
#######################################################
#                                                     #
#                        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  147 (  147),  selected  147 , name T0373TS168_3
# Molecule2: number of CA atoms  140 ( 1047),  selected  140 , name T0373.pdb
# PARAMETERS: T0373TS168_3.T0373.pdb  -4  -ie  -o1  -sia  -d:5  
# Search for Atom-Atom correspondence
# Structure alignment analysis 

#      Molecule1      Molecule2       DISTANCE
LGA    M       1      P       2          3.532
LGA    P       2      T       3          1.982
LGA    T       3      N       4          1.736
LGA    -       -      Q       5           -
LGA    -       -      D       6           -
LGA    -       -      L       7           -
LGA    N       4      Q       8          1.209
LGA    Q       5      L       9          1.396
LGA    D       6      A      10          1.140
LGA    L       7      A      11          0.762
LGA    Q       8      H      12          1.073
LGA    L       9      L      13          1.065
LGA    A      10      R      14          1.088
LGA    A      11      S      15          1.296
LGA    H      12      Q      16          0.905
LGA    L      13      V      17          1.493
LGA    R      14      T      18          1.972
LGA    S      15      T      19          1.612
LGA    Q      16      L      20          1.106
LGA    V      17      T      21          1.630
LGA    T      18      R      22          2.321
LGA    T      19      R      23          1.907
LGA    L      20      L      24          0.906
LGA    T      21      R      25          2.089
LGA    R      22      R      26          2.880
LGA    R      23      E      27          1.637
LGA    L      24      A      28          1.243
LGA    R      25      Q      29          2.305
LGA    R      26      -       -           -
LGA    E      27      -       -           -
LGA    A      28      -       -           -
LGA    Q      29      -       -           -
LGA    A      30      -       -           -
LGA    D      31      -       -           -
LGA    P      32      -       -           -
LGA    V      33      -       -           -
LGA    Q      34      -       -           -
LGA    F      35      A      30          4.448
LGA    S      36      D      31           -
LGA    Q      37      -       -           -
LGA    L      38      P      32           #
LGA    V      39      -       -           -
LGA    V      40      -       -           -
LGA    L      41      -       -           -
LGA    G      42      -       -           -
LGA    A      43      -       -           -
LGA    I      44      -       -           -
LGA    D      45      -       -           -
LGA    R      46      -       -           -
LGA    L      47      -       -           -
LGA    G      48      -       -           -
LGA    G      49      -       -           -
LGA    D      50      -       -           -
LGA    V      51      -       -           -
LGA    T      52      -       -           -
LGA    P      53      -       -           -
LGA    S      54      -       -           -
LGA    E      55      -       -           -
LGA    L      56      -       -           -
LGA    A      57      -       -           -
LGA    A      58      -       -           -
LGA    A      59      -       -           -
LGA    E      60      -       -           -
LGA    R      61      -       -           -
LGA    M      62      -       -           -
LGA    R      63      -       -           -
LGA    S      64      V      33          2.655
LGA    S      65      -       -           -
LGA    N      66      Q      34           #
LGA    L      67      F      35          3.793
LGA    A      68      S      36          2.480
LGA    A      69      Q      37          2.979
LGA    L      70      L      38          3.515
