
ATOM    120  CA  LEU   120      71.991   2.009   5.688  1.00  0.00              
ATOM    121  CA  SER   121      74.292   0.038   8.008  1.00  0.00              
ATOM    122  CA  GLY   122      73.324  -3.443   6.770  1.00  0.00              
ATOM    123  CA  GLU   123      69.542  -2.947   7.026  1.00  0.00              
ATOM    124  CA  ALA   124      67.025  -2.770   4.221  1.00  0.00              
ATOM    125  CA  PRO   125      63.984  -0.803   5.185  1.00  0.00              
ATOM    126  CA  GLU   126      61.176  -3.118   4.143  1.00  0.00              
ATOM    127  CA  ARG   127      63.144  -5.872   6.007  1.00  0.00              
ATOM    128  CA  ALA   128      63.718  -4.018   9.236  1.00  0.00              
ATOM    129  CA  PHE   129      60.255  -2.384   9.548  1.00  0.00              
ATOM    130  CA  ASP   130      57.954  -5.015   8.143  1.00  0.00              
ATOM    131  CA  GLU   131      59.196  -7.853  10.252  1.00  0.00              
ATOM    132  CA  GLN   132      55.888  -9.260  11.353  1.00  0.00              
ATOM    133  CA  THR   133      54.641  -6.085  13.004  1.00  0.00              
ATOM    134  CA  GLY   134      58.123  -5.204  14.260  1.00  0.00              
ATOM    135  CA  LEU   135      57.440  -3.861  17.720  1.00  0.00              
ATOM    136  CA  PHE   136      60.726  -4.784  19.457  1.00  0.00              
ATOM    137  CA  LEU   137      60.425  -4.927  23.234  1.00  0.00              
ATOM    138  CA  TRP   138      63.653  -4.062  25.134  1.00  0.00              
ATOM    139  CA  LEU   139      63.994  -5.554  28.576  1.00  0.00              
ATOM    140  CA  GLU   140      63.996  -2.428  30.764  1.00  0.00              
TER                                                                             
END