LGA    L      71      V      39          2.795
LGA    R      72      V      40          1.808
LGA    E      73      L      41          2.455
LGA    L      74      G      42          3.673
LGA    E      75      A      43          3.329
LGA    R      76      I      44          2.189
LGA    G      77      D      45          4.777
LGA    -       -      R      46           -
LGA    -       -      L      47           -
LGA    -       -      G      48           -
LGA    -       -      G      49           -
LGA    -       -      D      50           -
LGA    -       -      V      51           -
LGA    -       -      T      52           -
LGA    G      78      P      53           #
LGA    L      79      S      54           -
LGA    -       -      E      55           -
LGA    -       -      L      56           -
LGA    -       -      A      57           -
LGA    -       -      A      58           -
LGA    -       -      A      59           -
LGA    I      80      E      60          4.611
LGA    V      81      R      61           -
LGA    R      82      M      62           #
LGA    -       -      R      63           -
LGA    -       -      S      64           -
LGA    -       -      S      65           -
LGA    -       -      N      66           -
LGA    H      83      L      67          3.702
LGA    -       -      A      68           -
LGA    -       -      A      69           -
LGA    -       -      L      70           -
LGA    A      84      L      71          3.664
LGA    -       -      R      72           -
LGA    -       -      E      73           -
LGA    -       -      L      74           -
LGA    -       -      E      75           -
LGA    -       -      R      76           -
LGA    -       -      G      77           -
LGA    -       -      G      78           -
LGA    -       -      L      79           -
LGA    D      85      I      80          5.209
LGA    P      86      V      81          1.563
LGA    -       -      R      82           -
LGA    -       -      H      83           -
LGA    -       -      A      84           -
LGA    -       -      D      85           -
LGA    -       -      P      86           -
LGA    -       -      R      91           -
LGA    -       -      T      92           -
LGA    -       -      R      93           -
LGA    -       -      V      94           -
LGA    -       -      S      95           -
LGA    Q      87      L      96          4.912
LGA    D      88      S      97          3.119
LGA    -       -      S      98           -
LGA    -       -      E      99           -
LGA    G      89      G     100          1.233
LGA    -       -      R     101           -
LGA    R      90      R     102           #
LGA    R      91      N     103           #
LGA    T      92      L     104           #
LGA    R      93      -       -           -
LGA    V      94      -       -           -
LGA    S      95      -       -           -
LGA    L      96      -       -           -
LGA    S      97      -       -           -
LGA    S      98      -       -           -
LGA    E      99      -       -           -
LGA    G     100      -       -           -
LGA    R     101      -       -           -
LGA    R     102      -       -           -
LGA    N     103      -       -           -
LGA    L     104      -       -           -
LGA    Y     105      -       -           -
LGA    G     106      -       -           -
LGA    N     107      -       -           -
LGA    R     108      -       -           -
LGA    A     109      -       -           -
LGA    K     110      -       -           -
LGA    R     111      Y     105           #
LGA    E     112      G     106           -
LGA    E     113      N     107           -
LGA    W     114      R     108           -
LGA    L     115      -       -           -
LGA    V     116      -       -           -
LGA    R     117      -       -           -
LGA    A     118      -       -           -
LGA    M     119      -       -           -
LGA    H     120      -       -           -
LGA    A     121      -       -           -
LGA    C     122      -       -           -
LGA    L     123      -       -           -
LGA    D     124      -       -           -
LGA    E     125      -       -           -
LGA    S     126      -       -           -
LGA    E     127      A     109          4.127
LGA    R     128      K     110           -
LGA    A     129      R     111           -
LGA    L     130      E     112          3.274
LGA    L     131      E     113           -
LGA    A     132      W     114           -
LGA    -       -      L     115           -
LGA    A     133      V     116           #
LGA    A     134      R     117           -
LGA    G     135      A     118           -
LGA    -       -      M     119           -
LGA    -       -      H     120           -
LGA    -       -      A     121           -
LGA    -       -      C     122           -
LGA    -       -      L     123           -
LGA    -       -      D     124           -
LGA    -       -      E     125           -
LGA    -       -      S     126           -
LGA    -       -      E     127           -
LGA    -       -      R     128           -
LGA    -       -      A     129           -
LGA    -       -      L     130           -
LGA    P     136      L     131           #
LGA    L     137      A     132          4.939
LGA    L     138      -       -           -
LGA    T     139      A     133          4.110
LGA    R     140      A     134          1.769
LGA    L     141      G     135          3.202
LGA    A     142      P     136          3.791
LGA    Q     143      L     137           #
LGA    F     144      L     138           -
LGA    E     145      T     139           -
LGA    E     146      -       -           -
LGA    P     147      R     140           #
LGA    -       -      L     141           -
LGA    -       -      A     142           -
LGA    -       -      Q     143           -
LGA    -       -      F     144           -
LGA    -       -      E     145           -

#              N1   N2   DIST      N    RMSD   Seq_Id      LGA_S     LGA_Q 
SUMMARY(LGA)  147  140    5.0     53    2.83     9.43     25.528     1.811

Unitary ROTATION matrix and the shift VECTOR superimpose MOLECULES  (1=>2)
  X_new =   0.986588 * X  +   0.161435 * Y  +   0.024150 * Z  +  48.107903
  Y_new =   0.133778 * X  +  -0.884443 * Y  +   0.447061 * Z  +   2.601927
  Z_new =   0.093530 * X  +  -0.437834 * Y  +  -0.894177 * Z  +  57.199883 

Euler angles from the ROTATION matrix (XYZ convention, two solutions)
  Psi   =  -2.686259    0.455333  [ DEG:  -153.9113     26.0887 ]
  Theta =  -0.093667   -3.047925  [ DEG:    -5.3667   -174.6333 ]
  Phi   =   0.134775   -3.006818  [ DEG:     7.7220   -172.2780 ]
 
# 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: T0373TS168_3                                  
REMARK     2: T0373.pdb                                     
REMARK   Structure alignment analysis
REMARK   Search for Atom-Atom correspondence
REMARK   LGA parameters: T0373TS168_3.T0373.pdb -4 -ie -o1 -sia -d:5 
REMARK   #CA        N1   N2  DIST    N   RMSD  Seq_Id   LGA_S
REMARK   SUMMARY:  147  140   5.0   53   2.83    9.43  25.528
REMARK  ---------------------------------------------------------- 
MOLECULE T0373TS168_3
PFRMAT TS
TARGET T0373
MODEL 3
PARENT N/A
ATOM      1  CA  MET     1      75.822  -3.517  62.866  1.00 25.00           C
ATOM      2  CA  PRO     2      76.236  -0.154  64.646  1.00 25.00           C
ATOM      3  CA  THR     3      74.571   1.870  67.461  1.00 25.00           C
ATOM      4  CA  ASN     4      71.964   4.551  66.631  1.00 25.00           C
ATOM      5  CA  GLN     5      71.019   4.409  62.923  1.00 25.00           C
ATOM      6  CA  ASP     6      68.054   2.126  63.740  1.00 25.00           C
ATOM      7  CA  LEU     7      66.913   4.549  66.477  1.00 25.00           C
ATOM      8  CA  GLN     8      67.158   7.477  64.023  1.00 25.00           C
ATOM      9  CA  LEU     9      65.098   5.526  61.450  1.00 25.00           C
ATOM     10  CA  ALA    10      62.452   4.762  64.111  1.00 25.00           C
ATOM     11  CA  ALA    11      62.314   8.467  65.072  1.00 25.00           C
ATOM     12  CA  HIS    12      61.891   9.431  61.390  1.00 25.00           C
ATOM     13  CA  LEU    13      59.060   6.879  61.021  1.00 25.00           C
ATOM     14  CA  ARG    14      57.349   8.289  64.145  1.00 25.00           C
ATOM     15  CA  SER    15      57.659  11.839  62.741  1.00 25.00           C
ATOM     16  CA  GLN    16      56.145  10.684  59.419  1.00 25.00           C
ATOM     17  CA  VAL    17      53.245   9.023  61.289  1.00 25.00           C
ATOM     18  CA  THR    18      52.650  12.242  63.275  1.00 25.00           C
ATOM     19  CA  THR    19      52.640  14.273  60.028  1.00 25.00           C
ATOM     20  CA  LEU    20      50.123  11.836  58.482  1.00 25.00           C
ATOM     21  CA  THR    21      47.890  12.139  61.580  1.00 25.00           C
ATOM     22  CA  ARG    22      48.066  15.959  61.363  1.00 25.00           C
ATOM     23  CA  ARG    23      47.121  15.817  57.654  1.00 25.00           C
ATOM     24  CA  LEU    24      44.157  13.534  58.471  1.00 25.00           C
ATOM     25  CA  ARG    25      43.015  15.956  61.209  1.00 25.00           C
ATOM     26  CA  ARG    26      43.259  18.885  58.754  1.00 25.00           C
ATOM     27  CA  GLU    27      41.200  16.933  56.182  1.00 25.00           C
ATOM     28  CA  ALA    28      38.306  19.461  56.378  1.00 25.00           C
ATOM     29  CA  GLN    29      36.014  20.524  59.184  1.00 25.00           C
ATOM     30  CA  ALA    30      34.002  18.000  61.301  1.00 25.00           C
ATOM     31  CA  ASP    31      33.305  14.667  59.534  1.00 25.00           C
ATOM     32  CA  PRO    32      35.987  12.095  59.048  1.00 25.00           C
ATOM     33  CA  VAL    33      38.415   9.123  58.779  1.00 25.00           C
ATOM     34  CA  GLN    34      39.049   8.607  62.493  1.00 25.00           C
ATOM     35  CA  PHE    35      42.618   8.006  61.321  1.00 25.00           C
ATOM     36  CA  SER    36      43.534   4.546  59.959  1.00 25.00           C
ATOM     37  CA  GLN    37      47.205   5.604  59.674  1.00 25.00           C
ATOM     38  CA  LEU    38      47.140   6.887  63.281  1.00 25.00           C
ATOM     39  CA  VAL    39      45.619   3.575  64.459  1.00 25.00           C
ATOM     40  CA  VAL    40      48.338   1.634  62.589  1.00 25.00           C
ATOM     41  CA  LEU    41      51.041   3.812  64.206  1.00 25.00           C
ATOM     42  CA  GLY    42      49.510   3.189  67.660  1.00 25.00           C
ATOM     43  CA  ALA    43      49.465  -0.581  66.989  1.00 25.00           C
ATOM     44  CA  ILE    44      53.139  -0.458  65.914  1.00 25.00           C
ATOM     45  CA  ASP    45      54.034   1.461  69.105  1.00 25.00           C
ATOM     46  CA  ARG    46      52.177  -1.137  71.217  1.00 25.00           C
ATOM     47  CA  LEU    47      53.346  -4.671  70.797  1.00 25.00           C
ATOM     48  CA  GLY    48      53.388  -5.722  74.434  1.00 25.00           C
ATOM     49  CA  GLY    49      51.382  -8.808  73.369  1.00 25.00           C
ATOM     50  CA  ASP    50      53.025  -9.832  70.074  1.00 25.00           C
ATOM     51  CA  VAL    51      50.878  -7.707  67.669  1.00 25.00           C
ATOM     52  CA  THR    52      47.433  -6.245  68.396  1.00 25.00           C
ATOM     53  CA  PRO    53      43.850  -5.618  69.513  1.00 25.00           C
ATOM     54  CA  SER    54      44.214  -4.960  73.269  1.00 25.00           C
ATOM     55  CA  GLU    55      47.719  -3.524  72.701  1.00 25.00           C
ATOM     56  CA  LEU    56      46.367  -1.255  69.929  1.00 25.00           C
ATOM     57  CA  ALA    57      43.562  -0.054  72.243  1.00 25.00           C
ATOM     58  CA  ALA    58      46.118   0.684  74.998  1.00 25.00           C
ATOM     59  CA  ALA    59      48.265   2.652  72.511  1.00 25.00           C
ATOM     60  CA  GLU    60      45.194   4.654  71.405  1.00 25.00           C
ATOM     61  CA  ARG    61      42.522   5.059  74.053  1.00 25.00           C
ATOM     62  CA  MET    62      39.888   2.314  74.385  1.00 25.00           C
ATOM     63  CA  ARG    63      37.529   4.850  72.849  1.00 25.00           C
ATOM     64  CA  SER    64      39.651   4.214  69.737  1.00 25.00           C
ATOM     65  CA  SER    65      37.447   1.128  69.208  1.00 25.00           C
ATOM     66  CA  ASN    66      35.323   3.050  66.666  1.00 25.00           C
ATOM     67  CA  LEU    67      38.491   4.155  64.819  1.00 25.00           C
ATOM     68  CA  ALA    68      39.740   0.535  64.743  1.00 25.00           C
ATOM     69  CA  ALA    69      36.363  -0.626  63.358  1.00 25.00           C
ATOM     70  CA  LEU    70      36.512   2.084  60.656  1.00 25.00           C
ATOM     71  CA  LEU    71      40.062   0.991  59.720  1.00 25.00           C
ATOM     72  CA  ARG    72      38.904  -2.653  59.488  1.00 25.00           C
ATOM     73  CA  GLU    73      35.982  -1.608  57.245  1.00 25.00           C
ATOM     74  CA  LEU    74      38.379   0.360  54.997  1.00 25.00           C
ATOM     75  CA  GLU    75      40.694  -2.682  54.763  1.00 25.00           C
ATOM     76  CA  ARG    76      37.718  -4.907  53.833  1.00 25.00           C
ATOM     77  CA  GLY    77      40.052  -7.621  55.256  1.00 25.00           C
ATOM     78  CA  GLY    78      40.295  -7.785  59.083  1.00 25.00           C
ATOM     79  CA  LEU    79      43.309  -5.493  58.640  1.00 25.00           C
ATOM     80  CA  ILE    80      45.050  -3.943  61.695  1.00 25.00           C
ATOM     81  CA  VAL    81      41.908  -4.105  63.832  1.00 25.00           C
ATOM     82  CA  ARG    82      39.296  -4.421  66.590  1.00 25.00           C
ATOM     83  CA  HIS    83      36.790  -5.656  64.051  1.00 25.00           C
ATOM     84  CA  ALA    84      33.636  -6.882  62.406  1.00 25.00           C
ATOM     85  CA  ASP    85      30.462  -6.453  60.378  1.00 25.00           C
ATOM     86  CA  PRO    86      28.469  -4.721  57.686  1.00 25.00           C
ATOM     87  CA  GLN    87      28.285  -1.488  55.614  1.00 25.00           C
ATOM     88  CA  ASP    88      30.184   1.798  55.047  1.00 25.00           C
ATOM     89  CA  GLY    89      33.529   3.610  55.075  1.00 25.00           C
ATOM     90  CA  ARG    90      37.112   4.774  55.777  1.00 25.00           C
ATOM     91  CA  ARG    91      40.907   4.442  55.701  1.00 25.00           C
ATOM     92  CA  THR    92      43.903   2.184  55.277  1.00 25.00           C
ATOM     93  CA  ARG    93      44.891  -0.061  58.249  1.00 25.00           C
ATOM     94  CA  VAL    94      48.388  -1.492  58.628  1.00 25.00           C
ATOM     95  CA  SER    95      50.886  -4.174  59.662  1.00 25.00           C
ATOM     96  CA  LEU    96      51.222  -6.383  62.803  1.00 25.00           C
ATOM     97  CA  SER    97      52.652  -9.707  61.608  1.00 25.00           C
ATOM     98  CA  SER    98      51.333 -12.606  59.562  1.00 25.00           C
ATOM     99  CA  GLU    99      47.573 -12.252  58.923  1.00 25.00           C
ATOM    100  CA  GLY   100      47.836  -8.454  59.334  1.00 25.00           C
ATOM    101  CA  ARG   101      50.767  -8.365  56.871  1.00 25.00           C
ATOM    102  CA  ARG   102      48.751 -10.434  54.357  1.00 25.00           C
ATOM    103  CA  ASN   103      45.783  -8.043  54.734  1.00 25.00           C
ATOM    104  CA  LEU   104      48.095  -5.043  54.159  1.00 25.00           C
ATOM    105  CA  TYR   105      49.523  -6.715  51.023  1.00 25.00           C
ATOM    106  CA  GLY   106      45.979  -7.372  49.729  1.00 25.00           C
ATOM    107  CA  ASN   107      45.046  -3.711  50.355  1.00 25.00           C
ATOM    108  CA  ARG   108      48.178  -2.564  48.474  1.00 25.00           C
ATOM    109  CA  ALA   109      47.288  -4.862  45.542  1.00 25.00           C
ATOM    110  CA  LYS   110      43.729  -3.449  45.483  1.00 25.00           C
ATOM    111  CA  ARG   111      45.118   0.119  45.477  1.00 25.00           C
ATOM    112  CA  GLU   112      47.459  -0.771  42.579  1.00 25.00           C
ATOM    113  CA  GLU   113      44.520  -2.270  40.633  1.00 25.00           C
ATOM    114  CA  TRP   114      42.465   0.903  41.248  1.00 25.00           C
ATOM    115  CA  LEU   115      45.381   3.061  40.022  1.00 25.00           C
ATOM    116  CA  VAL   116      45.688   0.900  36.875  1.00 25.00           C
ATOM    117  CA  ARG   117      41.928   1.254  36.235  1.00 25.00           C
ATOM    118  CA  ALA   118      42.191   5.053  36.647  1.00 25.00           C
ATOM    119  CA  MET   119      45.123   5.140  34.184  1.00 25.00           C
ATOM    120  CA  HIS   120      43.106   3.073  31.670  1.00 25.00           C
ATOM    121  CA  ALA   121      40.139   5.464  32.046  1.00 25.00           C
ATOM    122  CA  CYS   122      41.397   8.803  33.324  1.00 25.00           C
ATOM    123  CA  LEU   123      42.924  10.389  36.411  1.00 25.00           C
ATOM    124  CA  ASP   124      41.417  13.702  37.438  1.00 25.00           C
ATOM    125  CA  GLU   125      42.728  12.890  40.926  1.00 25.00           C
ATOM    126  CA  SER   126      43.828  14.006  44.421  1.00 25.00           C
ATOM    127  CA  GLU   127      43.627  10.389  45.665  1.00 25.00           C
ATOM    128  CA  ARG   128      45.725   9.220  42.683  1.00 25.00           C
ATOM    129  CA  ALA   129      48.327  11.932  43.419  1.00 25.00           C
ATOM    130  CA  LEU   130      48.453  10.849  47.090  1.00 25.00           C
ATOM    131  CA  LEU   131      48.937   7.203  46.023  1.00 25.00           C
ATOM    132  CA  ALA   132      51.771   8.242  43.667  1.00 25.00           C
ATOM    133  CA  ALA   133      53.432  10.218  46.497  1.00 25.00           C
ATOM    134  CA  ALA   134      53.149   7.182  48.815  1.00 25.00           C
ATOM    135  CA  GLY   135      54.715   4.951  46.125  1.00 25.00           C
ATOM    136  CA  PRO   136      57.583   7.451  45.685  1.00 25.00           C
ATOM    137  CA  LEU   137      58.150   7.504  49.472  1.00 25.00           C
ATOM    138  CA  LEU   138      58.214   3.676  49.541  1.00 25.00           C
ATOM    139  CA  THR   139      60.754   3.642  46.674  1.00 25.00           C
ATOM    140  CA  ARG   140      62.936   6.172  48.545  1.00 25.00           C
ATOM    141  CA  LEU   141      62.767   4.017  51.707  1.00 25.00           C
ATOM    142  CA  ALA   142      63.772   0.926  49.682  1.00 25.00           C
ATOM    143  CA  GLN   143      66.721   2.845  48.168  1.00 25.00           C
ATOM    144  CA  PHE   144      69.209   2.399  45.363  1.00 25.00           C
ATOM    145  CA  GLU   145      68.567  -0.902  43.484  1.00 25.00           C
ATOM    146  CA  GLU   146      66.464  -3.779  42.194  1.00 25.00           C
ATOM    147  CA  PRO   147      65.737  -5.535  45.459  1.00 25.00           C
TER
END
